Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009150.1 Hibiscus syriacus cultivar Beakdansim tig00112674_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: 343037
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:914 original size:36 final size:36
Alignment explanation
Indices: 851--1129 Score: 280
Period size: 37 Copynumber: 8.0 Consensus size: 36
841 AAAAACATAT
*
851 TATATAGTTTTGAGAACA-TTTTTGAAAATATATAA
1 TATATAGTTTTGAAAACATTTTTTGAAAATATATAA
* *
886 TGTATAGTTTTGAAAACAATTTTTGAAAATATAT-A
1 TATATAGTTTTGAAAACATTTTTTGAAAATATATAA
*
921 -ATATAGTTTTGAAAATA-TTTTTGAAAATATATAA
1 TATATAGTTTTGAAAACATTTTTTGAAAATATATAA
*
955 TATATAGTTTT--AAAC--GTTTTG-AAA-ATAT-A
1 TATATAGTTTTGAAAACATTTTTTGAAAATATATAA
* ****
984 TATATAG-CTTG-ATTTTTTTTTCTGAAAACATATATAA
1 TATATAGTTTTGAAAACATTTTT-TG-AAA-ATATATAA
1021 TATATAGTTTTGAAAACATTTTTTGAAAATGTATATAA
1 TATATAGTTTTGAAAACATTTTTTGAAAA--TATATAA
* *
1059 TATATAG-TTTGAAAACTTTTTTTGAAATGTATATAA
1 TATATAGTTTTGAAAACATTTTTTGAAA-ATATATAA
* *
1095 TATATAGTTTTGAAAACATTTTTTCAAAACATATA
1 TATATAGTTTTGAAAACATTTTTTGAAAATATATA
1130 TAGTTTGAAT
Statistics
Matches: 204, Mismatches: 22, Indels: 35
0.78 0.08 0.13
Matches are distributed among these distances:
28 2 0.01
29 9 0.04
30 4 0.02
31 6 0.03
32 7 0.03
33 18 0.09
34 18 0.09
35 28 0.14
36 39 0.19
37 48 0.24
38 19 0.09
39 6 0.03
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.45
Consensus pattern (36 bp):
TATATAGTTTTGAAAACATTTTTTGAAAATATATAA
Found at i:944 original size:12 final size:12
Alignment explanation
Indices: 893--950 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
883 TAATGTATAG
*
893 TTTTGAAAACAAT
1 TTTTGAAAA-TAT
906 TTTTGAAAATA-
1 TTTTGAAAATAT
* * *
917 -TAT-AATATAG
1 TTTTGAAAATAT
927 TTTTGAAAATAT
1 TTTTGAAAATAT
939 TTTTGAAAATAT
1 TTTTGAAAATAT
951 ATAATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
9 5 0.14
10 2 0.06
11 2 0.06
12 18 0.50
13 9 0.25
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (12 bp):
TTTTGAAAATAT
Found at i:1044 original size:135 final size:134
Alignment explanation
Indices: 869--1200 Score: 376
Period size: 135 Copynumber: 2.5 Consensus size: 134
859 TTTGAGAACA
* *
869 TTTTTGAAAATATATAATGTATAGTTTTGAAAACAATTTTTGAAAA-TATATAATATAGTTTTGA
1 TTTTTGAACATATATAATATATAGTTTTGAAAAC-ATTTTTGAAAACTATATAATATAGTTTTGA
*
933 AAA-TATTTTTGAAA-ATATATAATATATAGTTTT-AAAC-GTTTTGAAAATATATATATAGCTT
65 AAACTATTTTTGAAATATATATAATATATAGTTTTAAAACAGTTTTGAAAA-ACATATATAGCTT
*
994 GATTTTT
129 GA-ATTT
*
1001 TTTTCTGAAAACATATATAATATATAGTTTTGAAAACATTTTTTGAAAATGTATATAATATA-TA
1 TTTT-TG--AACATATATAATATATAGTTTTGAAAACA-TTTTTGAAAA-CTATATAATATAGT-
* * * **
1065 GTTTGAAAACTTTTTTTGAAATGTATATAATATATAGTTTTGAAAACATTTTTTCAAAACATATA
60 -TTTGAAAACTATTTTTGAAATATATATAATATATAGTTTT-AAAACAGTTTTGAAAAACATATA
*
1130 TAGTTTGAATTT
123 TAGCTTGAATTT
* * *
1142 TTTTTGAACATACAT-ATATATAGTTTT-TAAATATTTTTGAAAACT-TATAATATAGTTTT
1 TTTTTGAACATATATAATATATAGTTTTGAAAACATTTTTGAAAACTATATAATATAGTTTT
1201 TTTAAAATGA
Statistics
Matches: 172, Mismatches: 14, Indels: 28
0.80 0.07 0.13
Matches are distributed among these distances:
132 7 0.04
133 11 0.06
134 3 0.02
135 46 0.27
136 5 0.03
137 23 0.13
138 16 0.09
139 10 0.06
140 20 0.12
141 7 0.04
142 17 0.10
143 7 0.04
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (134 bp):
TTTTTGAACATATATAATATATAGTTTTGAAAACATTTTTGAAAACTATATAATATAGTTTTGAA
AACTATTTTTGAAATATATATAATATATAGTTTTAAAACAGTTTTGAAAAACATATATAGCTTGA
ATTT
Found at i:1130 original size:38 final size:38
Alignment explanation
Indices: 999--1131 Score: 171
Period size: 38 Copynumber: 3.5 Consensus size: 38
989 AGCTTGATTT
999 TTTTTTCTGAAAACATATATAATATATAGTTTTGAAAACA
1 TTTTTTC--AAAACATATATAATATATAGTTTTGAAAACA
* **
1039 TTTTTTGAAAATGTATATAATATATAG-TTTGAAAAC-
1 TTTTTTCAAAACATATATAATATATAGTTTTGAAAACA
** **
1075 TTTTTTTGAAATGTATATAATATATAGTTTTGAAAACA
1 TTTTTTCAAAACATATATAATATATAGTTTTGAAAACA
1113 TTTTTTCAAAACATATATA
1 TTTTTTCAAAACATATATA
1132 GTTTGAATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.30
37 18 0.22
38 33 0.40
40 6 0.07
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.45
Consensus pattern (38 bp):
TTTTTTCAAAACATATATAATATATAGTTTTGAAAACA
Found at i:1179 original size:34 final size:31
Alignment explanation
Indices: 1094--1201 Score: 87
Period size: 32 Copynumber: 3.4 Consensus size: 31
1084 AATGTATATA
* * *
1094 ATATATAGTTTTGAAAACATTTTTTCAAAAC--
1 ATATATAGTTTT-TAAATA-TTTTTGAAAACAT
* * *
1125 ATATATAG-TTTGAATTTTTTTTGAACATACAT
1 ATATATAGTTTTTAAATATTTTTGAA-A-ACAT
*
1157 ATATATAGTTTTTAAATATTTTTGAAAACTT
1 ATATATAGTTTTTAAATATTTTTGAAAACAT
1188 ATAATATAGTTTTT
1 AT-ATATAGTTTTT
1202 TTAAAATGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
28 7 0.11
29 3 0.05
30 5 0.08
31 13 0.21
32 20 0.32
33 14 0.23
ACGTcount: A:0.38, C:0.06, G:0.07, T:0.49
Consensus pattern (31 bp):
ATATATAGTTTTTAAATATTTTTGAAAACAT
Found at i:1300 original size:7 final size:7
Alignment explanation
Indices: 1290--1327 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
1280 TTATTGTTTA
1290 TATTATT
1 TATTATT
1297 TATTATT
1 TATTATT
1304 TATT-TT
1 TATTATT
1310 CT-TTATT
1 -TATTATT
1317 TATTATT
1 TATTATT
1324 TATT
1 TATT
1328 TTTTCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
6 5 0.18
7 23 0.82
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTATT
Found at i:1338 original size:20 final size:20
Alignment explanation
Indices: 1292--1329 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1282 ATTGTTTATA
1292 TTATTTATTATTTATTTTCT
1 TTATTTATTATTTATTTTCT
1312 TTATTTATTATTTATTTT
1 TTATTTATTATTTATTTT
1330 TTCTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (20 bp):
TTATTTATTATTTATTTTCT
Found at i:2439 original size:10 final size:10
Alignment explanation
Indices: 2415--2464 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
2405 TTTGAATGTT
*
2415 ATTTTATTTC
1 ATTTTATTTA
*
2425 TTTTTATTTA
1 ATTTTATTTA
2435 ATTTTAATTTA
1 ATTTT-ATTTA
*
2446 ATTTAATTTA
1 ATTTTATTTA
*
2456 ATTTAATTT
1 ATTTTATTT
2465 TTATTTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 26 0.74
11 9 0.26
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
ATTTTATTTA
Found at i:2461 original size:15 final size:16
Alignment explanation
Indices: 2430--2464 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
2420 ATTTCTTTTT
2430 ATTTAATTTTAATTTA
1 ATTTAATTTTAATTTA
2446 ATTTAA-TTTAATTTA
1 ATTTAATTTTAATTTA
2461 ATTT
1 ATTT
2465 TTATTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTAATTTTAATTTA
Found at i:3515 original size:17 final size:18
Alignment explanation
Indices: 3493--3526 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3483 TTTTACTAAC
3493 TTGTTTT-TTTCATCTTT
1 TTGTTTTCTTTCATCTTT
*
3510 TTGTTTTCTTTTATCTT
1 TTGTTTTCTTTCATCTT
3527 ATCATTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (18 bp):
TTGTTTTCTTTCATCTTT
Found at i:13994 original size:21 final size:21
Alignment explanation
Indices: 13965--14017 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13955 ATTCTGACTA
13965 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
13986 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
14007 TCGCAATGCGA
1 TCGCATTGCGA
14018 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:14053 original size:41 final size:40
Alignment explanation
Indices: 14007--14109 Score: 134
Period size: 41 Copynumber: 2.5 Consensus size: 40
13997 TTTTCCTAAT
* * **
14007 TCGCAATGCGAATACGTAAATCACAACGTGAATTTGGAAAA
1 TCGCAATGCGATTACGTAAATCACAACGCGAA-TACGAAAA
* * *
14048 TCGCAATGCGATTACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAATCACAACGCGAATACGAAAA
14088 TCGCAATGCGATTACGTAAATC
1 TCGCAATGCGATTACGTAAATC
14110 GCAATGCAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
40 27 0.49
41 28 0.51
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCACAACGCGAATACGAAAA
Found at i:14070 original size:20 final size:20
Alignment explanation
Indices: 14007--14116 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
13997 TTTTCCTAAT
*
14007 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
* * * ** *
14027 TCACAACGTGAATTTGGAAAA
1 TCGCAATGCG-ATTACGTAAA
14048 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
*
14068 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAA
14088 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
14108 TCGCAATGC
1 TCGCAATGC
14117 AAATACATAT
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
20 61 0.82
21 13 0.18
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:15016 original size:24 final size:24
Alignment explanation
Indices: 14989--15042 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
14979 GTATTCGAAA
14989 TTTGATCTTGGTCAATACACGGAC
1 TTTGATCTTGGTCAATACACGGAC
* *
15013 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACACGGAC
15037 TTTGAT
1 TTTGAT
15043 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACACGGAC
Found at i:15251 original size:15 final size:14
Alignment explanation
Indices: 15233--15268 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
15223 GAAAAAGAAG
15233 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
