Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_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: 1555756
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1267 original size:14 final size:14
Alignment explanation
Indices: 1248--1329 Score: 62
Period size: 14 Copynumber: 5.7 Consensus size: 14
1238 TTGAAATGAA
1248 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1262 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
*
1281 AATCGCAACGA-TG
1 AATCGCAACGAGAG
* *
1294 AAT-ACAACGCGA-
1 AATCGCAACGAGAG
1306 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1320 AATCGCAACG
1 AATCGCAACG
1330 CGAAATAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
12 8 0.15
13 10 0.19
14 18 0.35
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 10 0.19
ACGTcount: A:0.43, C:0.24, G:0.23, T:0.10
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1277 original size:33 final size:33
Alignment explanation
Indices: 1240--1344 Score: 118
Period size: 33 Copynumber: 3.4 Consensus size: 33
1230 CTTTTTGGTT
1240 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* * *
1273 GAAATGACAATCGCAACGA-TGAAT-ACAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1304 -----G-AAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1331 GAAATAAAAATCGC
1 GAAATGAAAATCGC
1345 TATGCGATTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
25 11 0.19
26 5 0.09
27 6 0.11
31 6 0.11
32 4 0.07
33 25 0.44
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1368 original size:18 final size:18
Alignment explanation
Indices: 1347--1415 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
1337 AAAATCGCTA
**
1347 TGCGATTTGGTTTCGCGT
1 TGCGATTTCATTTCGCGT
1365 TGCGATTTTCATTTCGCGT
1 TGCGA-TTTCATTTCGCGT
*
1384 TGCGA-TT-A--TCTCGT
1 TGCGATTTCATTTCGCGT
1398 TGCGATTGTCATTTCGCG
1 TGCGATT-TCATTTCGCG
1416 CGACAGTCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 3 0.07
18 5 0.12
19 20 0.49
ACGTcount: A:0.10, C:0.20, G:0.26, T:0.43
Consensus pattern (18 bp):
TGCGATTTCATTTCGCGT
Found at i:1586 original size:33 final size:33
Alignment explanation
Indices: 1544--1614 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
1534 AATACTAACT
1544 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
1577 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1610 TGAAA
1 TGAAA
1615 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:2015 original size:20 final size:20
Alignment explanation
Indices: 1990--2181 Score: 192
Period size: 20 Copynumber: 9.6 Consensus size: 20
1980 CTTTAAATAT
1990 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* *
2010 GCGTTGCGATTTTATGTATTA-
1 GCGTTGCGA-TTTACGGA-TAC
* *
2031 TCGTTGCGATTTACCGATAC
1 GCGTTGCGATTTACGGATAC
*
2051 GCGTTGCGATATACGGATAC
1 GCGTTGCGATTTACGGATAC
* **
2071 GCATTGCGATTTACCCATAC
1 GCGTTGCGATTTACGGATAC
2091 GCGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
*
2111 ACGTTGCGATTTACGGATAC
1 GCGTTGCGATTTACGGATAC
* * *
2131 GCATTGCGA-TTATGTG-TTC
1 GCGTTGCGATTTACG-GATAC
* ** *
2150 GCGTTGCGATTTTCATATTC
1 GCGTTGCGATTTACGGATAC
2170 GCGTTGCGATTT
1 GCGTTGCGATTT
2182 TGGAAAATCG
Statistics
Matches: 140, Mismatches: 26, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
19 16 0.11
20 108 0.77
21 14 0.10
22 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAC
Found at i:2198 original size:21 final size:20
Alignment explanation
Indices: 2148--2245 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
2138 GATTATGTGT
* * * *
2148 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
2168 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
2189 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
2209 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
2230 TCGCGTTGCGATTTTG
1 TCGCATTGCGATTTTG
2246 GAACTGATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 32 0.52
21 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:2240 original size:41 final size:41
Alignment explanation
Indices: 2148--2245 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
2138 GATTATGTGT
* * *
2148 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
** *
2189 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGATTTTGA-TATTCGCATTGCGATTTTGCAA-AA
2230 TCGCGTTGCGATTTTG
1 TCGCGTTGCGATTTTG
2246 GAACTGATTT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
TCGCGTTGCGATTTTGATATTCGCATTGCGATTTTGCAAAA
Found at i:3553 original size:2 final size:2
Alignment explanation
Indices: 3546--3587 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
3536 GATCCTAAAC
3546 TA TA TA TA TA TA TA -A TA TA TA -A TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3585 TA T
1 TA T
3588 GGATATGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 34 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3593 original size:17 final size:18
Alignment explanation
Indices: 3549--3593 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
3539 CCTAAACTAT
*
3549 ATATATATATAATATATA
1 ATATAGATATAATATATA
*
3567 ATATATATAT-ATATATA
1 ATATAGATATAATATATA
*
3584 ATATGGATAT
1 ATATAGATAT
3594 GATCCTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (18 bp):
ATATAGATATAATATATA
Found at i:5541 original size:34 final size:33
Alignment explanation
Indices: 5483--5614 Score: 95
Period size: 34 Copynumber: 3.7 Consensus size: 33
5473 AAAATGTATT
*
5483 TTTGAAAACGTATATATATGGTTTTCAAAACAAAA
1 TTTGAAAAC--ATATATATAGTTTTCAAAACAAAA
*
5518 TTTGGAAAACATATATATAGTTTTTAAAA-AATATA
1 TTT-GAAAACATATATATAGTTTTCAAAACAA-A-A
* * **
5553 TTTGAAAACGTATAATATAGTATTTTAGAAAACACATTT
1 TTTGAAAACATAT-ATATAG--TTTT-CAAAACA-A-AA
5592 TTTGAAAACATATATTATAGTTT
1 TTTGAAAACATATA-TATAGTTT
5615 CGAAAAACAA
Statistics
Matches: 80, Mismatches: 7, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
33 2 0.03
34 27 0.34
35 13 0.16
36 6 0.08
37 7 0.09
38 5 0.06
39 18 0.22
40 2 0.03
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (33 bp):
TTTGAAAACATATATATAGTTTTCAAAACAAAA
Found at i:5631 original size:37 final size:38
Alignment explanation
Indices: 5481--5800 Score: 188
Period size: 37 Copynumber: 8.6 Consensus size: 38
5471 TAAAAATGTA
* * *
5481 TTTTTGAAAACGTATATATATGGTTTTC--AAAACAA-A
1 TTTTTGAAAACATATATATATAG-TTTCGAAAAACAATT
* * ** *
5517 ATTTGGAAAAC--ATATATATAGTTT-TTAAAA-AATA
1 TTTTTGAAAACATATATATATAGTTTCGAAAAACAATT
* * **
5551 TATTTGAAAACGTATA-ATATAGTATTTTAGAAAACACA-T
1 TTTTTGAAAACATATATATATAGT-TTCGA-AAAACA-ATT
5590 TTTTTGAAAACATATAT-TATAGTTTCGAAAAACAATT
1 TTTTTGAAAACATATATATATAGTTTCGAAAAACAATT
* * *
5627 TTTTTGAAAACATAT-TATATAGCTGCGAAAAACATTT
1 TTTTTGAAAACATATATATATAGTTTCGAAAAACAATT
* **
5664 TTTTTGAAAACTTATATATATAGTTTTAAAAAACAA--
1 TTTTTGAAAACATATATATATAGTTTCGAAAAACAATT
*
5700 -TTTTGAAAACATATATATTATATAGTTTCG-AAAATAA--
1 TTTTTGAAAAC--ATATA-TATATAGTTTCGAAAAACAATT
* ** **
5737 TTTTTGAAATCATATTAAATATATAGTTTTAAAAAATGATT
1 TTTTTGAAAACATA-T--ATATATAGTTTCGAAAAACAATT
* *
5778 TTTTTGGAAACCTATATAATATA
1 TTTTTGAAAACATATAT-ATATA
5801 TAATTTTTGA
Statistics
Matches: 227, Mismatches: 32, Indels: 47
0.74 0.10 0.15
Matches are distributed among these distances:
33 5 0.02
34 22 0.10
35 17 0.07
36 19 0.08
37 65 0.29
38 53 0.23
39 33 0.15
40 2 0.01
41 11 0.05
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (38 bp):
TTTTTGAAAACATATATATATAGTTTCGAAAAACAATT
Found at i:5865 original size:11 final size:10
Alignment explanation
Indices: 5844--5884 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
5834 TATATTAATA
5844 TTATTTATTT
1 TTATTTATTT
5854 TTATTCTATTT
1 TTATT-TATTT
5865 TTATTT-TTAT
1 TTATTTATT-T
5875 TTATTTATTT
1 TTATTTATTT
5885 CATTTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 2 0.07
10 14 0.50
11 12 0.43
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (10 bp):
TTATTTATTT
Found at i:5867 original size:17 final size:16
Alignment explanation
Indices: 5842--5880 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 16
5832 TATATATTAA
5842 TATTATTTATTTTTATT
1 TATT-TTTATTTTTATT
5859 CTATTTTTATTTTTATT
1 -TATTTTTATTTTTATT
5876 TATTT
1 TATTT
5881 ATTTCATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 5 0.24
17 12 0.57
18 4 0.19
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTATTTTTATT
Found at i:7192 original size:2 final size:2
Alignment explanation
Indices: 7185--7210 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7175 TGTTATGATT
7185 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7211 CAACTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7345 original size:18 final size:19
Alignment explanation
Indices: 7298--7345 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
7288 GAAAAGTATA
*
7298 TAAAATATTATATTAAAAC
1 TAAAATAATATATTAAAAC
* *
7317 TAGAAAAAATATTTTAAAAC
1 TA-AAATAATATATTAAAAC
7337 -AAAATAATA
1 TAAAATAATA
7346 ATATGAGCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 7 0.29
19 3 0.12
20 14 0.58
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAATAATATATTAAAAC
Found at i:14531 original size:19 final size:19
Alignment explanation
Indices: 14482--14533 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
14472 AATATTTTAA
14482 AATAATTAAACTA-ATTTTT
1 AATAATTAAA-TATATTTTT
* *
14501 AATACTAAAATATATTTTT
1 AATAATTAAATATATTTTT
*
14520 AATAATTTAATATA
1 AATAATTAAATATA
14534 ATGACAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTAAATATATTTTT
Found at i:15280 original size:20 final size:20
Alignment explanation
Indices: 15244--15281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15234 ATCCTATTCC
**
15244 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
15264 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
15282 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:15940 original size:17 final size:18
Alignment explanation
Indices: 15920--15953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15910 AATTTTTAAA
15920 AAATAT-AATTAAAAAAT
1 AAATATAAATTAAAAAAT
*
15937 AAATTTAAATTAAAAAA
1 AAATATAAATTAAAAAA
15954 CACGTGTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATATAAATTAAAAAAT
Found at i:15944 original size:13 final size:14
Alignment explanation
Indices: 15914--15945 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
15904 TAAATAAATT
15914 TTTAAAAAATATAA
1 TTTAAAAAATATAA
15928 -TTAAAAAATA-AA
1 TTTAAAAAATATAA
15940 TTTAAA
1 TTTAAA
15946 TTAAAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 2 0.12
13 15 0.88
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TTTAAAAAATATAA
Found at i:19864 original size:19 final size:20
Alignment explanation
Indices: 19840--19890 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
19830 AATGACCAAT
19840 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
19859 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
19879 AAAATCGCAACG
1 AAAATCGCAACG
19891 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:19884 original size:20 final size:20
Alignment explanation
Indices: 19840--20137 Score: 161
Period size: 20 Copynumber: 14.6 Consensus size: 20
19830 AATGACCAAT
* *
19840 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
19859 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
19879 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
19899 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
19919 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
19940 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
19963 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
* * *
19983 AGAATCGCAATGCGATTTAT
1 AAAATCGCAACGCGATTTAG
* * *
20003 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
20023 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
* * *
20043 AAGAGAATCGCAATGCGACTGAG
1 -A-A-AATCGCAACGCGATTTAG
* * * *
20066 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * * *
20086 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
*
20106 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
20126 AAAATCGCAACG
1 AAAATCGCAACG
20138 TTGAAAATAA
Statistics
Matches: 226, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
19 17 0.08
20 165 0.73
21 15 0.07
22 1 0.00
23 28 0.12
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:20018 original size:40 final size:40
Alignment explanation
Indices: 19944--20135 Score: 240
Period size: 40 Copynumber: 4.7 Consensus size: 40
19934 GCTTCCAAGT
* *
19944 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAA
1 TCGCAACGCGATTTAG-AG--AATCGCAATGCGACTGAGAGAA
* * * *
19987 TCGCAATGCGATTTATAGAATCGCAATGCGATTGAGAGAG
1 TCGCAACGCGATTTAGAGAATCGCAATGCGACTGAGAGAA
20027 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTT---AGAGAATCGCAATGCGACTGAGAGAA
* * *
20070 TCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAA
1 TCGCAACGCGATTTAGAGAATCGCAATGCGACTGAGAGAA
*
20110 TCGCAACGCGATTTAGAAAATCGCAA
1 TCGCAACGCGATTTAGAGAATCGCAA
20136 CGTTGAAAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
40 81 0.62
42 2 0.02
43 48 0.37
ACGTcount: A:0.36, C:0.18, G:0.26, T:0.19
Consensus pattern (40 bp):
TCGCAACGCGATTTAGAGAATCGCAATGCGACTGAGAGAA
Found at i:20055 original size:83 final size:83
Alignment explanation
Indices: 19944--20127 Score: 296
Period size: 83 Copynumber: 2.2 Consensus size: 83
19934 GCTTCCAAGT
* * * * *
19944 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATAGAATCGCAATGCGATTTATAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
* *
20009 GCAATGCGATTGAGAGAG
66 GCAATGCGACTGAGAGAA
*
20027 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
20092 GCAATGCGACTGAGAGAA
66 GCAATGCGACTGAGAGAA
20110 TCGCAACGCGATTTAGAA
1 TCGCAACGCGATTTAGAA
20128 AATCGCAACG
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 93 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (83 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAATGCGACTGAGAGAA
Found at i:20166 original size:6 final size:6
Alignment explanation
Indices: 20155--20226 Score: 144
Period size: 6 Copynumber: 12.0 Consensus size: 6
20145 TAAAATCGCA
20155 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC ACGACC
20203 ACGACC ACGACC ACGACC ACGACC
1 ACGACC ACGACC ACGACC ACGACC
20227 CGAGACGAGA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 66 1.00
ACGTcount: A:0.33, C:0.50, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:20926 original size:6 final size:6
Alignment explanation
Indices: 20915--21004 Score: 180
Period size: 6 Copynumber: 15.0 Consensus size: 6
20905 TCTCGTCTCG
20915 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
20963 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
21005 AATACGTGTC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 84 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:21137 original size:20 final size:20
Alignment explanation
Indices: 21114--21284 Score: 189
Period size: 20 Copynumber: 8.4 Consensus size: 20
21104 ATTTTCAACG
* *
21114 TTGCGATTCTATAAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
21134 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTCTCAATCGCA
* *
21154 TTGCGATTCTCTCAGTCGCG
1 TTGCGATTCTCTCAATCGCA
* *
21174 TTGCGATTTTCTTCTAAATCGCG
1 TTGCGA--TTC-TCTCAATCGCA
* *
21197 TTGCGACTCTCTCAATCGCG
1 TTGCGATTCTCTCAATCGCA
*
21217 TTGCGACTCTCTCAATCGCA
1 TTGCGATTCTCTCAATCGCA
* *
21237 TTGCGATTATATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
*
21257 TTGCGATTCTATCAATCGCA
1 TTGCGATTCTCTCAATCGCA
21277 TTGCGATT
1 TTGCGATT
21285 TTCTTCTAAA
Statistics
Matches: 135, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
20 115 0.85
21 2 0.01
22 3 0.02
23 15 0.11
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (20 bp):
TTGCGATTCTCTCAATCGCA
Found at i:21209 original size:63 final size:63
Alignment explanation
Indices: 21125--21282 Score: 196
Period size: 63 Copynumber: 2.6 Consensus size: 63
21115 TGCGATTCTA
* * * * *
21125 TAAATCGCATTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCGTTGCGATTTTCTTC
1 TAAATCGCATTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTTTCTTC
* * *
21188 TAAATCGCGTTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTAT-ATC
1 TAAATCGCATTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTTTCTTC
* * *
21250 --AATCGCATTGCGATTCTATCAATCGCATTGCGA
1 TAAATCGCATTGCGACTCTCTCAATCGCGTTGCGA
21283 TTTTCTTCTA
Statistics
Matches: 83, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
60 29 0.35
62 2 0.02
63 52 0.63
ACGTcount: A:0.20, C:0.27, G:0.19, T:0.34