15248 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
15262 AAGAAAA
1 AAGAAAA
15269 TGCCACGGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:17581 original size:20 final size:19
Alignment explanation
Indices: 17553--17607 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
17543 CAATCATCTT
*
17553 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
17573 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
17592 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
17608 AGAGAATCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:17595 original size:19 final size:20
Alignment explanation
Indices: 17514--17607 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
17504 GGCATTCATT
*
17514 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* **
17534 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-C-GCGGAAA
*
17555 TGTCTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
17575 TGACTATCGCAATGC-GAAA
1 TGACTATCGCAACGCGGAAA
**
17594 TGAAAATCGCAACG
1 TGACTATCGCAACG
17608 AGAGAATCGT
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.28
20 27 0.47
21 13 0.23
22 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:17627 original size:33 final size:33
Alignment explanation
Indices: 17580--17701 Score: 208
Period size: 33 Copynumber: 3.7 Consensus size: 33
17570 GGAAATGACT
17580 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
17613 ATCGTAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
17646 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
17679 ATCACAAAGCGAAATGAAAATCG
1 ATCGCAATGCGAAATGAAAATCG
17702 TTTTGTCATT
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:17669 original size:19 final size:19
Alignment explanation
Indices: 17560--17671 Score: 91
Period size: 19 Copynumber: 6.4 Consensus size: 19
17550 CTTAATGTCT
* **
17560 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
17580 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
17599 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
17613 ATCGTAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
17632 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
17646 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
17665 ATCGCAA
1 ATCGCAA
17672 CGAGGGAATC
Statistics
Matches: 73, Mismatches: 9, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
14 19 0.26
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 33 0.45
20 9 0.12
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:17776 original size:19 final size:19
Alignment explanation
Indices: 17708--17768 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
17698 ATCGTTTTGT
17708 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
17727 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
17743 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
17760 CATTGCGAT
1 CATTGCGAT
17769 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 6 0.17
16 7 0.20
17 7 0.20
19 15 0.43
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:17894 original size:14 final size:14
Alignment explanation
Indices: 17875--17911 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
17865 CATCAATTAA
17875 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
17889 ACAAATCATCTTTT
1 ACAAATCAACTTTT
17903 ACAAATCAA
1 ACAAATCAA
17912 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:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:19327 original size:21 final size:21
Alignment explanation
Indices: 19261--19327 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
19251 GTGAATCGGG
*
19261 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
19281 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
19303 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
19324 CTCT
1 CTCT
19328 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:19819 original size:19 final size:19
Alignment explanation
Indices: 19779--19866 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
19769 TCTGGAACTT
*
19779 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAACGCG--AAATG
**
19800 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
19819 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
* *
19833 AGAATCGCAATGCGAAATG
1 AAAATCGCAACGCGAAATG
19852 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
19867 TTATAGTTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 27 0.50
21 11 0.20
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:19885 original size:19 final size:19
Alignment explanation
Indices: 19863--19906 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
19853 AAATCGCAAC
19863 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
19882 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
*
19901 CCGATT
1 GCGATT
19907 TTGTCGTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:19907 original size:19 final size:19
Alignment explanation
Indices: 19872--19909 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
19862 CGCGATTATA
*
19872 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTCCGATTTTG
19891 GTTTCGCGTTCCGATTTTG
1 GTTTCGCGTTCCGATTTTG
19910 TCGTTGTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.05, C:0.18, G:0.29, T:0.47
Consensus pattern (19 bp):
GTTTCGCGTTCCGATTTTG
Found at i:19963 original size:19 final size:19
Alignment explanation
Indices: 19922--19978 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
19912 GTTGTGATTT
* * *
19922 TCATTTCGCGTTGCGAAAT
1 TCATTTCACGTTGCGATAG
19941 TCATTTCACGTTGCGATAG
1 TCATTTCACGTTGCGATAG
19960 TCATTTTTCACGTTGCGAT
1 TCA--TTTCACGTTGCGAT
19979 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 19 0.58
21 14 0.42
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.40
Consensus pattern (19 bp):
TCATTTCACGTTGCGATAG
Found at i:20194 original size:94 final size:94
Alignment explanation
Indices: 20048--20427 Score: 577
Period size: 94 Copynumber: 4.1 Consensus size: 94
20038 ATGGATTGCA
* * * *
20048 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCAGAGTATTAAAGAATATACAGT
1 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAAT
*
20112 TTAGCAGAATTGGAAGCAACCGAACAAAT
66 TTAGCAGAATTGGAAGCAACCGAATAAAT
* * *
20141 TTACTTTCAACCAAAAGATAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
1 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAA
*
20205 TTTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGAAGCAACCGAATAAAT
20235 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAAT
1 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAAT
* *
20300 TTAGTAGTATT-GACAGCAACCGAATAAAT
66 TTAGCAGAATTGGA-AGCAACCGAATAAAT
* * *
20329 TTACTTCAACCAAAAGACAAAACAAAAGACCAATACTAACTTCATAATGTTAAAGAATAAACAAT
1 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAAT
* *
20394 TTAGCAGTATTGGCAGCAACCGAATAAAT
66 TTAGCAGAATTGGAAGCAACCGAATAAAT
20423 TTACT
1 TTACT
20428 AAGCAATCTA
Statistics
Matches: 266, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
93 23 0.09
94 242 0.91
95 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (94 bp):
TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAAT
TTAGCAGAATTGGAAGCAACCGAATAAAT
Found at i:22154 original size:20 final size:20
Alignment explanation
Indices: 22131--22186 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
22121 TGAAATGAAA
22131 ATCGCAACGAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
22151 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
*
22171 ATCGCAATGAGAGAAT
1 ATCGCAACGAGAGAAT
22187 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:22168 original size:40 final size:35
Alignment explanation
Indices: 22122--22248 Score: 100
Period size: 33 Copynumber: 3.6 Consensus size: 35
22112 TCTTTTGGTT
22122 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A-GA--ATCGCAACGC
** *
22161 GGAAATGACTATCGCAA--TGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
* * * *
22195 GAAATTAAAATCGCAAC--GAGATATTCGCAACGA
1 GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
* *
22228 GAAATTAAAATCGTAACGAGA
1 GAAATGAAAATCGCAACGAGA
22249 ATTAAAAATC
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
33 42 0.57
34 10 0.14
35 2 0.03
36 2 0.03
37 1 0.01
38 3 0.04
40 14 0.19
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
Found at i:22208 original size:19 final size:19
Alignment explanation
Indices: 22184--22267 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
22174 GCAATGAGAG
22184 AATCGCAACGCGAAATTAA
1 AATCGCAACGCGAAATTAA
*
22203 AATCGCAA--CGAGA-T--
1 AATCGCAACGCGAAATTAA
* *
22217 ATTCGCAACGAGAAATTAA
1 AATCGCAACGCGAAATTAA
* *
22236 AATCGTAACGAG-AATTAAA
1 AATCGCAACGCGAAATT-AA
*
22255 AATCGCAATGCGA
1 AATCGCAACGCGA
22268 TTTTGGTTTC
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
14 7 0.14
16 4 0.08
17 5 0.10
18 4 0.08
19 29 0.59
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.18
Consensus pattern (19 bp):
AATCGCAACGCGAAATTAA
Found at i:22208 original size:33 final size:33
Alignment explanation
Indices: 22151--22248 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 33
22141 GAGAATGACT
* ** *
22151 ATCGCAACGCGGAAATGACTATCGCAATGAGAGA
1 ATCGCAACGC-GAAATTAAAATCGCAACGAGAGA
*
22185 ATCGCAACGCGAAATTAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
* * *
22218 TTCGCAACGAGAAATTAAAATCGTAACGAGA
1 ATCGCAACGCGAAATTAAAATCGCAACGAGA
22249 ATTAAAAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 46 0.82
34 10 0.18
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATTAAAATCGCAACGAGAGA
Found at i:22348 original size:40 final size:40
Alignment explanation
Indices: 22290--22381 Score: 98
Period size: 40 Copynumber: 2.3 Consensus size: 40
22280 GTTGCGATTA
* **
22290 TCTCGTTGTGATTTTCA-TTTCGCGTTGCAATTTTCATTT
1 TCTCGTTGCGATAGTCATTTTCGCGTTGCAATTTTCATTT
* **
22329 CTCTCGTTGCGATAGTCATTTTCGTGTTGTGATTTTCATTT
1 -TCTCGTTGCGATAGTCATTTTCGCGTTGCAATTTTCATTT
22370 TCAT-GTTGCGAT
1 TC-TCGTTGCGAT
22382 TTTAAGTTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 24 0.55
41 20 0.45
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.51
Consensus pattern (40 bp):
TCTCGTTGCGATAGTCATTTTCGCGTTGCAATTTTCATTT
Found at i:22367 original size:20 final size:20
Alignment explanation
Indices: 22294--22384 Score: 87
Period size: 20 Copynumber: 4.5 Consensus size: 20
22284 CGATTATCTC
* *
22294 GTTGTGATTTTCA-TTTCGC
1 GTTGCGATTTTCATTTTCGT
*
22313 GTTGCAATTTTCATTTCTC-T
1 GTTGCGATTTTCATTT-TCGT
**
22333 CGTTGCGATAGTCATTTTCGT
1 -GTTGCGATTTTCATTTTCGT
* *
22354 GTTGTGATTTTCATTTTCAT
1 GTTGCGATTTTCATTTTCGT
22374 GTTGCGATTTT
1 GTTGCGATTTT
22385 AAGTTTAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 11 0.19
20 30 0.53
21 16 0.28
ACGTcount: A:0.13, C:0.15, G:0.19, T:0.53
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:22958 original size:20 final size:20
Alignment explanation
Indices: 22935--23052 Score: 155
Period size: 20 Copynumber: 5.8 Consensus size: 20
22925 CGATAGTCAG
22935 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
22955 ATTCGCATTACGATTTTCCT
1 ATTCGCATTGCGATTTACGT
*
22975 AATTCGCATTGTGATTTACGT
1 -ATTCGCATTGCGATTTACGT
*
22996 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * *
23016 AATCGCGTTACGATTTACGT
1 ATTCGCATTGCGATTTACGT
23036 ATTCGCATTGCGATTTA
1 ATTCGCATTGCGATTTA
23053 GGAAAATCAC
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 67 0.81
21 16 0.19
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:22982 original size:41 final size:41
Alignment explanation
Indices: 22935--23052 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
22925 CGATAGTCAG
* *
22935 ATTCGCATTGCGATTTACGTATTCGCATTACGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
* * *
22976 ATTCGCATTGTGATTTACGTATTCGCGTTGCGATTTACGTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
* *
23017 A-TCGCGTTACGATTTACGTATTCGCATTGCGATTTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTA
23053 GGAAAATCAC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 31 0.46
41 37 0.54
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACCTA
Found at i:23012 original size:61 final size:60
Alignment explanation
Indices: 22935--23052 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 60
22925 CGATAGTCAG
* * *
22935 ATTCGCATTGCGATTTACGTATTCGCATTACGATTTTCCTAATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCT-ATTCGCATTGCGATTTACGT
* * *
22996 ATTCGCGTTGCGATTTACGTAATCGCGTTACGATTTACGTATTCGCATTGCGATTTA
1 ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCTATTCGCATTGCGATTTA
23053 GGAAAATCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
60 16 0.31
61 35 0.69
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (60 bp):
ATTCGCATTGCGATTTACGTAATCGCATTACGATTTACCTATTCGCATTGCGATTTACGT
Found at i:23346 original size:37 final size:36
Alignment explanation
Indices: 23300--23616 Score: 300
Period size: 37 Copynumber: 8.8 Consensus size: 36
23290 GATTTTTAAA
* *
23300 AAAACATATAT-TATATAGTTTTGAGAACATTTTTG
1 AAAATATATATATATATAGTTTTGAAAACATTTTTG
*
23335 AAAATATATATATTGTATAGTTTTGAAAACATTTTTCG
1 AAAATATATATA-TATATAGTTTTGAAAACATTTTT-G
* *
23373 AAAATATATATAATATATAGTTTAGAAAATATTTTTG
1 AAAATATATAT-ATATATAGTTTTGAAAACATTTTTG
*
23410 AAAATATATA-ATATATAGTTTT-AAAAC-GTTTTG
1 AAAATATATATATATATAGTTTTGAAAACATTTTTG
*
23443 -AAA-ATATATA-ATATAG-TTTGAAAAAAATATTTTTTG
1 AAAATATATATATATATAGTTTTG---AAAACA-TTTTTG
*
23479 AAAACATATATAATATATAGTTTTGAAAACATTTTTTG
1 AAAATATATAT-ATATATAGTTTTGAAAACA-TTTTTG
**
23517 AAAACGTATATGATATATAG-TTTGAAAACAGTTTTTG
1 AAAATATATAT-ATATATAGTTTTGAAAACA-TTTTTG
* *
23554 AAACGTATATA-ATATATAGTTTTGAAATCATTTTTTG
1 AAA-ATATATATATATATAGTTTTGAAAACA-TTTTTG
**
23591 AAAACGTATATA-ATAT--TTTTGAAAAC
1 AAAATATATATATATATAGTTTTGAAAAC
23617 TTATAATATA
Statistics
Matches: 239, Mismatches: 24, Indels: 39
0.79 0.08 0.13
Matches are distributed among these distances:
30 3 0.01
31 11 0.05
32 4 0.02
33 5 0.02
34 17 0.07
35 21 0.09
36 21 0.09
37 73 0.31
38 72 0.30
39 2 0.01
40 6 0.03
41 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (36 bp):
AAAATATATATATATATAGTTTTGAAAACATTTTTG
Found at i:23392 original size:38 final size:37
Alignment explanation
Indices: 23300--23606 Score: 325
Period size: 38 Copynumber: 8.4 Consensus size: 37
23290 GATTTTTAAA
*
23300 AAAACATATAT--TATATAGTTTTGAGAACATTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACATTTTTG
* * *
23335 AAAATATATATATTGTATAGTTTTGAAAACATTTTTCG
1 AAAACATATATAATATATAGTTTTGAAAACATTTTT-G
* * *
23373 AAAATATATATAATATATAGTTTAGAAAATATTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACATTTTTG
*
23410 -AAA-ATATATAATATATAGTTTT-AAAAC-GTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACATTTTTG
*
23443 -AAA-ATATAT-A-ATATAG-TTTGAAAAAAATATTTTTTG
1 AAAACATATATAATATATAGTTTTG---AAAACA-TTTTTG
23479 AAAACATATATAATATATAGTTTTGAAAACATTTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACA-TTTTTG
* *
23517 AAAACGTATATGATATATAG-TTTGAAAACAGTTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACA-TTTTTG
* *
23554 -AAACGTATATAATATATAGTTTTGAAATCATTTTTTG
1 AAAACATATATAATATATAGTTTTGAAAACA-TTTTTG
*
23591 AAAACGTATATAATAT
1 AAAACATATATAATAT
23607 TTTTGAAAAC
Statistics
Matches: 237, Mismatches: 19, Indels: 29
0.83 0.07 0.10
Matches are distributed among these distances:
30 3 0.01
31 6 0.03
32 1 0.00
33 14 0.06
34 8 0.03
35 28 0.12
36 26 0.11
37 56 0.24
38 84 0.35
39 1 0.00
40 6 0.03
41 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (37 bp):
AAAACATATATAATATATAGTTTTGAAAACATTTTTG
Found at i:23627 original size:21 final size:21
Alignment explanation
Indices: 23585--23625 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23575 TTGAAATCAT
23585 TTTTTGAAAACGTATATAATA
1 TTTTTGAAAACGTATATAATA
23606 TTTTTGAAAAC-T-TATAATA
1 TTTTTGAAAACGTATATAATA
23625 T
1 T
23626 ATAGTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 8 0.40
20 1 0.05
21 11 0.55
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTTTGAAAACGTATATAATA
Found at i:23646 original size:93 final size:95
Alignment explanation
Indices: 23511--23699 Score: 226
Period size: 93 Copynumber: 2.0 Consensus size: 95
23501 TTGAAAACAT
* * * * *
23511 TTTTTGAAAACGTATATGATATATAGTTTGAAAACAGTTTTTG-AAACGTATATAATATATA-GT
1 TTTTTGAAAACGTATATAATATATAGTTTGAAAACAGATTTTGAAAACATATAAAATATAAAGGT
* * *
23574 TTTGAAATCATTTTTTGAAAACGTATATAATA
66 TTTGAAAACA--TTTAGAAAACATATATAATA
* *
23606 TTTTTGAAAAC-T-TATAATATATAGTTTTTAAAA-TGATTTTGAAAACATATAAAATATAAAGG
1 TTTTTGAAAACGTATATAATATATAG-TTTGAAAACAGATTTTGAAAACATATAAAATATAAAGG
23668 TTTTGAAAACATTTAGAAAACATATATAATA
65 TTTTGAAAACATTTAGAAAACATATATAATA
23699 T
1 T
23700 AGTTTTTCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
93 36 0.44
94 23 0.28
95 22 0.27
ACGTcount: A:0.44, C:0.05, G:0.11, T:0.41
Consensus pattern (95 bp):
TTTTTGAAAACGTATATAATATATAGTTTGAAAACAGATTTTGAAAACATATAAAATATAAAGGT
TTTGAAAACATTTAGAAAACATATATAATA
Found at i:23657 original size:35 final size:34
Alignment explanation
Indices: 23607--23706 Score: 103
Period size: 37 Copynumber: 2.8 Consensus size: 34
23597 TATATAATAT
* *
23607 TTTTGAAAACTTATAATATATAGTTTTTAAAATGA
1 TTTTGAAAACATATAATATATAGTTTTTAAAA-CA
* *
23642 TTTTGAAAACATATAAAATATAAAGGTTTTGAAAACA
1 TTTTGAAAACATAT--AATATATA-GTTTTTAAAACA
*
23679 TTTAGAAAACATAT-ATAATATAGTTTTT
1 TTTTGAAAACATATAAT-ATATAGTTTTT
23707 CATTATTATT
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
34 7 0.13
35 17 0.31
37 21 0.39
38 9 0.17
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (34 bp):
TTTTGAAAACATATAATATATAGTTTTTAAAACA
Found at i:24913 original size:10 final size:11
Alignment explanation
Indices: 24898--24952 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
24888 TTGAATGTTA
*
24898 TTTTATTT-CT
1 TTTTATTTAAT
24908 TTTTATTTAAT
1 TTTTATTTAAT
24919 TTTTATTTAATT
1 TTTTATTTAA-T
24931 TAATTTATTTTAAT
1 T--TTTA-TTTAAT
24945 TTTTATTT
1 TTTTATTT
24953 GTTTTATTCT
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
10 8 0.21
11 14 0.36
12 6 0.15
14 6 0.15
15 5 0.13
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (11 bp):
TTTTATTTAAT
Found at i:24933 original size:16 final size:15
Alignment explanation
Indices: 24897--24946 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
24887 TTTGAATGTT
* * *
24897 ATTTTATTTCTTTTT