Consensus pattern (63 bp):
TAAATCGCATTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTTTCTTC
Found at i:21214 original size:83 final size:83
Alignment explanation
Indices: 21112--21264 Score: 207
Period size: 83 Copynumber: 1.8 Consensus size: 83
21102 TTATTTTCAA
* * * * * * * *
21112 CGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCGTTG
1 CGTTGCGACTCTATAAATCGCATTGCGACTCTCTCAATCGCATTGCGATTATATCAATCGCATTG
21177 CGATTTTCTTCTAAATCG
66 CGATTTTCTTCTAAATCG
* * *
21195 CGTTGCGACTCTCTCAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTATATCAATCGCATTG
1 CGTTGCGACTCTATAAATCGCATTGCGACTCTCTCAATCGCATTGCGATTATATCAATCGCATTG
21260 CGATT
66 CGATT
21265 CTATCAATCG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
83 59 1.00
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (83 bp):
CGTTGCGACTCTATAAATCGCATTGCGACTCTCTCAATCGCATTGCGATTATATCAATCGCATTG
CGATTTTCTTCTAAATCG
Found at i:21281 original size:103 final size:103
Alignment explanation
Indices: 21112--21305 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 103
21102 TTATTTTCAA
* * * * * * * *
21112 CGTTGCGATTCTATAAATCGCATTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCGTTG
1 CGTTGCGACTCTATAAATCGCATTGCGATTATATCAATCGCATTGCGATTCTATCAATCGCATTG
21177 CGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCG
66 CGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCG
* *
21215 CGTTGCGACTCTCTCAATCGCATTGCGATTATATCAATCGCATTGCGATTCTATCAATCGCATTG
1 CGTTGCGACTCTATAAATCGCATTGCGATTATATCAATCGCATTGCGATTCTATCAATCGCATTG
21280 CGATTTTCTTCTAAATCGCGTTGCGA
66 CGATTTTCTTCTAAATCGCGTTGCGA
21306 ACTTGGAAGC
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (103 bp):
CGTTGCGACTCTATAAATCGCATTGCGATTATATCAATCGCATTGCGATTCTATCAATCGCATTG
CGATTTTCTTCTAAATCGCGTTGCGACTCTCTCAATCG
Found at i:21362 original size:20 final size:20
Alignment explanation
Indices: 21112--21389 Score: 148
Period size: 20 Copynumber: 13.6 Consensus size: 20
21102 TTATTTTCAA
* *
21112 CGTTGCGATTCTATAAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
21132 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * *
21152 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
21172 CGTTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
* * *
21195 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
21215 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
21235 CATTGCGATTATATCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
21255 CATTGCGATTCTATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
21275 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
21298 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* * *
21319 CATTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
21337 ACCGTTGCGATTTTCTAAATCG
1 --CGTTGCGATTTTCTAAATCG
* *
21359 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
21378 CGTTGCGATTTT
1 CGTTGCGATTTT
21390 ATTGGTCATT
Statistics
Matches: 210, Mismatches: 37, Indels: 23
0.78 0.14 0.09
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 143 0.68
21 13 0.06
22 6 0.03
23 29 0.14
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:21379 original size:19 final size:20
Alignment explanation
Indices: 21339--21389 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
21329 TTCTTTTGAC
*
21339 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
21359 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
21378 CGTTGCGATTTT
1 CGTTGCGATTTT
21390 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:21860 original size:12 final size:12
Alignment explanation
Indices: 21834--21880 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
21824 TATTAACATA
*
21834 TTTAA-AATATA
1 TTTAATAATATT
*
21845 TTTATTAATATT
1 TTTAATAATATT
21857 TTTAATAATATT
1 TTTAATAATATT
*
21869 ATATAATAATAT
1 -TTTAATAATAT
21881 ACTCAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 4 0.13
12 16 0.53
13 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTAATAATATT
Found at i:21860 original size:23 final size:23
Alignment explanation
Indices: 21813--21867 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
21803 CATTTTAATA
21813 AAAATATTAATTATTAACATATTT
1 AAAATA-TAATTATTAACATATTT
* * *
21837 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAACATATTT
21860 AATAATAT
1 AA-AATAT
21868 TATATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAAATATAATTATTAACATATTT
Found at i:21877 original size:13 final size:12
Alignment explanation
Indices: 21831--21880 Score: 52
Period size: 13 Copynumber: 4.3 Consensus size: 12
21821 AATTATTAAC
*
21831 ATATTTAAAAT-
1 ATATTTATAATA
21842 ATATTTAT--TA
1 ATATTTATAATA
*
21852 ATATTTTTAATA
1 ATATTTATAATA
21864 ATATTATATAATA
1 ATATT-TATAATA
21877 ATAT
1 ATAT
21881 ACTCAATTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 1 0.03
10 7 0.22
11 7 0.22
12 7 0.22
13 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATATTTATAATA
Found at i:21912 original size:23 final size:21
Alignment explanation
Indices: 21864--21913 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 21
21854 ATTTTTAATA
21864 ATATTATATAATAATATACTC
1 ATATTATATAATAATATACTC
* *
21885 A-ATTATATTATAATAATACATG
1 ATATTATATAATAAT-ATAC-TC
21907 ATATTAT
1 ATATTAT
21914 TATATTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.50
21 5 0.21
22 2 0.08
23 5 0.21
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (21 bp):
ATATTATATAATAATATACTC
Found at i:22080 original size:23 final size:21
Alignment explanation
Indices: 22053--22107 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
22043 TTGTCTAATA
22053 ATATTATAAAAATTCCTTAAAAT
1 ATATTATAAAAATT--TTAAAAT
*
22076 ATATTTAGTAATAATTTTAAAAT
1 ATA-TTA-TAAAAATTTTAAAAT
*
22099 ATAATATAA
1 ATATTATAA
22108 TATTTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
ATATTATAAAAATTTTAAAAT
Found at i:22108 original size:21 final size:23
Alignment explanation
Indices: 22069--22115 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
22059 TAAAAATTCC
*
22069 TTAAAATATATTTAGTAATAATT
1 TTAAAATATATATAGTAATAATT
*
22092 TTAAAATATA-ATA-TAATATTT
1 TTAAAATATATATAGTAATAATT
22113 TTA
1 TTA
22116 TTTTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 10 0.45
22 2 0.09
23 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTAAAATATATATAGTAATAATT
Found at i:22307 original size:22 final size:20
Alignment explanation
Indices: 22255--22308 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
22245 ATTATTCTAA
*
22255 TATTTTTAAAATAATAATAT
1 TATTTTTATAATAATAATAT
22275 TAAGTTTTTATAATAAATAATAT
1 T-A-TTTTTATAAT-AATAATAT
22298 TATTTATTATA
1 TATTT-TTATA
22309 TTTTATATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.14
22 15 0.52
23 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TATTTTTATAATAATAATAT
Found at i:25411 original size:2 final size:2
Alignment explanation
Indices: 25366--25399 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
25356 AAAATTTCAA
25366 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
25400 TGATAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26087 original size:60 final size:60
Alignment explanation
Indices: 25989--26105 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 60
25979 TTAATCGGGT
* * * * *
25989 GACTATTTTATAACTTATAATAGTCGGATAATTTAATAAAGTAATA-CTTTATAATCGATA
1 GACTATTTTATAACTTATAATAATCGGAAAATTCAATAAAATAACATC-TTATAATCGATA
* *
26049 GACTATTTTATAACTTTTAATAAT-TGAAAGATTCAATAAAATAACATCTTATAATCG
1 GACTATTTTATAACTTATAATAATCGGAAA-ATTCAATAAAATAACATCTTATAATCG
26106 GAAATTATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 3 0.06
60 44 0.92
61 1 0.02
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (60 bp):
GACTATTTTATAACTTATAATAATCGGAAAATTCAATAAAATAACATCTTATAATCGATA
Found at i:29992 original size:6 final size:6
Alignment explanation
Indices: 29983--30014 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
29973 TAAGTCTAAT
*
29983 ACTAGC ACTAGA ACTAGA ACTAGA ACTAGA AC
1 ACTAGA ACTAGA ACTAGA ACTAGA ACTAGA AC
30015 CCTTCCAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.47, C:0.22, G:0.16, T:0.16
Consensus pattern (6 bp):
ACTAGA
Found at i:46990 original size:19 final size:19
Alignment explanation