1 ATTTAATTTATTTTA
*
24912 ATTTAATTTTTATTTA
1 ATTTAATTTAT-TTTA
24928 ATTTAATTTATTTTA
1 ATTTAATTTATTTTA
24943 ATTT
1 ATTT
24947 TTATTTGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
ATTTAATTTATTTTA
Found at i:24952 original size:21 final size:20
Alignment explanation
Indices: 24881--24952 Score: 51
Period size: 20 Copynumber: 3.4 Consensus size: 20
24871 GATTTTACCC
24881 TTTTAGTTTGAATGTTATTTTAT
1 TTTTA-TTT-AAT-TTATTTTAT
24904 TTCTT-TTT-ATTTAATTTT-T
1 TT-TTATTTAATTT-ATTTTAT
*
24923 ATTTAATTTAATTTATTTTAAT
1 -TTTTATTTAATTTATTTT-AT
24945 TTTTATTT
1 TTTTATTT
24953 GTTTTATTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 4 0.10
20 17 0.43
21 11 0.28
22 4 0.10
23 2 0.05
24 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (20 bp):
TTTTATTTAATTTATTTTAT
Found at i:25077 original size:12 final size:12
Alignment explanation
Indices: 25060--25086 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
25050 GAATCGAATC
25060 TTTAAATTTTCA
1 TTTAAATTTTCA
25072 TTTAAATTTTCA
1 TTTAAATTTTCA
25084 TTT
1 TTT
25087 TTGCAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTAAATTTTCA
Found at i:26068 original size:31 final size:31
Alignment explanation
Indices: 26021--26102 Score: 137
Period size: 31 Copynumber: 2.6 Consensus size: 31
26011 TATCTGATCT
26021 ATTTAGTATAATAATGGTCCATAACGTTACCA
1 ATTTAGTATAA-AATGGTCCATAACGTTACCA
* *
26053 ATTTAATATAAAATGGTCCATAACGTTACCG
1 ATTTAGTATAAAATGGTCCATAACGTTACCA
26084 ATTTAGTATAAAATGGTCC
1 ATTTAGTATAAAATGGTCC
26103 CTCAGTTGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 37 0.79
32 10 0.21
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (31 bp):
ATTTAGTATAAAATGGTCCATAACGTTACCA
Found at i:27212 original size:26 final size:26
Alignment explanation
Indices: 27171--27260 Score: 87
Period size: 26 Copynumber: 3.5 Consensus size: 26
27161 TGTTTAAAAT
*
27171 GTGTA-AAAAA-AATAGGATTTAATA
1 GTGTATAAAAACAGTAGGATTTAATA
* * *
27195 GCGTATAAATACAGTAGGGTTTAA-A
1 GTGTATAAAAACAGTAGGATTTAATA
* *
27220 TGTGTATAAAAACTGTTGGATTTAATA
1 -GTGTATAAAAACAGTAGGATTTAATA
27247 GTGTATAAACAACA
1 GTGTATAAA-AACA
27261 ATATATTTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 4 0.08
25 5 0.10
26 38 0.75
27 4 0.08
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (26 bp):
GTGTATAAAAACAGTAGGATTTAATA
Found at i:28049 original size:15 final size:16
Alignment explanation
Indices: 28023--28052 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
28013 ACAAGTTCCA
28023 ATGAATGAAGAACAAT
1 ATGAATGAAGAACAAT
28039 ATGAA-GAAGAACAA
1 ATGAATGAAGAACAA
28053 GTTGCTGCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (16 bp):
ATGAATGAAGAACAAT
Found at i:29701 original size:13 final size:14
Alignment explanation
Indices: 29677--29706 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
29667 TTTAGTAATT
29677 TTAAGATTTTGAAA
1 TTAAGATTTTGAAA
29691 TTAAG-TTTTGAAA
1 TTAAGATTTTGAAA
29704 TTA
1 TTA
29707 CTCCCCCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (14 bp):
TTAAGATTTTGAAA
Found at i:30377 original size:12 final size:12
Alignment explanation
Indices: 30361--30401 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
30351 TTGTTGTGCT
*
30361 TGCTCCTCGGGT
1 TGCTCCTCGGGC
30373 TGCTCCTCGGGC
1 TGCTCCTCGGGC
30385 TGCTCCTCGGGC
1 TGCTCCTCGGGC
30397 TGCTC
1 TGCTC
30402 AGGCTCATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.39, G:0.32, T:0.29
Consensus pattern (12 bp):
TGCTCCTCGGGC
Found at i:39826 original size:24 final size:24
Alignment explanation
Indices: 39799--39846 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
39789 GAACTTGACT
39799 TAGTTTGGCCAAAATCTTTTGTGA
1 TAGTTTGGCCAAAATCTTTTGTGA
** *
39823 TAGTTTGGGGAAACTCTTTTGTGA
1 TAGTTTGGCCAAAATCTTTTGTGA
39847 ATTTATCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (24 bp):
TAGTTTGGCCAAAATCTTTTGTGA
Found at i:40095 original size:22 final size:22
Alignment explanation
Indices: 40067--40115 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
40057 TCATGCACAA
40067 CAATTTAAGCTTAAACAAAAAT
1 CAATTTAAGCTTAAACAAAAAT
* *
40089 CAATTTAAGCTTCAACATAAAT
1 CAATTTAAGCTTAAACAAAAAT
40111 -AATTT
1 CAATTT
40116 TCATTACATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (22 bp):
CAATTTAAGCTTAAACAAAAAT
Found at i:40583 original size:15 final size:15
Alignment explanation
Indices: 40565--40610 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
40555 CCATTCTTTT
*
40565 TTTTTCCGTCTCTTC
1 TTTTTCTGTCTCTTC
*
40580 TTTTTTTGTCTCTTC
1 TTTTTCTGTCTCTTC
* *
40595 TTCTTGTGTCTCTTC
1 TTTTTCTGTCTCTTC
40610 T
1 T
40611 CCCTCGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.09, T:0.65
Consensus pattern (15 bp):
TTTTTCTGTCTCTTC
Found at i:40959 original size:20 final size:19
Alignment explanation
Indices: 40934--41048 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 19
40924 AATTGGGAAA
40934 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACT-ACT
*
40954 ATCGCAATGTGATACTTACT
1 ATCGCAATGCGATAC-TACT
* *
40974 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTAC--T
* *
40995 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACT-ACT
* *
41015 TTCGCAATGCGATAATACAT
1 ATCGCAATGCGATACTAC-T
41035 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
41049 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
19 5 0.07
20 43 0.57
21 26 0.34
22 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (19 bp):
ATCGCAATGCGATACTACT
Found at i:40999 original size:41 final size:41
Alignment explanation
Indices: 40954--41044 Score: 137
Period size: 41 Copynumber: 2.2 Consensus size: 41
40944 GATACTGACT
* *
40954 ATCGCAATGTGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGAGATACTGACTATCGCAATGCGATAATACAAA
* * *
40995 ATCGCAACGAGATACTGACTTTCGCAATGCGATAATACATA
1 ATCGCAATGAGATACTGACTATCGCAATGCGATAATACAAA
41036 ATCGCAATG
1 ATCGCAATG
41045 CGATTTTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.25
Consensus pattern (41 bp):
ATCGCAATGAGATACTGACTATCGCAATGCGATAATACAAA
Found at i:42863 original size:14 final size:14
Alignment explanation
Indices: 42844--42879 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
42834 ATTGTTTAAT
42844 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
42858 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
42872 TGATTTGT
1 TGATTTGT
42880 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:42987 original size:20 final size:20
Alignment explanation
Indices: 42962--43000 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
42952 ATGTTGAAGG
42962 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
42982 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
43001 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:43088 original size:19 final size:20
Alignment explanation
Indices: 43064--43113 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
43054 CGATTTTTGT
43064 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
43083 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
43103 CGTTGCGATAG
1 CGTTGCGATAG
43114 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:43351 original size:20 final size:20
Alignment explanation
Indices: 43326--43376 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
43316 AAATGATTGC
43326 CTTTCGCAACGCGATTCTGA
1 CTTTCGCAACGCGATTCTGA
*
43346 CTTTCGCAACGTGATTCTGA
1 CTTTCGCAACGCGATTCTGA
43366 CTTTCGCAACG
1 CTTTCGCAACG
43377 AGATAATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (20 bp):
CTTTCGCAACGCGATTCTGA
Found at i:44149 original size:24 final size:24
Alignment explanation
Indices: 44122--44175 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
44112 GTATTCGAAA
*
44122 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
44146 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
44170 TTTGAT
1 TTTGAT
44176 GATGTTTCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:46711 original size:33 final size:33
Alignment explanation
Indices: 46667--46793 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
46657 GGAAATTACT
46667 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
46700 ACCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
46732 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
46766 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
46794 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:0.20, G:0.23, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:46774 original size:66 final size:66
Alignment explanation
Indices: 46668--46800 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
46658 GAAATTACTA
*
46668 TCGCAATGCGAAATGAAAATCGCAACGAGAGAACCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAACCGCAATGCGAAATGAAAATCGCAACGCGAAT
46733 T
66 T
* *
46734 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAACCGCAATGCGAAATGAAAATCGCAACGCGAAT
46799 T
66 T
46800 T
1 T
46801 AATTTCGCAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAACCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:46829 original size:14 final size:14
Alignment explanation
Indices: 46810--46864 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