Indices: 46966--47005 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
46956 TAGTTGGCTA
46966 CCATCTAGAAGATTAGCCG
1 CCATCTAGAAGATTAGCCG
46985 CCATCTAGAAGATTAGCCG
1 CCATCTAGAAGATTAGCCG
47004 CC
1 CC
47006 CATGATTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (19 bp):
CCATCTAGAAGATTAGCCG
Found at i:51236 original size:22 final size:22
Alignment explanation
Indices: 51210--51254 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51200 AGTTATTGAG
*
51210 TCCGTTGCTGAGTTACTCATGT
1 TCCGTTGCTAAGTTACTCATGT
51232 TCCGTTGCTAAGTTACTCATGT
1 TCCGTTGCTAAGTTACTCATGT
51254 T
1 T
51255 ATAAATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (22 bp):
TCCGTTGCTAAGTTACTCATGT
Found at i:54171 original size:15 final size:16
Alignment explanation
Indices: 54134--54173 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
54124 TTCATACAGA
*
54134 GAATCATTCAACATTT
1 GAATCATTCAACACTT
*
54150 GAATCATTCAACGCTT
1 GAATCATTCAACACTT
54166 -AATCATTC
1 GAATCATTC
54174 TGAAGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.35, C:0.23, G:0.07, T:0.35
Consensus pattern (16 bp):
GAATCATTCAACACTT
Found at i:56918 original size:3 final size:3
Alignment explanation
Indices: 56910--56968 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
56900 AATTAAGGAT
56910 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
56958 TTC TTC TTC TT
1 TTC TTC TTC TT
56969 ACCTTTGGGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:59154 original size:3 final size:3
Alignment explanation
Indices: 59146--59196 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
59136 ATTATAAGTA
59146 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
59194 AAT
1 AAT
59197 TCACGAGAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:62299 original size:60 final size:61
Alignment explanation
Indices: 62217--62331 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 61
62207 TTCTTCTCCA
*
62217 TTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGCAGCTACACCCCACCATCAATTC
1 TTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCATCAATTC
* * * *
62278 TTCTTC-TCTCTCTTACCTTTCCGCTTAAAAACCAGGGAAGCTACATCCCACCAT
1 TTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCAT
62332 GAATAAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 43 0.88
61 6 0.12
ACGTcount: A:0.26, C:0.35, G:0.08, T:0.31
Consensus pattern (61 bp):
TTCTTCTTATCTCTTACCTTTCCACTTAAAAAACAGGGAAGCTACACCCCACCATCAATTC
Found at i:63940 original size:31 final size:31
Alignment explanation
Indices: 63902--63984 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
63892 GTTAGCGGTA
63902 AGTGACTAATTTATTATAAATTAATAACATT
1 AGTGACTAATTTATTATAAATTAATAACATT
* * *
63933 AGTGACTAATTTGTTATAAATTGATAACGTT
1 AGTGACTAATTTATTATAAATTAATAACATT
* *
63964 ATTGA-TCAATTTATTACAAAT
1 AGTGACT-AATTTATTATAAAT
63985 CAAAAATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 1 0.02
31 44 0.98
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTGACTAATTTATTATAAATTAATAACATT
Found at i:65379 original size:35 final size:35
Alignment explanation
Indices: 65314--65383 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
65304 AACATCTACC
65314 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
65349 AAACATTTACCAAACTTT-AAAAACCA-TTTTCAAAG
1 AAAC-TTTACCAAACTTTGAAAAA-CATTTTTCAAAG
65384 TTGGTTGCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 18 0.55
36 15 0.45
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:69853 original size:35 final size:35
Alignment explanation
Indices: 69788--69856 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
69778 AACATCTACC
69788 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
*
69823 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAA
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAA
69857 TTTGGTTGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.30
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:72345 original size:18 final size:18
Alignment explanation
Indices: 72319--72359 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
72309 CCTCTTGAAA
*
72319 ATTTAAATTTTTTCATAT
1 ATTTTAATTTTTTCATAT
* *
72337 ATTTTAATTTTTTTATGT
1 ATTTTAATTTTTTCATAT
72355 ATTTT
1 ATTTT
72360 CTATTGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTTTAATTTTTTCATAT
Found at i:72348 original size:19 final size:18
Alignment explanation
Indices: 72320--72359 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
72310 CTCTTGAAAA
72320 TTTAAATTTTTTCATATAT
1 TTTAAATTTTTT-ATATAT
* *
72339 TTTAATTTTTTTATGTAT
1 TTTAAATTTTTTATATAT
72357 TTT
1 TTT
72360 CTATTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTAAATTTTTTATATAT
Found at i:74552 original size:28 final size:29
Alignment explanation
Indices: 74512--74574 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
74502 AAGGATTTCC
*
74512 AAATAATGAACAG-TTACTTTTTAAAAAA
1 AAATAATGAACAGTTTACTTTTCAAAAAA
* *
74540 AAATAATGAACAGTTTTCTTTTCAAAAAT
1 AAATAATGAACAGTTTACTTTTCAAAAAA
74569 AAATAA
1 AAATAA
74575 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 13 0.42
29 18 0.58
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.33
Consensus pattern (29 bp):
AAATAATGAACAGTTTACTTTTCAAAAAA
Found at i:77339 original size:15 final size:15
Alignment explanation
Indices: 77319--77400 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
77309 TTTCAGAAAA
77319 TGAATTACTGGAATT
1 TGAATTACTGGAATT
77334 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
77349 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
77364 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
77379 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
77393 TGAATTAC
1 TGAATTAC
77401 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:77353 original size:30 final size:30
Alignment explanation
Indices: 77319--77400 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
77309 TTTCAGAAAA
**
77319 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
77349 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
77379 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
77401 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:77378 original size:45 final size:44
Alignment explanation
Indices: 77314--77400 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
77304 TGGTTTTTCA
**
77314 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
77359 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
77401 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:77406 original size:20 final size:20
Alignment explanation
Indices: 77383--77452 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
77373 GGAATTTGAA
77383 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
77403 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
77423 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
77443 TTCTGGAAAA
1 TTCTGGAAAA
77453 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:77711 original size:32 final size:33
Alignment explanation
Indices: 77630--77712 Score: 84
Period size: 32 Copynumber: 2.6 Consensus size: 33
77620 TGAAATATAT
*
77630 AAATAATATTAT-TCATTATTAAATATATAAAAA
1 AAAT-ATATTATATTATTATTAAATATATAAAAA
*
77663 AAATTTATTATA-TATTATTAAA-ATA-AAAATA
1 AAATATATTATATTATTATTAAATATATAAAA-A
* *
77694 TAATATCTTATATTATTAT
1 AAATATATTATATTATTAT
77713 AATATAATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
30 4 0.10
31 13 0.31
32 21 0.50
33 4 0.10
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (33 bp):
AAATATATTATATTATTATTAAATATATAAAAA
Found at i:77757 original size:22 final size:23
Alignment explanation
Indices: 77732--77775 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
77722 GATTATTTTA
77732 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
77754 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
77776 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:77780 original size:22 final size:22
Alignment explanation
Indices: 77736--77792 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
77726 ATTTTATATA
* *
77736 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
77757 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
77779 ATATTTTAAATATT
1 ATATTATAAATATT
77793 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:77791 original size:52 final size:51
Alignment explanation
Indices: 77672--77792 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
77662 AAAATTTATT
**
77672 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
77723 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
77777 ATATATTTTAAATATT
1 ATATATTTTAAATATT
77793 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:78040 original size:42 final size:42
Alignment explanation
Indices: 77981--78100 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
77971 ATGAATTACA
*
77981 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
78023 TTCCGGAAAATGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
78065 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
78101 TTCGAGGAAA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:79414 original size:67 final size:67
Alignment explanation
Indices: 79306--79437 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
79296 TTCATACCCC
* *
79306 TCTACTTCTCTTTATCCAAACATACCAGTCACTAGCATCAACTTATTGACTTAGGTGCTGCACTG
1 TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
79371 CT
66 CT
* *
79373 TCTACTTCTCTTTATCCAAGCATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTTCACTG
1 TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
79438 GTAGCTCTAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (67 bp):
TCTACTTCTCTTTATCCAAACATACCAGTCAATAGCATCAACTTATTGACTTAGATGCTGCACTG
CT
Found at i:81289 original size:5 final size:5
Alignment explanation
Indices: 81279--81303 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
81269 ATTCTATTGA
81279 TTCGG TTCGG TTCGG TTCGG TTCGG
1 TTCGG TTCGG TTCGG TTCGG TTCGG
81304 GTTTTCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
TTCGG
Found at i:82858 original size:16 final size:16
Alignment explanation
Indices: 82815--82851 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
82805 TAAAATATAC
82815 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
82831 ATTCCAATAATCTTTT
1 ATTCCAATAATCTTTT
82847 ATTCC
1 ATTCC
82852 TTTAATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.30, C:0.22, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTCCAATAATCTTTT
Found at i:95470 original size:22 final size:23
Alignment explanation
Indices: 95442--95485 Score: 72
Period size: 22 Copynumber: 1.9 Consensus size: 23
95432 ACATCATTAT
95442 TATGCATTATTAT-AATAAAACG
1 TATGCATTATTATCAATAAAACG
95464 TATGCATTATTATGCAATAAAA
1 TATGCATTATTAT-CAATAAAA
95486 AACTCCACGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.65
24 7 0.35
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
TATGCATTATTATCAATAAAACG
Found at i:97920 original size:4 final size:4
Alignment explanation
Indices: 97913--97943 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
97903 TGATAAATAT
97913 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
97944 TACACGTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:100313 original size:16 final size:16
Alignment explanation
Indices: 100294--100331 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
100284 ATTTATAAAT
100294 ATTATATTTTAATTAA
1 ATTATATTTTAATTAA
100310 ATTATATTTTAATTAA
1 ATTATATTTTAATTAA
*
100326 TTTATA
1 ATTATA
100332 ATTATACGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATATTTTAATTAA
Found at i:105308 original size:121 final size:121
Alignment explanation
Indices: 105094--105335 Score: 466
Period size: 121 Copynumber: 2.0 Consensus size: 121
105084 ACTGAGAACA
105094 GAGGATATTTGCAGCGAATCTTACAGCTAGTCAATCAGGCAGCTGAGGAAAAAGATTCACCTAAG
1 GAGGATATTTGCAGCGAATCTTACAGCTAGTCAATCAGGCAGCTGAGGAAAAAGATTCACCTAAG
* *
105159 TTAGTGAAGAACCAACCACCAGCAGTTGAAAAACAGGACAAAAGTGAAGGTAAAGC
66 TCAGTGAAGAACCAACCACCAACAGTTGAAAAACAGGACAAAAGTGAAGGTAAAGC
105215 GAGGATATTTGCAGCGAATCTTACAGCTAGTCAATCAGGCAGCTGAGGAAAAAGATTCACCTAAG
1 GAGGATATTTGCAGCGAATCTTACAGCTAGTCAATCAGGCAGCTGAGGAAAAAGATTCACCTAAG
105280 TCAGTGAAGAACCAACCACCAACAGTTGAAAAACAGGACAAAAGTGAAGGTAAAGC
66 TCAGTGAAGAACCAACCACCAACAGTTGAAAAACAGGACAAAAGTGAAGGTAAAGC
105336 ACCATGTTTA
Statistics
Matches: 119, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 119 1.00
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.17
Consensus pattern (121 bp):
GAGGATATTTGCAGCGAATCTTACAGCTAGTCAATCAGGCAGCTGAGGAAAAAGATTCACCTAAG
TCAGTGAAGAACCAACCACCAACAGTTGAAAAACAGGACAAAAGTGAAGGTAAAGC
Found at i:110141 original size:18 final size:19
Alignment explanation
Indices: 110104--110141 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
110094 CACGAAATGT
*
110104 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GAGAATAA
110124 AAGATTACCA-GAGAATAA
1 AAGATTACCAGGAGAATAA
110142 GATTACTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGAGAATAA
Found at i:110307 original size:15 final size:15
Alignment explanation
Indices: 110289--110319 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110279 AAATTCTAAA
110289 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
110304 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
110319 T
1 T
110320 TTATCTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:110418 original size:11 final size:11
Alignment explanation
Indices: 110402--110426 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
110392 ATAATTTATG
110402 TAAAAATATAT
1 TAAAAATATAT
110413 TAAAAATATAT
1 TAAAAATATAT
110424 TAA
1 TAA
110427 TGTTTACATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
TAAAAATATAT
Found at i:121683 original size:22 final size:22
Alignment explanation
Indices: 121658--121801 Score: 234
Period size: 22 Copynumber: 6.5 Consensus size: 22
121648 GGGTATATTA
121658 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
121680 GTCCTTCGGGATGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
121702 GTCCTTCGGGATGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
121724 GTCCTTCGGGACATATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
121746 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
121768 ATCTTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
121790 GTCCTTCAGGAC
1 GTCCTTCGGGAC
121802 ATAATAGTCC
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 113 1.00
ACGTcount: A:0.15, C:0.26, G:0.30, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:122995 original size:87 final size:87
Alignment explanation
Indices: 122845--123006 Score: 306
Period size: 87 Copynumber: 1.9 Consensus size: 87
122835 GTGACAGCTG
122845 TTCTCTCTCACTATTCATGCATGATTTCTTTCTTTCATCATTTGCCACCGTCTTAATCATCTGTA
1 TTCTCTCTCACTATTCATGCATGATTTCTTTCTTTCATCATTTGCCACCGTCTTAATCATCTGTA
122910 CATTTTTTCCACTATGCATGAT
66 CATTTTTTCCACTATGCATGAT
* *
122932 TTCTTTCTCACTATTCATGCATGATTTCTTTCTTTCATCATTTGCCACTGTCTTAATCATCTGTA
1 TTCTCTCTCACTATTCATGCATGATTTCTTTCTTTCATCATTTGCCACCGTCTTAATCATCTGTA
122997 CATTTTTTCC
66 CATTTTTTCC
123007 CCTCAGTTCA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.19, C:0.26, G:0.07, T:0.48
Consensus pattern (87 bp):
TTCTCTCTCACTATTCATGCATGATTTCTTTCTTTCATCATTTGCCACCGTCTTAATCATCTGTA
CATTTTTTCCACTATGCATGAT
Found at i:127809 original size:16 final size:16
Alignment explanation
Indices: 127785--127818 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
127775 GATAATAATC
127785 AATAAAAATATTTTAA
1 AATAAAAATATTTTAA
* *
127801 AATATAAATCTTTTAA
1 AATAAAAATATTTTAA
127817 AA
1 AA
127819 GAACCAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAAAAATATTTTAA
Found at i:129013 original size:2 final size:2
Alignment explanation
Indices: 129006--129056 Score: 93
Period size: 2 Copynumber: 25.0 Consensus size: 2
128996 TAAATTTTGA
129006 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
129048 AT AT CAT AT
1 AT AT -AT AT
129057 GTTTATATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 46 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:130238 original size:42 final size:42
Alignment explanation
Indices: 130168--130301 Score: 232
Period size: 42 Copynumber: 3.1 Consensus size: 42
130158 AAAGATACAT
*
130168 TTTATATGTATATACATTTTAATCTATTAGTAATTTGTATTGAA
1 TTTATAT-T-TATACATTTTAATTTATTAGTAATTTGTATTGAA
*