46800 TAATTTCGCA
46810 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
46824 TTGCGATTTTCATTTCGCG
1 TTGCGA--TTC---TCTCG
46843 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
46857 TTGCGATT
1 TTGCGATT
46865 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.24, G:0.22, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:46846 original size:19 final size:19
Alignment explanation
Indices: 46822--46882 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
46812 GCGATTCTCT
46822 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
46841 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
46855 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
46874 CATTGCGAT
1 CGTTGCGAT
46883 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:46847 original size:33 final size:33
Alignment explanation
Indices: 46793--46882 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
46783 AAATCGCAAC
* *
46793 GCGAATTTAATTTCGCATTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
*
46826 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
46859 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCATTGCGAT
46883 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCATTGCGATTCTCTCGTT
Found at i:47008 original size:14 final size:14
Alignment explanation
Indices: 46989--47025 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
46979 CATCAATTAA
46989 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
47003 ACAAATCACCTTTT
1 ACAAATCAACTTTT
47017 ACAAATCAA
1 ACAAATCAA
47026 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:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:48442 original size:42 final size:41
Alignment explanation
Indices: 48383--48588 Score: 155
Period size: 42 Copynumber: 4.9 Consensus size: 41
48373 GTGAATCGGG
* *
48383 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * *
48425 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
48467 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGTGGC
* * * *
48509 CTCTTGAACGGTGAGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
48551 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
48589 GTGAGTCGGG
Statistics
Matches: 124, Mismatches: 32, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
41 9 0.07
42 104 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:48449 original size:21 final size:21
Alignment explanation
Indices: 48383--48449 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
48373 GTGAATCGGG
*
48383 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
48403 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
48425 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
48446 CTCT
1 CTCT
48450 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:48506 original size:21 final size:21
Alignment explanation
Indices: 48482--48588 Score: 65
Period size: 21 Copynumber: 5.1 Consensus size: 21
48472 CAATGATAGG
48482 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
* * *
48503 AGTGGCCTCTTGAACGG-TGAG
1 AGTGGACTCTTG-AGGGATGAC
* * * *
48524 AGGGGACTCTCGAGGAATGAT
1 AGTGGACTCTTGAGGGATGAC
* * * ** *
48545 AGGGGCCTCTTCAACGAT-AGG
1 AGTGGACTCTTGAGGGATGA-C
48566 AGTGGACTCTTGAGGGATGAC
1 AGTGGACTCTTGAGGGATGAC
48587 AG
1 AG
48589 GTGAGTCGGG
Statistics
Matches: 60, Mismatches: 22, Indels: 8
0.67 0.24 0.09
Matches are distributed among these distances:
20 3 0.05
21 53 0.88
22 4 0.07
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.21
Consensus pattern (21 bp):
AGTGGACTCTTGAGGGATGAC
Found at i:48527 original size:84 final size:84
Alignment explanation
Indices: 48413--48588 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
48403 CCTCTTCAAC
* *
48413 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAATGA
1 GATGACAGTGGCCTCTTGAACGGTGAGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
48478 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
48497 GATGACAGTGGCCTCTTGAACGGTGAGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGAGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
48562 TAGGAGTGGACTCTTGAGG
66 TAGGAGTGGACTCTTGAGG
48581 GATGACAG
1 GATGACAG
48589 GTGAGTCGGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.22
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGAGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGGACTCTTGAGG
Found at i:48982 original size:91 final size:90
Alignment explanation
Indices: 48805--48991 Score: 304
Period size: 91 Copynumber: 2.0 Consensus size: 90
48795 ATATTTCAAA
*
48805 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTA
48870 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGCAGCAACCGAATAAATTT
48898 ACTTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAG
*
48962 CAGTATTGGCAGCAACCGAATAAATTT
64 CAGAATTGGCAGCAACCGAATAAATTT
48989 ACT
1 ACT
48992 AAGCAATCTA
Statistics
Matches: 90, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.47
93 21 0.23
95 27 0.30
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
GAATTGGCAGCAACCGAATAAATTT
Found at i:49235 original size:63 final size:63
Alignment explanation
Indices: 49158--49288 Score: 262
Period size: 63 Copynumber: 2.1 Consensus size: 63
49148 TAAAGTAGAC
49158 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
49221 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTACCGATCTCCTCACGCAAGGCATTG
49284 ACCTC
1 ACCTC
49289 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:50794 original size:19 final size:19
Alignment explanation
Indices: 50741--50885 Score: 130
Period size: 19 Copynumber: 8.1 Consensus size: 19
50731 TCTTTTGGTT
*
50741 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
* * *
50760 GATAAAGAGAATCGCAACGT
1 GA-AATGAAAATCGCAACGC
**
50780 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
50797 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
50813 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
50832 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
50849 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
50865 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
50884 GA
1 GA
50886 TTTTGGTTTC
Statistics
Matches: 102, Mismatches: 13, Indels: 22
0.74 0.09 0.16
Matches are distributed among these distances:
14 19 0.19
15 2 0.02
16 4 0.04
17 3 0.03
18 2 0.02
19 56 0.55
20 16 0.16
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:50802 original size:33 final size:33
Alignment explanation
Indices: 50765--50830 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
50755 AACGAGATAA
* **
50765 AGAGAATCGCAACGTGAAATGACTATCGCAACG
1 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
50798 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
1 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
50831 CGAAATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
AGAGAATCGCAACGCGAAATGAAAATCGCAACG
Found at i:50830 original size:52 final size:52
Alignment explanation
Indices: 50749--50885 Score: 202
Period size: 52 Copynumber: 2.6 Consensus size: 52
50739 TTGAAATGAA
* * * * **
50749 AATCGCAACGAGATAAAGAGAATCGCAACGTGAAATGACTATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
50802 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
50854 AATCGCAACGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGA
50886 TTTTGGTTTC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
52 65 0.84
53 12 0.16
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.12
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:50903 original size:19 final size:19
Alignment explanation
Indices: 50881--50925 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
50871 AAAATCGCAA
*
50881 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
* *
50900 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
50919 TGCGATT
1 TGCGATT
50926 CTATCGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.07, C:0.16, G:0.27, T:0.51
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:51506 original size:20 final size:20
Alignment explanation
Indices: 51478--51530 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
51468 GCGCTATGTA
51478 AATCACGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
*
51498 AATCGCGTTGCGAAAGTCAG
1 AATCACGTTGCGAAAGTCAG
* *
51518 TATCTCGTTGCGA
1 AATCACGTTGCGA
51531 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (20 bp):
AATCACGTTGCGAAAGTCAG
Found at i:51564 original size:20 final size:20
Alignment explanation
Indices: 51539--51592 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
51529 GATTTTGTAT
51539 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
51559 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
51579 TATCGTATTGCGAT
1 TATCGCATTGCGAT
51593 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:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:51611 original size:61 final size:61
Alignment explanation
Indices: 51483--51613 Score: 140
Period size: 61 Copynumber: 2.1 Consensus size: 61
51473 ATGTAAATCA
* * * * ** *
51483 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCTCATTGCGATTTTCCAATATCG
* * *