130212 TTTATATTTATTCATTTTAATTTATTAGTAATTTGTATTGAA
1 TTTATATTTATACATTTTAATTTATTAGTAATTTGTATTGAA
130254 TTTATATTTATACATTTTAATTTATTAGTAATTTGTATTGAA
1 TTTATATTTATACATTTTAATTTATTAGTAATTTGTATTGAA
130296 TTTATA
1 TTTATA
130302 ACATTTTTGA
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
42 79 0.91
43 1 0.01
44 7 0.08
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (42 bp):
TTTATATTTATACATTTTAATTTATTAGTAATTTGTATTGAA
Found at i:132686 original size:23 final size:21
Alignment explanation
Indices: 132666--132735 Score: 68
Period size: 23 Copynumber: 3.1 Consensus size: 21
132656 TTAATATGCA
132666 ATACGTGATACATGTGATATG
1 ATACGTGATACATGTGATATG
* ** *
132687 ATATGAAATGACATATGAATATG
1 ATACGTGAT-ACATGTG-ATATG
132710 TTATACGTGATACATGTGATATG
1 --ATACGTGATACATGTGATATG
132733 ATA
1 ATA
132736 TGAAATACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
21 9 0.24
22 6 0.16
23 10 0.27
24 6 0.16
25 6 0.16
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.34
Consensus pattern (21 bp):
ATACGTGATACATGTGATATG
Found at i:132692 original size:46 final size:46
Alignment explanation
Indices: 132641--132745 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
132631 ATATGTGACT
* *
132641 ATATGAAATGATATATTAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
**
132687 ATATGAAATGACATATGAATATGTTATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
132733 ATATGAAAT-ACAT
1 ATATGAAATGACAT
132746 GGTTACACAT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
45 4 0.07
46 51 0.93
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.34
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:132950 original size:38 final size:38
Alignment explanation
Indices: 132899--132989 Score: 128
Period size: 38 Copynumber: 2.4 Consensus size: 38
132889 GACATATCAT
* *
132899 AGGTCCTACGGGACACAGATTACATCATTCGGGATGAC
1 AGGTCCTTCGGGACACAGATGACATCATTCGGGATGAC
* * *
132937 AGGTCCTTTGGGACACAGATGACATCCTTCGGGATGAT
1 AGGTCCTTCGGGACACAGATGACATCATTCGGGATGAC
*
132975 AGGTCATTCGGGACA
1 AGGTCCTTCGGGACA
132990 TTTGTACGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (38 bp):
AGGTCCTTCGGGACACAGATGACATCATTCGGGATGAC
Found at i:139579 original size:46 final size:45
Alignment explanation
Indices: 139529--139621 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 45
139519 ATGTAATAAT
139529 ATATGAATATGCAATACGTGATACATGTGATATGATATGAAATGAC
1 ATATGAATATGCAATACGTGATACATGTGATATGATATGAAAT-AC
*
139575 ATATGAATATGTAATACGTGATACATGTGATATGATATGAAATAC
1 ATATGAATATGCAATACGTGATACATGTGATATGATATGAAATAC
139620 AT
1 AT
139622 GGTTACACAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 4 0.09
46 42 0.91
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (45 bp):
ATATGAATATGCAATACGTGATACATGTGATATGATATGAAATAC
Found at i:139607 original size:23 final size:22
Alignment explanation
Indices: 139535--139609 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
139525 TAATATATGA
139535 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
139558 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
139580 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
139604 ATATGA
1 ATATGA
139610 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:139826 original size:38 final size:38
Alignment explanation
Indices: 139770--139865 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
139760 TATAAGACAT
* *
139770 ATGATAGGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
139808 ATGACAGGTCCTTCGGGACACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
*
139846 ATGATAGGTCTTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
139866 TTTGTACGAG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:139842 original size:21 final size:21
Alignment explanation
Indices: 139778--139846 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
139768 ATATGATAGG
* *
139778 TCCTACGGGACACAGATTACA
1 TCCTTCGGGACACAGATGACA
*
139799 TCCTTCGGGATGACAG--G---
1 TCCTTCGGGA-CACAGATGACA
139816 TCCTTCGGGACACAGATGACA
1 TCCTTCGGGACACAGATGACA
139837 TCCTTCGGGA
1 TCCTTCGGGA
139847 TGATAGGTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
16 4 0.11
17 10 0.26
18 1 0.03
21 19 0.50
22 4 0.11
ACGTcount: A:0.25, C:0.28, G:0.26, T:0.22
Consensus pattern (21 bp):
TCCTTCGGGACACAGATGACA
Found at i:147382 original size:23 final size:23
Alignment explanation
Indices: 147345--147414 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 23
147335 TAAAACTTTA
* **
147345 AATTATAAAGT-ATTAAACGTAT
1 AATTATAAATTAATTAAAAATAT
*
147367 AATTATAAATTAATTAAAAATCT
1 AATTATAAATTAATTAAAAATAT
* *
147390 AAATATAATTTAATT-AAAATAT
1 AATTATAAATTAATTAAAAATAT
147412 AAT
1 AAT
147415 ATTTATAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 18 0.46
23 21 0.54
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (23 bp):
AATTATAAATTAATTAAAAATAT
Found at i:149788 original size:22 final size:22
Alignment explanation
Indices: 149760--149806 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
149750 TTTTATTCCC
149760 GTTAGTTTAATCCAAGCTACAT
1 GTTAGTTTAATCCAAGCTACAT
149782 GTTAGTTTAATCCAAGCTACAT
1 GTTAGTTTAATCCAAGCTACAT
149804 GTT
1 GTT
149807 TTCTTCCCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
GTTAGTTTAATCCAAGCTACAT
Found at i:151964 original size:17 final size:18
Alignment explanation
Indices: 151937--151970 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
151927 ATTAATATAA
*
151937 TTATATAAATATTATTTT
1 TTATATAAATAATATTTT
151955 TTAT-TAAATAATATTT
1 TTATATAAATAATATTT
151971 ATAATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATAAATAATATTTT
Found at i:151985 original size:30 final size:30
Alignment explanation
Indices: 151914--151987 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
151904 TAAAAATAGT
151914 TATTATATTTTATATTAATATAATTATATAAA
1 TATTAT-TTTT-TATTAATATAATTATATAAA
*
151946 TATTATTTTTTATTAA-ATAA-TATTTATAA
1 TATTATTTTTTATTAATATAATTATATA-AA
151975 TAATTATTTTTTA
1 T-ATTATTTTTTA
151988 AAATTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
28 5 0.13
29 7 0.18
30 17 0.44
31 4 0.10
32 6 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (30 bp):
TATTATTTTTTATTAATATAATTATATAAA
Found at i:153282 original size:43 final size:43
Alignment explanation
Indices: 153211--153378 Score: 207
Period size: 43 Copynumber: 3.9 Consensus size: 43
153201 ATATATAGCG
* *
153211 ACAAACGCCGCAATAAGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAATAAGTCTTGAGATTTAGCGGCGTTTTTCCC
* ***
153254 ACAAACGCCGCAATATGTCTTGAGATTTAGCGGCGTTTTTGAA
1 ACAAACGCCGCAATAAGTCTTGAGATTTAGCGGCGTTTTTCCC
* **
153297 ACAAACGCCGCAATAGGTCTTGAGATTTAGCGATGTTTTTCCC
1 ACAAACGCCGCAATAAGTCTTGAGATTTAGCGGCGTTTTTCCC
*
153340 ACAAACGCCGCAA-AAGATC-TG-GTATATAGCGGCGTTTTT
1 ACAAACGCCGCAATAAG-TCTTGAG-ATTTAGCGGCGTTTTT
153379 TAGAACAAAC
Statistics
Matches: 107, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.01
42 17 0.16
43 89 0.83
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
ACAAACGCCGCAATAAGTCTTGAGATTTAGCGGCGTTTTTCCC
Found at i:153379 original size:43 final size:42
Alignment explanation
Indices: 153211--153397 Score: 189
Period size: 43 Copynumber: 4.4 Consensus size: 42
153201 ATATATAGCG
* * *
153211 ACAAACGCCGCAATAAGTGTTGATATTTAGCGGCGTTTTTCCC
1 ACAAACGCCGCAA-AAGTCTTGAGATTTAGCGGCGTTTTTCCA
* **
153254 ACAAACGCCGCAATATGTCTTGAGATTTAGCGGCGTTTTTGAA
1 ACAAACGCCGCAA-AAGTCTTGAGATTTAGCGGCGTTTTTCCA
* ** *
153297 ACAAACGCCGCAATAGGTCTTGAGATTTAGCGATGTTTTTCCC
1 ACAAACGCCGCAA-AAGTCTTGAGATTTAGCGGCGTTTTTCCA
* **
153340 ACAAACGCCGCAAAAGATC-TG-GTATATAGCGGCGTTTTTTAGA
1 ACAAACGCCGCAAAAG-TCTTGAG-ATTTAGCGGCG-TTTTTCCA
153383 ACAAACGCCGCAAAA
1 ACAAACGCCGCAAAA
153398 TGTCATATCT
Statistics
Matches: 122, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 12 0.10
43 109 0.89
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (42 bp):
ACAAACGCCGCAAAAGTCTTGAGATTTAGCGGCGTTTTTCCA
Found at i:153379 original size:86 final size:86
Alignment explanation
Indices: 153211--153395 Score: 243
Period size: 86 Copynumber: 2.2 Consensus size: 86
153201 ATATATAGCG
* * * *
153211 ACAAACGCCGCAATAAGTGTTGATATTTAGCGGCGTTTTTCCCACAAACGCCGCAATATGTCTTG
1 ACAAACGCCGCAATAAGTCTTGAGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAAGTCTTG
*
153276 AGATTTAGCGGCGTTTTT-GAA
66 AGATATAGCGGCGTTTTTAG-A
* *
153297 ACAAACGCCGCAATAGGTCTTGAGATTTAGCGATGTTTTTCCCACAAACGCCGCAA-AAGATC-T
1 ACAAACGCCGCAATAAGTCTTGAGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAAG-TCTT
153360 G-GTATATAGCGGCGTTTTTTAGA
65 GAG-ATATAGCGGCG-TTTTTAGA
153383 ACAAACGCCGCAA
1 ACAAACGCCGCAA
153396 AATGTCATAT
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
84 1 0.01
85 14 0.16
86 72 0.82
87 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (86 bp):
ACAAACGCCGCAATAAGTCTTGAGATTTAGCGACGTTTTTCCCACAAACGCCGCAATAAGTCTTG
AGATATAGCGGCGTTTTTAGA
Found at i:153582 original size:22 final size:22
Alignment explanation
Indices: 153548--153607 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 22
153538 ATTTTCCAAT
*
153548 AAACTTGACATCCATAAACAAC
1 AAACTTGAAATCCATAAACAAC
* *
153570 AAACTTAAAATCCAT-AACAAG
1 AAACTTGAAATCCATAAACAAC
*
153591 AAAATTGAAATCCATAA
1 AAACTTGAAATCCATAA
153608 TAATAAATCA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (22 bp):
AAACTTGAAATCCATAAACAAC
Found at i:156569 original size:41 final size:41
Alignment explanation
Indices: 156523--156956 Score: 348
Period size: 41 Copynumber: 10.6 Consensus size: 41
156513 ACATACCAAA
*
156523 CTATTGCGGCTTTTGTATAAAAACGCCGCTAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
* * * * * *
156564 TTATTGTGGCGTTTGT-TGAAAAAATGCCACTACAG-A-TGAACC
1 CTATTGCGGCGTTTGTAT--AAAAACGCCGCTAAAGTACT--ACT
156606 CTATTGCGGCGTTTGTATAAAAAGCGCCGCTAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAA-CGCCGCTAAAGTACTACT
* * * * * *
156648 CTATTGCGGCATTTCT-TGAAAATGCCACTAAAG-A-TGAACC
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACT--ACT
** * * * *
156688 CTATTATGGCATTTTTATAAAAATGCCACTAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
* * * * * * *
156729 CTATTACGGTGTTTGTTGAAAAAAATGCCACTACAG-A-TGAACC
1 CTATTGCGGCGTTTG-T-ATAAAAACGCCGCTAAAGTACT--ACT
* * *
156772 CTATTGAGACGTTTGTATAAAAACGCCGCTAAAGTAATACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
* *
156813 CTATTGAGGCATTTGTATAAAAACGCCGCTAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
* * * *
156854 CTGTTGCAGCGTTTGTATAAAAACGCCCCAAAAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
* * *
156895 CTATCGCAGCGTTTGTATAAAAACACCGCT-AAGTACTACT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
*
156935 CTTTTGCGGCGTTTGT-TAAAAA
1 CTATTGCGGCGTTTGTATAAAAA
156957 AACGGCACTA
Statistics
Matches: 317, Mismatches: 57, Indels: 40
0.77 0.14 0.10
Matches are distributed among these distances:
38 1 0.00
39 7 0.02
40 49 0.15
41 168 0.53
42 58 0.18
43 33 0.10
44 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
Found at i:156611 original size:42 final size:42
Alignment explanation
Indices: 156565--156787 Score: 167
Period size: 42 Copynumber: 5.4 Consensus size: 42
156555 AGTACTACTT
* *
156565 TATTGTGGCGTTTGTTGAAAAAATGCCACTACAGATGAACCC
1 TATTGCGGCGTTTGTTGAAAAAATGCCACTAAAGATGAACCC
** * *
156607 TATTGCGGCGTTTGTAT-AAAAAGCGCCGCTAAAG-T-ACTACTC
1 TATTGCGGCGTTTGT-TGAAAAAATGCCACTAAAGATGA--ACCC
* *
156649 TATTGCGGCATTTCTTG--AAAATGCCACTAAAGATGAACCC
1 TATTGCGGCGTTTGTTGAAAAAATGCCACTAAAGATGAACCC
** * *
156689 TATTATGGCATTT-TT-ATAAAAATGCCACTAAAG-T-ACTACTC
1 TATTGCGGCGTTTGTTGA-AAAAATGCCACTAAAGATGA--ACCC
* * *
156730 TATTACGGTGTTTGTTGAAAAAAATGCCACTACAGATGAACCC
1 TATTGCGGCGTTTGTTG-AAAAAATGCCACTAAAGATGAACCC
* *
156773 TATTGAGACGTTTGT
1 TATTGCGGCGTTTGT
156788 ATAAAAACGC
Statistics
Matches: 141, Mismatches: 24, Indels: 31
0.72 0.12 0.16
Matches are distributed among these distances:
39 3 0.02
40 28 0.20
41 31 0.22
42 46 0.33
43 30 0.21
44 2 0.01
45 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (42 bp):
TATTGCGGCGTTTGTTGAAAAAATGCCACTAAAGATGAACCC
Found at i:156653 original size:84 final size:83
Alignment explanation
Indices: 156523--156898 Score: 422
Period size: 84 Copynumber: 4.5 Consensus size: 83
156513 ACATACCAAA
* * * *
156523 CTATTGCGGCTTTTGTATAAAAACGCCGCTAAAGTACTACTTTATTGTGGCGTTTGTTGAAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAA
*
156588 TGCCACTACAGATGAACC
66 TGCCACTAAAGATGAACC
*
156606 CTATTGCGGCGTTTGTATAAAAAGCGCCGCTAAAGTACTACTCTATTGCGGCATTTCTTG--AAA
1 CTATTGCGGCGTTTGTATAAAAA-CGCCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAA
156669 ATGCCACTAAAGATGAACC
65 ATGCCACTAAAGATGAACC
** * * * * * **
156688 CTATTATGGCATTTTTATAAAAATGCCACTAAAGTACTACTCTATTACGGTGTTTGTTGAAAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCATTTGTTG-AAAAA
*
156753 ATGCCACTACAGATGAACC
65 ATGCCACTAAAGATGAACC
* * * *
156772 CTATTGAGACGTTTGTATAAAAACGCCGCTAAAGTAATACTCTATTGAGGCATTTG-T-ATAAAA
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCATTTGTTGA-AAAA
* * *
156835 ACGCCGCTAAAG-T-ACTACT
65 ATGCCACTAAAGATGA--ACC
* * * *
156854 CTGTTGCAGCGTTTGTATAAAAACGCCCCAAAAGTACTACTCTAT
1 CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTAT
156899 CGCAGCGTTT
Statistics
Matches: 246, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
80 1 0.00
81 32 0.13
82 93 0.38
83 23 0.09
84 97 0.39
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (83 bp):
CTATTGCGGCGTTTGTATAAAAACGCCGCTAAAGTACTACTCTATTGCGGCATTTGTTGAAAAAA
TGCCACTAAAGATGAACC
Found at i:156875 original size:166 final size:164
Alignment explanation
Indices: 156534--156898 Score: 464
Period size: 166 Copynumber: 2.2 Consensus size: 164
156524 TATTGCGGCT
* * **
156534 TTTGTATAAAAACGCCGCTAAAGTACTACTTTATTGTGGCGTTTGTTGAAAAAATGCCACTACAG
1 TTTGTATAAAAACGCCACTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTACAG
* * * *
156599 ATGAACCCTATTGCGGCGTTTGTATAAAAAGCGCCGCTAAAGTACTACTCTATTGCGGCATTTCT
66 ATGAACCCTATTGAGACGTTTGTATAAAAAGCGCCGCTAAAGTAATACTCTATTGAGGCATTTCT
* * **
156664 TGAAAATGCCACTAAAGATGAACCCTATTATGGCA
131 TAAAAACGCCACTAAAGAT-AACCCTATTACAGCA
* * *
156699 TTTTTATAAAAATGCCACTAAAGTACTACTCTATTACGGTGTTTGTTGAAAAAAATGCCACTACA
1 TTTGTATAAAAACGCCACTAAAGTACTACTCTATTACGGCGTTTGTTG-AAAAAATGCCACTACA
*
156764 GATGAACCCTATTGAGACGTTTGTATAAAAA-CGCCGCTAAAGTAATACTCTATTGAGGCATTTG
65 GATGAACCCTATTGAGACGTTTGTATAAAAAGCGCCGCTAAAGTAATACTCTATTGAGGCATTTC
* * * * *
156828 TATAAAAACGCCGCTAAAG-TACTACTCTGTTGCAGCG
130 T-TAAAAACGCCACTAAAGATA--ACCCTATTACAGCA
* *
156865 TTTGTATAAAAACGCCCCAAAAGTACTACTCTAT
1 TTTGTATAAAAACGCCACTAAAGTACTACTCTAT
156899 CGCAGCGTTT
Statistics
Matches: 171, Mismatches: 25, Indels: 7
0.84 0.12 0.03
Matches are distributed among these distances:
164 1 0.01
165 73 0.43
166 97 0.57
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (164 bp):
TTTGTATAAAAACGCCACTAAAGTACTACTCTATTACGGCGTTTGTTGAAAAAATGCCACTACAG
ATGAACCCTATTGAGACGTTTGTATAAAAAGCGCCGCTAAAGTAATACTCTATTGAGGCATTTCT
TAAAAACGCCACTAAAGATAACCCTATTACAGCA
Found at i:157924 original size:26 final size:27
Alignment explanation
Indices: 157876--157930 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
157866 TCAAGGTTTA
*
157876 AAAAGTTAAAAAATATATAATTAA-AT
1 AAAAGTTAAAAAATAGATAATTAAGAT
*
157902 AAAATTTAAAAAATTAGAT-ATTAAGAT
1 AAAAGTTAAAAAA-TAGATAATTAAGAT
157929 AA
1 AA
157931 GGGAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAAGTTAAAAAATAGATAATTAAGAT
Found at i:162857 original size:31 final size:31
Alignment explanation
Indices: 162822--162895 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
162812 ATAAATTCAG
* *
162822 ATAAAATATTAAGTTCATCT-TTAAATATTAT
1 ATAAAATATTAA-TTCAACTCTTAAATATTAA
* * *
162853 ATAAAATATCAATTTAACTCTTAAATTTTAA
1 ATAAAATATTAATTCAACTCTTAAATATTAA
162884 ATAAAATATTAA
1 ATAAAATATTAA
162896 AATTATATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 5 0.14
31 31 0.86
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (31 bp):
ATAAAATATTAATTCAACTCTTAAATATTAA
Found at i:166868 original size:16 final size:16
Alignment explanation
Indices: 166849--166887 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
166839 AAATCTTATC
166849 ATCAACAAATTGTACA
1 ATCAACAAATTGTACA
166865 ATCAACAAATTGTACA
1 ATCAACAAATTGTACA
*
166881 ATGAACA
1 ATCAACA
166888 TGAATCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.51, C:0.18, G:0.08, T:0.23
Consensus pattern (16 bp):
ATCAACAAATTGTACA
Found at i:170868 original size:3 final size:3