51544 CATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGT-ATTGCGATTTTCCCAAT-TCG
1 CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATC-TCATTGCGATTTT-CCAATATCG
51605 CGTTGCGAT
1 CGTTGCGAT
51614 TTACTTATTC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
61 54 0.95
62 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (61 bp):
CGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCTCATTGCGATTTTCCAATATCG
Found at i:51855 original size:2 final size:2
Alignment explanation
Indices: 51848--51891 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
51838 CTCTTTTGTA
51848 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
51890 AT
1 AT
51892 GCAAAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:56033 original size:49 final size:46
Alignment explanation
Indices: 55942--56058 Score: 119
Period size: 49 Copynumber: 2.5 Consensus size: 46
55932 ATTGAAATTT
* ** * * *
55942 AATATTTAAAATATATTTTAAATGCAATAAATAGGTTGAATTAGAGGTTA
1 AATATTTAAAATATAATTTAAATAAAATAAACAGGCTCAATT--A--TTA
* *
55992 AAT-TTTAAAATATAATTTAAATAAAATTAACAGGCTCAATTATTT
1 AATATTTAAAATATAATTTAAATAAAATAAACAGGCTCAATTATTA
56037 AATATTTAAAATATAATTTAAA
1 AATATTTAAAATATAATTTAAA
56059 GGTTAAATTA
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
45 5 0.09
46 18 0.31
47 1 0.02
49 31 0.53
50 3 0.05
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (46 bp):
AATATTTAAAATATAATTTAAATAAAATAAACAGGCTCAATTATTA
Found at i:56967 original size:29 final size:29
Alignment explanation
Indices: 56934--56994 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
56924 ATGATCTTGG
56934 AAAATGTCTTAGCATATTGGTCTTTCATA
1 AAAATGTCTTAGCATATTGGTCTTTCATA
56963 AAAATGTCTTAGCATATTGGTCTTTCATA
1 AAAATGTCTTAGCATATTGGTCTTTCATA
56992 AAA
1 AAA
56995 GGGTAACTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (29 bp):
AAAATGTCTTAGCATATTGGTCTTTCATA
Found at i:58292 original size:12 final size:12
Alignment explanation
Indices: 58275--58302 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
58265 TCTAACATGA
58275 AAGCCCTGAAAC
1 AAGCCCTGAAAC
58287 AAGCCCTGAAAC
1 AAGCCCTGAAAC
58299 AAGC
1 AAGC
58303 TCATTAACCT
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:0.32, G:0.18, T:0.07
Consensus pattern (12 bp):
AAGCCCTGAAAC
Found at i:79133 original size:37 final size:36
Alignment explanation
Indices: 78978--79436 Score: 294
Period size: 37 Copynumber: 12.5 Consensus size: 36
78968 ATATATATTA
*
78978 ATATAGTATAGTTTTTGAAAATA-TTTTGAAAAACATAT
1 ATATA-TATAG-TTTTGAAAACATTTTTG-AAAACATAT
* * *
79016 -GATATATAGTTTTTAGAAAACGGTTTTTGAAAGCATAT
1 ATATATATAG-TTTT-GAAAAC-ATTTTTGAAAACATAT
* * * *
79054 A-ATATATAATTTTTTAAAAAGTCTGTTTTTGAAAATATAT
1 ATATATAT-A-GTTTTGAAAA--C-ATTTTTGAAAACATAT
*
79094 ATATAATATGGTTTTGAAAACACGTTTTTGAAAACATAT
1 ATAT-ATATAGTTTTGAAAACA--TTTTTGAAAACATAT
*
79133 A-ATATATAGTTTTG-AAACATATTTGAAATA-ATAT
1 ATATATATAGTTTTGAAAACATTTTTGAAA-ACATAT
* * *
79167 ATAGT-T-T--TTTTAAAAATAGTTTTGGAAAAC--AT
1 ATA-TATATAGTTTTGAAAACA-TTTTTGAAAACATAT
*
79199 ATA-ATATAGTTTTGAAAACACATTTTGAAAACATAT
1 ATATATATAGTTTTGAAAACA-TTTTTGAAAACATAT
* * *
79235 ATATATATAGTTTTTTAAAAAATAGGTTTTG-GAA-ATAT
1 ATATATATAG-TTTTGAAAACAT---TTTTGAAAACATAT
79273 A-ATATATAGTTTTGAAAACACATTTTTGAAAACATAT
1 ATATATATAGTTTTG-AAA-ACATTTTTGAAAACATAT
* * **
79310 A-ATATATAGTTTTTAAAATATTTTTGAAAATGTAT
1 ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
79345 ATATAATATAGTTTTTG-AAACGTATTTTTGAAAACATAT
1 ATAT-ATATAG-TTTTGAAAAC--ATTTTTGAAAACATAT
** *
79384 A-ATATATAGTTTTTTAAATATTTTTGAAAACATAT
1 ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
79419 A-ATATATAGGTTTT-AAAA
1 ATATATATA-GTTTTGAAAA
79437 TAAATATAGT
Statistics
Matches: 338, Mismatches: 43, Indels: 83
0.73 0.09 0.18
Matches are distributed among these distances:
31 1 0.00
32 10 0.03
33 5 0.01
34 39 0.12
35 51 0.15
36 41 0.12
37 70 0.21
38 44 0.13
39 42 0.12
40 29 0.09
41 2 0.01
42 4 0.01
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (36 bp):
ATATATATAGTTTTGAAAACATTTTTGAAAACATAT
Found at i:79280 original size:74 final size:75
Alignment explanation
Indices: 79160--79401 Score: 329
Period size: 74 Copynumber: 3.3 Consensus size: 75
79150 CATATTTGAA
* *
79160 ATAATATATAGTTTTTTTAAAAATAGTTTTGGAAA-ACATATAATATAGTTTTGAAAACACA-TT
1 ATAATATATAGTTTTTTAAAAAATAGTTTTGGAAATATATATAATATAGTTTTGAAAACACATTT
79223 TTGAAAACAT
66 TTGAAAACAT
79233 ATATATATATAGTTTTTTAAAAAATAGGTTTTGGAAATATA-AT-ATATAGTTTTGAAAACACAT
1 ATA-ATATATAGTTTTTTAAAAAATA-GTTTTGGAAATATATATAATATAGTTTTGAAAACACAT
79296 TTTTGAAAACAT
64 TTTTGAAAACAT
* * **
79308 ATAATATATAG-TTTTT--AAAATATTTTTGAAAATGTATATATAATATAGTTTTTG-AAACGTA
1 ATAATATATAGTTTTTTAAAAAATAGTTTTGGAAA--TATATATAATATAG-TTTTGAAAACACA
79369 TTTTTGAAAACAT
63 TTTTTGAAAACAT
79382 ATAATATATAGTTTTTTAAA
1 ATAATATATAGTTTTTTAAA
79402 TATTTTTGAA
Statistics
Matches: 151, Mismatches: 6, Indels: 20
0.85 0.03 0.11
Matches are distributed among these distances:
70 8 0.05
71 6 0.04
72 4 0.03
73 10 0.07
74 83 0.55
75 37 0.25
76 2 0.01
77 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.43
Consensus pattern (75 bp):
ATAATATATAGTTTTTTAAAAAATAGTTTTGGAAATATATATAATATAGTTTTGAAAACACATTT
TTGAAAACAT
Found at i:79499 original size:29 final size:29
Alignment explanation
Indices: 79454--79515 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
79444 AGTATACATA
* *
79454 TTATATATATTATTTATT-ATTTTATTTAT
1 TTATATATATTAGTTATTAATATTATTT-T
79483 TTATATTATATT-GTTATTAATATTATTTT
1 TTATA-TATATTAGTTATTAATATTATTTT
79512 TTAT
1 TTAT
79516 TTTTAGGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 15 0.52
30 14 0.48
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.68
Consensus pattern (29 bp):
TTATATATATTAGTTATTAATATTATTTT
Found at i:80775 original size:16 final size:17
Alignment explanation
Indices: 80754--80786 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
80744 CTTTTATTCC
80754 TTTTATTTAC-TTATTT
1 TTTTATTTACTTTATTT
80770 TTTTATTTACTTTATTT
1 TTTTATTTACTTTATTT
80787 CGATCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTACTTTATTT
Found at i:88921 original size:38 final size:37
Alignment explanation
Indices: 88879--89267 Score: 183
Period size: 37 Copynumber: 10.6 Consensus size: 37
88869 TTTGAAAATA
88879 TTTTGAAAACATATAATATATAATTTTTAGAAAACGGT
1 TTTTGAAAACATATAATATATAATTTTTAGAAAAC-GT
* *
88917 TTTTGAAAGCATATAATATATAGTTTTTTA-AAAA-GT
1 TTTTGAAAACATATAATATATA-ATTTTTAGAAAACGT
* * ** *
88953 ATGTTT-AAAAAAAAT-ATAATATGGTTTTGA-AAACACGT
1 -T-TTTGAAAACATATAAT-ATATAATTTTTAGAAA-ACGT
* * * * * **
88991 TTTTGTAAACGTATAATATATAGTTTTGAAAAAATAT
1 TTTTGAAAACATATAATATATAATTTTTAGAAAACGT
* *
89028 TTTTGAAAACATATAATATATATATATATATTTTTAAAAATAGGT
1 TTTTGAAAAC-----ATATA-ATATATA-ATTTTTAGAAA-ACGT
* * * *
89073 TTTGGAAAACATATAATATATAGTTTTGA-AAACACAT
1 TTTTGAAAACATATAATATATAATTTTTAGAAA-ACGT
*
89110 TTTTGAAAACATATAATATAT-AGTTTTA-AAATA--T
1 TTTTGAAAACATATAATATATAATTTTTAGAAA-ACGT
*
89144 TTTTGAAAACGTATATATAATATAATTTTT-GAAAACG-
1 TTTTGAAAACATATA-AT-ATATAATTTTTAGAAAACGT
*
89181 ---T----ATATAT-A-ATATAATTTTT-GAAAACGTAT
1 TTTTGAAAACATATAATATATAATTTTTAGAAAACG--T
* *** **
89210 TTTTGAAAACATATAATATATAGTTTTTTTTAAATAT
1 TTTTGAAAACATATAATATATAATTTTTAGAAAACGT
89247 TTTTGAAAACATATAATATAT
1 TTTTGAAAACATATAATATAT
89268 TGTTTTTAAA
Statistics
Matches: 273, Mismatches: 42, Indels: 73
0.70 0.11 0.19
Matches are distributed among these distances:
26 18 0.07
28 1 0.00
30 4 0.01
32 1 0.00
34 16 0.06
35 2 0.01
36 33 0.12
37 96 0.35
38 50 0.18
39 16 0.06
40 5 0.02
42 4 0.01
43 7 0.03
44 9 0.03
45 11 0.04
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (37 bp):
TTTTGAAAACATATAATATATAATTTTTAGAAAACGT
Found at i:88936 original size:36 final size:33
Alignment explanation
Indices: 88856--89047 Score: 100
Period size: 35 Copynumber: 5.3 Consensus size: 33
88846 ATATATATTA
*
88856 ATATAATATAGTTTTTGAAAATATTTTGAAAAC
1 ATATAATATAATTTTTGAAAATATTTTGAAAAC
*
88889 ATATAATATATAATTTTTAGAAAACGGT-TTTTGAAAGC
1 ATAT-A-ATATAATTTTT-GAAAA---TATTTTGAAAAC
* * *
88927 ATATAATATATAGTTTTTTAAAAAGTATGTTTAAAAAAA
1 ATATAATATA-A--TTTTTGAAAA-TAT-TTT-GAAAAC
** * *
88966 ATATAATAT-GGTTTTGAAAACACGTTTTTGTAAAC
1 ATATAATATAATTTTTGAAAATA---TTTTGAAAAC
* *
89001 GTATAATATATAGTTTTGAAAAAATATTTTTGAAAAC
1 ATATAATATA-ATTTTTG--AAAATA-TTTTGAAAAC
89038 ATATAATATA
1 ATATAATATA
89048 TATATATATA
Statistics
Matches: 122, Mismatches: 18, Indels: 34
0.70 0.10 0.20
Matches are distributed among these distances:
33 4 0.03
34 2 0.02
35 29 0.24
36 15 0.12
37 29 0.24
38 20 0.16
39 23 0.19
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (33 bp):
ATATAATATAATTTTTGAAAATATTTTGAAAAC
Found at i:89067 original size:43 final size:45
Alignment explanation
Indices: 89002--89094 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
88992 TTTGTAAACG
*
89002 TATAATATATAGTTTTGAAAAAATA-TTTTTGAAAACATATAATA
1 TATAATATATAGTTTTGAAAAAATAGTTTTGGAAAACATATAATA
*
89046 TATATATATATA-TTTT-TAAAAATAGGTTTTGGAAAACATATAATA
1 TATA-ATATATAGTTTTGAAAAAATA-GTTTTGGAAAACATATAATA
89091 TATA
1 TATA
89095 GTTTTGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
43 7 0.16
44 8 0.18
45 29 0.66
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (45 bp):
TATAATATATAGTTTTGAAAAAATAGTTTTGGAAAACATATAATA
Found at i:89136 original size:156 final size:154
Alignment explanation
Indices: 88889--89178 Score: 342
Period size: 156 Copynumber: 1.9 Consensus size: 154
88879 TTTTGAAAAC
* * * * *
88889 ATATAATATATAATTTTTAGAAAACGGTTTTTGAAAGCATATAATATATAGTTTTTTAAAAAGTA
1 ATATAATATATAATTTTTAGAAAAAGGTTTTGGAAAACATATAATATATAGTTTTTGAAAAAGCA
* *
88954 TGTTTAAAAAAAATATAATATGGTTTTGAAAACACGTTTTTGTAAACGTATA-AT-ATAT-AGTT
66 TGTTTAAAAAAAATATAATATAGTTTT-AAAACA--TTTTTGAAAACGTATATATAATATAAGTT
89016 TTGAAAAAATATTTTTGAAAACATATA
128 TTGAAAAAATATTTTTGAAAACATATA
89043 ATATATATATATATATTTTTA-AAAATAGGTTTTGGAAAACATATAATATATAG-TTTTGAAAAC
1 ATATA-ATATATA-ATTTTTAGAAAA-AGGTTTTGGAAAACATATAATATATAGTTTTTGAAAA-
** * *
89106 A-CAT-TTTTGAAAACATATAATATATAGTTTTAAAATATTTTTGAAAACGTATATATAATATAA
62 AGCATGTTTAAAAAAAATAT-A-ATATAGTTTTAAAACATTTTTGAAAACGTATATATAATATAA
*
89169 TTTTTGAAAA
125 GTTTTGAAAA
89179 CGTATATATA
Statistics
Matches: 115, Mismatches: 12, Indels: 16
0.80 0.08 0.11
Matches are distributed among these distances:
153 15 0.13
154 18 0.16
155 31 0.27
156 51 0.44
ACGTcount: A:0.46, C:0.04, G:0.10, T:0.41
Consensus pattern (154 bp):
ATATAATATATAATTTTTAGAAAAAGGTTTTGGAAAACATATAATATATAGTTTTTGAAAAAGCA
TGTTTAAAAAAAATATAATATAGTTTTAAAACATTTTTGAAAACGTATATATAATATAAGTTTTG
AAAAAATATTTTTGAAAACATATA
Found at i:89173 original size:26 final size:26
Alignment explanation
Indices: 89142--89209 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
89132 GTTTTAAAAT
89142 ATTTTTGAAAACGTATATATAATATA
1 ATTTTTGAAAACGTATATATAATATA
89168 ATTTTTGAAAACGTATATATAATATA
1 ATTTTTGAAAACGTATATATAATATA
89194 ATTTTTGAAAACGTAT
1 ATTTTTGAAAACGTAT
89210 TTTTGAAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (26 bp):
ATTTTTGAAAACGTATATATAATATA
Found at i:89219 original size:137 final size:143
Alignment explanation
Indices: 89026--89286 Score: 358
Period size: 137 Copynumber: 1.9 Consensus size: 143
89016 TTGAAAAAAT
*
89026 ATTTTTGAAAACATATAATATATATATATATATTTTTAAAAATAGGTTTTGGAAAACATATAATA
1 ATTTTTGAAAACATATAATATATATATATATATTTTGAAAAATA-GTTTTGGAAAACATATAATA
89091 TATAG-TTTTGAAAACACATTTTTGAAAACATATAATATATAG-TTTTAAAATA-TTTTTGAAAA
65 TATAGTTTTTGAAAA-ACATTTTTGAAAACATATAATATATAGTTTTTAAAATAGTTTTTGAAAA
89153 CGTATATATAATATA
129 CGTATATATAATATA
* * *
89168 ATTTTTGAAAACGTAT-ATATA-ATATA-AT-TTTTGAAAACGTA-TTTTTGAAAACATATAATA
1 ATTTTTGAAAACATATAATATATATATATATATTTTGAAAA-ATAGTTTTGGAAAACATATAATA
*** * *
89228 TATAGTTTTTTTTAAATATTTTTGAAAACATATAATATATTGTTTTTAAAATAGTTTTT
65 TATAGTTTTTGAAAAACATTTTTGAAAACATATAATATATAGTTTTTAAAATAGTTTTT
89287 ATAGTTTTTA
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
137 48 0.45
138 24 0.23
139 9 0.08
140 5 0.05
141 5 0.05
142 15 0.14
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.45
Consensus pattern (143 bp):
ATTTTTGAAAACATATAATATATATATATATATTTTGAAAAATAGTTTTGGAAAACATATAATAT
ATAGTTTTTGAAAAACATTTTTGAAAACATATAATATATAGTTTTTAAAATAGTTTTTGAAAACG
TATATATAATATA
Found at i:89239 original size:40 final size:37
Alignment explanation
Indices: 89168--89286 Score: 127
Period size: 37 Copynumber: 3.2 Consensus size: 37
89158 ATATAATATA
* * *
89168 ATTTTTGAAAACGTATATATAATATA-ATTTTTGAAAACGT
1 ATTTTTGAAAACATATA-AT-ATATAGTTTTTTTAAAA--T
*
89208 ATTTTTGAAAACATATAATATATAGTTTTTTTTAAAT
1 ATTTTTGAAAACATATAATATATAGTTTTTTTAAAAT
*
89245 ATTTTTGAAAACATATAATATAT--TGTTTTTAAAAT
1 ATTTTTGAAAACATATAATATATAGTTTTTTTAAAAT
89280 AGTTTTT
1 A-TTTTT
89287 ATAGTTTTTA
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
35 11 0.15
36 5 0.07
37 24 0.34
38 5 0.07
39 10 0.14
40 16 0.23
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.49
Consensus pattern (37 bp):
ATTTTTGAAAACATATAATATATAGTTTTTTTAAAAT
Found at i:89346 original size:5 final size:5
Alignment explanation
Indices: 89314--89379 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
89304 TATAGTATAC
* *
89314 ATATT AT-TT ATA-T ATATT ATTTT ATATT TTATT -TATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
89361 ATATT GTTATT AATATT AT
1 ATATT -ATATT -ATATT AT
89380 TTTTCTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
4 12 0.24
5 31 0.61
6 8 0.16
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.64
Consensus pattern (5 bp):
ATATT
Found at i:89352 original size:19 final size:19
Alignment explanation
Indices: 89314--89383 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
89304 TATAGTATAC
* *
89314 ATATTAT-TTATATATATT
1 ATATTATATTTTATTTATT
*
89332 ATTTTATATTTTATTTATT
1 ATATTATATTTTATTTATT
*
89351 ATATTATATTATATTGTTATT
1 ATATTATATTTTA-T-TTATT
89372 AATATTAT-TTTT
1 -ATATTATATTTT
89384 CTTTTTTTAG
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
18 6 0.14
19 20 0.48
20 1 0.02
21 8 0.19
22 7 0.17
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (19 bp):
ATATTATATTTTATTTATT
Found at i:89353 original size:24 final size:25
Alignment explanation
Indices: 89317--89382 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
89307 AGTATACATA
89317 TTATTTATATATATTATTTTATATT-
1 TTATTTAT-TATATTATTTTATATTG
*
89342 TTATTTATTATATTATATTATATTG
1 TTATTTATTATATTATTTTATATTG
89367 TTA-TTA--ATATTATTTT
1 TTATTTATTATATTATTTT
89383 TCTTTTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
22 9 0.24
24 18 0.47
25 11 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATTTATTATATTATTTTATATTG
Found at i:90476 original size:15 final size:16
Alignment explanation
Indices: 90456--90487 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
90446 CTTTTATTCC
90456 TTTTATTTAC-TTATT
1 TTTTATTTACTTTATT
90471 TTTTATTTACTTTATT
1 TTTTATTTACTTTATT
90487 T
1 T
90488 CGATCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTACTTTATT
Found at i:90879 original size:298 final size:305
Alignment explanation
Indices: 90481--91083 Score: 1112
Period size: 303 Copynumber: 2.0 Consensus size: 305
90471 TTTTATTTAC
90481 TTTATTTCGATCTTAATACTAACTATTTGTTTTTGTTTATTTTATTTTTAATTTTTTTTTTATCT
1 TTTATTTCGATCTTAATACTAACTATTTGTTTTTGTTTATTTTATTTTTAA-TTTTTTTTTATCT
90546 TTTTAGGACAATTTTAATTGATCAAAGGTAAGTAATTCGAA-CGAATTTC-AATTTTAATAACTT
65 TTTTAGGACAATTTTAATTGATCAAAGGTAAGTAATTCGAATCGAATTTCAAATTTTAATAACTT
*
90609 TTAATTTTCGTAATTAAGAGAACCGAGAAATCAAATT-G-CCGAAAGGGCAGTACAAGGGTGCTA
130 TTAATTTTCGTAATTAAGACAACCGAGAAATCAAATTAGACCGAAAGGGCAGTACAAGGGTGCTA
*
90672 AACCTTCCCTGACTGTAATTGACTCCCGAATCCGATTCAATTCTGGTAAAAACATAGATCAGATA
195 AACCTTCCCTGACTGTAATTGACTCCAGAATCCGATTCAATTCTGGTAAAAACATAGATCAGATA
90737 AAATGGTAAATTAAGGTATCCGATCAACCTAATTTTAAATGATTCT
260 AAATGGTAAATTAAGGTATCCGATCAACCTAATTTTAAATGATTCT
90783 TTTATTTCGATCTTAATACTAACTATTTGTTTTTGTTTATTTTA-TTTT-A-TTTTTTTTATCTT
1 TTTATTTCGATCTTAATACTAACTATTTGTTTTTGTTTATTTTATTTTTAATTTTTTTTTATCTT
90845 TTTAGGACAATTTTAATTGATCAAAGGTAAGTAATTCGAATCGAATTTCAAATTTTAATAACTTT
66 TTTAGGACAATTTTAATTGATCAAAGGTAAGTAATTCGAATCGAATTTCAAATTTTAATAACTTT
90910 TAATTTTCGTAATTAAGACAACCGAGAAATCAAATTAGTACCGAAAGGGCAGTACAAGGGTGCTA
131 TAATTTTCGTAATTAAGACAACCGAGAAATCAAATTAG-ACCGAAAGGGCAGTACAAGGGTGCTA
*
90975 AACCTTCCCTGACTGTAATTGACTCCAGAATCCGATTCAATTCTGGTAAAAACGTAGATCAGATA
195 AACCTTCCCTGACTGTAATTGACTCCAGAATCCGATTCAATTCTGGTAAAAACATAGATCAGATA
91040 AAATGGTAAATTAAGGTATCCGATCAACCTAATTTTAAATGATT
260 AAATGGTAAATTAAGGTATCCGATCAACCTAATTTTAAATGATT
91084 GGTGGTGGCT
Statistics
Matches: 293, Mismatches: 3, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
298 53 0.18
299 8 0.03
300 51 0.17
301 5 0.02
302 44 0.15
303 132 0.45
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (305 bp):
TTTATTTCGATCTTAATACTAACTATTTGTTTTTGTTTATTTTATTTTTAATTTTTTTTTATCTT
TTTAGGACAATTTTAATTGATCAAAGGTAAGTAATTCGAATCGAATTTCAAATTTTAATAACTTT
TAATTTTCGTAATTAAGACAACCGAGAAATCAAATTAGACCGAAAGGGCAGTACAAGGGTGCTAA
ACCTTCCCTGACTGTAATTGACTCCAGAATCCGATTCAATTCTGGTAAAAACATAGATCAGATAA
AATGGTAAATTAAGGTATCCGATCAACCTAATTTTAAATGATTCT
Found at i:92260 original size:12 final size:12
Alignment explanation
Indices: 92241--92278 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
92231 ATTCTTAAAG
92241 TATTATTTATTA
1 TATTATTTATTA
*
92253 TTTTATTTATTA
1 TATTATTTATTA
92265 TATTA--TATTA
1 TATTATTTATTA
92275 TATT
1 TATT
92279 GCTATTAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:92270 original size:17 final size:17
Alignment explanation
Indices: 92243--92295 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 17
92233 TCTTAAAGTA
92243 TTATT-TATTATTTTAT
1 TTATTATATTATTTTAT
92259 TTATTATATTATATTATAT
1 TTATTATATTAT-TT-TAT
92278 TGCTATTAATATTATTTT
1 T--TATT-ATATTATTTT
92296 TCTTTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.16
17 6 0.19
18 2 0.06
19 4 0.13
20 1 0.03
21 6 0.19
22 7 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTATATTATTTTAT
Found at i:93567 original size:16 final size:17
Alignment explanation
Indices: 93546--93578 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
93536 CTTTTATTCC
93546 TTTTATTTAC-TTATTT
1 TTTTATTTACTTTATTT
93562 TTTTATTTACTTTATTT
1 TTTTATTTACTTTATTT
93579 CGATCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTATTTACTTTATTT
Found at i:103733 original size:26 final size:25
Alignment explanation
Indices: 103694--103779 Score: 87
Period size: 26 Copynumber: 3.6 Consensus size: 25
103684 ACATAGAATT
*
103694 TGTCCCGAATGACCACATATCATATA
1 TGTCCCGAAGGACCACATATCA-ATA
*
103720 TGTCCAGAAGGA-C-C--A-C--TA
1 TGTCCCGAAGGACCACATATCAATA
103738 TGTCCCGAAGGACCACATATCACATA
1 TGTCCCGAAGGACCACATATCA-ATA
103764 TGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
103780 TCCTTAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
18 13 0.27
19 1 0.02
20 1 0.02
21 1 0.02
22 2 0.04
23 1 0.02
24 1 0.02
25 1 0.02
26 28 0.57
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (25 bp):
TGTCCCGAAGGACCACATATCAATA
Found at i:103741 original size:18 final size:18
Alignment explanation
Indices: 103718--103753 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
103708 ACATATCATA
103718 TATGTCCAGAAGGACCAC
1 TATGTCCAGAAGGACCAC
*
103736 TATGTCCCGAAGGACCAC
1 TATGTCCAGAAGGACCAC
103754 ATATCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.31, G:0.22, T:0.17
Consensus pattern (18 bp):
TATGTCCAGAAGGACCAC
Found at i:103757 original size:44 final size:44
Alignment explanation
Indices: 103694--103780 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
103684 ACATAGAATT
* *
103694 TGTCCCGAATGACCACATATCATATATGTCCAGAAGGACCACTA
1 TGTCCCGAAGGACCACATATCACATATGTCCAGAAGGACCACTA
*
103738 TGTCCCGAAGGACCACATATCACATATGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACATATCACATATGTCCAGAAGGACCACT
103781 CCTTAAGAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.21
Consensus pattern (44 bp):
TGTCCCGAAGGACCACATATCACATATGTCCAGAAGGACCACTA
Found at i:104706 original size:21 final size:22
Alignment explanation
Indices: 104682--104737 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
104672 CCCTCTACAT
104682 TGGTATCGATACCCTTCCT-TA
1 TGGTATCGATACCCTTCCTGTA
** *
104703 TGGTATCGATACTGTTCGTGTA
1 TGGTATCGATACCCTTCCTGTA
104725 -GGTATCGATACCC
1 TGGTATCGATACCC
104738 CATGTATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (22 bp):
TGGTATCGATACCCTTCCTGTA
Found at i:107558 original size:6 final size:6
Alignment explanation
Indices: 107543--107572 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
107533 ATATAAATAC
107543 ATAA-T ATAACT ATAACT ATAACT ATAACT A
1 ATAACT ATAACT ATAACT ATAACT ATAACT A
107573 ATTAACAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 20 0.83
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (6 bp):
ATAACT
Found at i:107925 original size:18 final size:18
Alignment explanation
Indices: 107904--107970 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
107894 GTCTCGAAGA
107904 ACCAATATGTCCCAAAGG
1 ACCAATATGTCCCAAAGG
* * *
107922 ACCACTTTGTCCCGAAGG
1 ACCAATATGTCCCAAAGG
*
107940 A-CAACTATGTCCCGAAGG
1 ACCAA-TATGTCCCAAAGG
*
107958 ACC-ATATATCCCA
1 ACCAATATGTCCCA
107971 TATGTCCCGA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
17 9 0.22
18 30 0.75
19 1 0.03
ACGTcount: A:0.33, C:0.31, G:0.16, T:0.19
Consensus pattern (18 bp):
ACCAATATGTCCCAAAGG
Found at i:107938 original size:36 final size:36
Alignment explanation
Indices: 107891--107961 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
107881 GCGCGTAGAA
*
107891 TTTGTCTCGAAGAACCAA-TATGTCCCAAAGGACCAC
1 TTTGTCCCGAAGAA-CAACTATGTCCCAAAGGACCAC
* *
107927 TTTGTCCCGAAGGACAACTATGTCCCGAAGGACCA
1 TTTGTCCCGAAGAACAACTATGTCCCAAAGGACCA
107962 TATATCCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (36 bp):
TTTGTCCCGAAGAACAACTATGTCCCAAAGGACCAC
Found at i:108081 original size:21 final size:21
Alignment explanation
Indices: 108043--108082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
108033 CCGAAGTACC
* *
108043 ACATATATGTTCTAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
108064 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
108083 CCACGTAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:108468 original size:21 final size:20
Alignment explanation
Indices: 108442--108491 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
108432 TCACATATGG
108442 ATATGCACTTATAATC-TAAAC
1 ATATGCA-TT-TAATCATAAAC
*
108463 ATATGCATTTAATCATATAC
1 ATATGCATTTAATCATAAAC
108483 ATATAGCAT
1 ATAT-GCAT
108492 CATATCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.19
20 10 0.38
21 11 0.42
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (20 bp):
ATATGCATTTAATCATAAAC
Found at i:110687 original size:12 final size:12
Alignment explanation
Indices: 110670--110695 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
110660 TGTATCAGAT
110670 TGCAGAAAGGCA
1 TGCAGAAAGGCA
110682 TGCAGAAAGGCA
1 TGCAGAAAGGCA
110694 TG
1 TG
110696 GATGATGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.35, T:0.12
Consensus pattern (12 bp):
TGCAGAAAGGCA
Found at i:112000 original size:60 final size:58
Alignment explanation
Indices: 111864--112001 Score: 143
Period size: 60 Copynumber: 2.3 Consensus size: 58
111854 TAGACTATAC
* * * * *
111864 AAATGGTCCCCCGACTATAGGATTATACTTTGTTGAATCCTCTGATTATTAAAAGTTATA
1 AAATGGT-CCCCGACTATAGAATTATA-TTTGTTGAATCCCCTAACTATTAAAAGTTACA
* * *
111924 AAATGATCCCTTGACTATAGAAAATTAT-TTTGTTGAGTCCCCTAACTATTAAAAGTTACA
1 AAATGGTCCC-CGACTATAG--AATTATATTTGTTGAATCCCCTAACTATTAAAAGTTACA
111984 AAATGGTCACCCGACTAT
1 AAATGGTC-CCCGACTAT
112002 TCATTAGGTT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
59 3 0.05
60 54 0.84
61 2 0.03
62 5 0.08
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (58 bp):
AAATGGTCCCCGACTATAGAATTATATTTGTTGAATCCCCTAACTATTAAAAGTTACA
Found at i:112225 original size:60 final size:60
Alignment explanation
Indices: 112153--112265 Score: 174
Period size: 60 Copynumber: 1.9 Consensus size: 60
112143 TATCTCAGAC
* * *
112153 GACCATTTTATAACTTTTAATAGTCGAGAGGCTCAACA-AAGTAGTATCCTATAGTCAAAG
1 GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACATAA-TAATATCCTATAGTCAAAG
*
112213 GACCATTTTATAACTTTTAATAGTCAAGAGACTTAACATAATAATATCCTATA
1 GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACATAATAATATCCTATA
112266 ATTGGGAGAC
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
60 46 0.96
61 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAGTCAAGAGACTCAACATAATAATATCCTATAGTCAAAG
Found at i:119791 original size:17 final size:15
Alignment explanation
Indices: 119749--119791 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
119739 TAAACTATGA
*
119749 AATAAAACAATTAAT
1 AATAAAATAATTAAT
119764 AATAAACATAATTAAAT
1 AATAAA-ATAATT-AAT
119781 AATTAAAATAA
1 AA-TAAAATAA
119792 CAAATAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 6 0.25
16 5 0.21
17 9 0.38
18 4 0.17
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAAATAATTAAT
Found at i:121796 original size:32 final size:32
Alignment explanation
Indices: 121719--121786 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
121709 TATATACTTC
121719 CTCCAACAATAAACCCTCCATATAAAACATTT
1 CTCCAACAATAAACCCTCCATATAAAACATTT
121751 CTCCAACAATAAACCCTCCATATAAAACATTT
1 CTCCAACAATAAACCCTCCATATAAAACATTT
121783 CTCC
1 CTCC
121787 GTCAGTAAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.41, C:0.34, G:0.00, T:0.25
Consensus pattern (32 bp):
CTCCAACAATAAACCCTCCATATAAAACATTT
Found at i:121826 original size:12 final size:12
Alignment explanation
Indices: 121805--121873 Score: 50
Period size: 12 Copynumber: 5.8 Consensus size: 12
121795 ACGGGGATAT
*
121805 CAGAAATCAAAA
1 CAGAATTCAAAA
*
121817 CAGAATTCAAAT
1 CAGAATTCAAAA
*
121829 CA-AATATCATAA
1 CAGAAT-TCAAAA
* * *
121841 CAGAATCCATAT
1 CAGAATTCAAAA
* *
121853 CAGAAATCAGAA
1 CAGAATTCAAAA
121865 CAGAATTCA
1 CAGAATTCA
121874 GGTAATGTAT
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
11 3 0.07
12 38 0.86
13 3 0.07
ACGTcount: A:0.54, C:0.19, G:0.09, T:0.19
Consensus pattern (12 bp):
CAGAATTCAAAA
Found at i:121830 original size:24 final size:24
Alignment explanation
Indices: 121803--121873 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
121793 AAACGGGGAT
121803 ATCAGAAATCAAAACAGAATTCAA
1 ATCAGAAATCAAAACAGAATTCAA
* * *
121827 ATCA-AATATCATAACAGAATCCAT
1 ATCAGAA-ATCAAAACAGAATTCAA
*
121851 ATCAGAAATCAGAACAGAATTCA
1 ATCAGAAATCAAAACAGAATTCA
121874 GGTAATGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.54, C:0.18, G:0.08, T:0.20
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAA
Found at i:123870 original size:2 final size:2
Alignment explanation
Indices: 123863--123897 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
123853 ATTTATCCTT
123863 TA TA TA 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 TA TA TA T
123898 TATGTATCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124197 original size:26 final size:26
Alignment explanation
Indices: 124167--124228 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
124157 AAGCTATAGC
124167 AAAAACACAAAA-A-GAAAGAAAGAAG
1 AAAAA-ACAAAAGACGAAAGAAAGAAG
*
124192 AGAAAAA-AAAAGACGAAAGAAATAAG
1 A-AAAAACAAAAGACGAAAGAAAGAAG
124218 AAAAAAACAAA
1 -AAAAAACAAA
124229 TCCAACACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 20 0.65
27 4 0.13
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (26 bp):
AAAAAACAAAAGACGAAAGAAAGAAG
Done.