Alignment explanation
Indices: 170860--170887 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
170850 AAATTATATT
170860 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA A
170888 AACCCAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:175127 original size:46 final size:46
Alignment explanation
Indices: 175074--175170 Score: 167
Period size: 46 Copynumber: 2.1 Consensus size: 46
175064 TTTCAGATGC
* *
175074 CGTTGGCAAGAAAGTTTGAGTGATTCAACAATATTGGAGCTAATGT
1 CGTTGGCAAGAAAGTTTGAGTGATTCAACAACATTGGAGCTAATGA
*
175120 CGTTGGCAAGGAAGTTTGAGTGATTCAACAACATTGGAGCTAATGA
1 CGTTGGCAAGAAAGTTTGAGTGATTCAACAACATTGGAGCTAATGA
175166 CGTTG
1 CGTTG
175171 ACACAACTAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (46 bp):
CGTTGGCAAGAAAGTTTGAGTGATTCAACAACATTGGAGCTAATGA
Found at i:177298 original size:21 final size:21
Alignment explanation
Indices: 177274--177322 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
177264 TCGTTTGCAA
*
177274 TTTTTTTTTGAAATTTTGGCT
1 TTTTTTTTTGAAATTTTGCCT
***
177295 TTTTTTTTTGTTTTTTTGCCT
1 TTTTTTTTTGAAATTTTGCCT
177316 TTTTTTT
1 TTTTTTT
177323 GTTTTTTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.78
Consensus pattern (21 bp):
TTTTTTTTTGAAATTTTGCCT
Found at i:177329 original size:21 final size:21
Alignment explanation
Indices: 177287--177331 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
177277 TTTTTTGAAA
*
177287 TTTTGGCTTTTTTTTTTGTTT
1 TTTTGCCTTTTTTTTTTGTTT
177308 TTTTGCC--TTTTTTTTGTTT
1 TTTTGCCTTTTTTTTTTGTTT
177327 TTTTG
1 TTTTG
177332 AAAAAATAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.74
21 6 0.26
ACGTcount: A:0.00, C:0.07, G:0.13, T:0.80
Consensus pattern (21 bp):
TTTTGCCTTTTTTTTTTGTTT
Found at i:178976 original size:42 final size:42
Alignment explanation
Indices: 178937--179197 Score: 463
Period size: 42 Copynumber: 6.3 Consensus size: 42
178927 CATATTCGCA
*
178937 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
178977 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCA
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
179019 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
179061 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
*
179103 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
179145 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
179187 TTGCGATAGTC
1 TTGCGATAGTC
179198 CAAAATCGCA
Statistics
Matches: 210, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
40 26 0.12
41 2 0.01
42 182 0.87
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:179971 original size:21 final size:19
Alignment explanation
Indices: 179946--180104 Score: 84
Period size: 21 Copynumber: 8.4 Consensus size: 19
179936 GAACTTCGAC
179946 TATCGCAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
* * *
179965 TAAATCGCAACGCGAACTTCGAC
1 T--ATCGCAA--CGAATTTGGAA
179988 TATCGCAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
* *
180007 AATCG--TCGAA--T---A
1 TATCGCAACGAATTTGGAA
180019 --TCGCAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
* * *
180036 AATCGCAACGCGAACTTGGAC
1 TATCGCAA--CGAATTTGGAA
180057 TATCGCAACGAATTTGGAA
1 TATCGCAACGAATTTGGAA
* * *
180076 AATCGCAACGCGAACTTGGAC
1 TATCGCAA--CGAATTTGGAA
180097 TATCGCAA
1 TATCGCAA
180105 TGCGAATATG
Statistics
Matches: 105, Mismatches: 18, Indels: 32
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.03
12 5 0.05
14 1 0.01
15 1 0.01
17 5 0.05
19 35 0.33
21 46 0.44
23 9 0.09
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.21
Consensus pattern (19 bp):
TATCGCAACGAATTTGGAA
Found at i:180025 original size:29 final size:29
Alignment explanation
Indices: 179983--180040 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
179973 AACGCGAACT
*
179983 TCGACTATCGCAACGAATTTGGAAAATCG
1 TCGAATATCGCAACGAATTTGGAAAATCG
180012 TCGAATATCGCAACGAATTTGGAAAATCG
1 TCGAATATCGCAACGAATTTGGAAAATCG
180041 CAACGCGAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (29 bp):
TCGAATATCGCAACGAATTTGGAAAATCG
Found at i:180059 original size:69 final size:71
Alignment explanation
Indices: 179941--180080 Score: 248
Period size: 69 Copynumber: 2.0 Consensus size: 71
179931 GTTGCGAACT
*
179941 TCGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
1 TCGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
180006 AAATCG
66 AAATCG
*
180012 TCGAATATCGCAACGAATTTGG-A-AAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGA
1 TCGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
180075 AAATCG
66 AAATCG
180081 CAACGCGAAC
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 45 0.67
70 1 0.01
71 21 0.31
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (71 bp):
TCGAATATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAATTTGGA
AAATCG
Found at i:180072 original size:40 final size:40
Alignment explanation
Indices: 180017--180104 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
180007 AATCGTCGAA
180017 TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
180057 TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
1 TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
180097 TATCGCAA
1 TATCGCAA
180105 TGCGAATATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (40 bp):
TATCGCAACGAATTTGGAAAATCGCAACGCGAACTTGGAC
Found at i:180109 original size:21 final size:21
Alignment explanation
Indices: 180037--180110 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
180027 AATTTGGAAA
180037 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
180058 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
180077 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
180098 ATCGCAATGCGAA
1 ATCGCAACGCGAA
180111 TATGTAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.36
21 28 0.64
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:185118 original size:2 final size:2
Alignment explanation
Indices: 185111--185160 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
185101 TTTAGTTTAC
185111 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
185153 AT AT AT AT
1 AT AT AT AT
185161 CGTTTGATAA
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:188210 original size:160 final size:160
Alignment explanation
Indices: 187946--188265 Score: 640
Period size: 160 Copynumber: 2.0 Consensus size: 160
187936 GTTTTCATCT
187946 GTTGAATATTAAATTTTTAAAATTCTTCGAAGCTTTCATAATTTTATATTTATGAGTAATTAACA
1 GTTGAATATTAAATTTTTAAAATTCTTCGAAGCTTTCATAATTTTATATTTATGAGTAATTAACA
188011 TACTCTCAATATGACCTCGGACAAATTTATATAATATGTCAGAGTCAAATGTACTAACAACAATT
66 TACTCTCAATATGACCTCGGACAAATTTATATAATATGTCAGAGTCAAATGTACTAACAACAATT
188076 AAATTTATTTAACTTGTCAACCTATAAATA
131 AAATTTATTTAACTTGTCAACCTATAAATA
188106 GTTGAATATTAAATTTTTAAAATTCTTCGAAGCTTTCATAATTTTATATTTATGAGTAATTAACA
1 GTTGAATATTAAATTTTTAAAATTCTTCGAAGCTTTCATAATTTTATATTTATGAGTAATTAACA
188171 TACTCTCAATATGACCTCGGACAAATTTATATAATATGTCAGAGTCAAATGTACTAACAACAATT
66 TACTCTCAATATGACCTCGGACAAATTTATATAATATGTCAGAGTCAAATGTACTAACAACAATT
188236 AAATTTATTTAACTTGTCAACCTATAAATA
131 AAATTTATTTAACTTGTCAACCTATAAATA
188266 ATTATCATCA
Statistics
Matches: 160, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 160 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (160 bp):
GTTGAATATTAAATTTTTAAAATTCTTCGAAGCTTTCATAATTTTATATTTATGAGTAATTAACA
TACTCTCAATATGACCTCGGACAAATTTATATAATATGTCAGAGTCAAATGTACTAACAACAATT
AAATTTATTTAACTTGTCAACCTATAAATA
Found at i:190349 original size:32 final size:32
Alignment explanation
Indices: 190306--190369 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
190296 AAATATCTTG
* *
190306 GGGCCTGAGAGCATACCCAAGGGAGTACCTTA
1 GGGCCTAAGAGCATACCCAAAGGAGTACCTTA
*
190338 GGGCCTAAGAGCCTACCCAAAGGAGTACCTTA
1 GGGCCTAAGAGCATACCCAAAGGAGTACCTTA
190370 AGAGCCTACC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.27, G:0.28, T:0.16
Consensus pattern (32 bp):
GGGCCTAAGAGCATACCCAAAGGAGTACCTTA
Found at i:190389 original size:25 final size:24
Alignment explanation
Indices: 190343--190393 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
190333 CCTTAGGGCC
190343 TAAGAGCCTACCCAAAGGAGTACCT
1 TAAGAGCCTACCCAAA-GAGTACCT
190368 TAAGAGCCTACCCGAGAA-AGTACCT
1 TAAGAGCCTACCC-A-AAGAGTACCT
190393 T
1 T
190394 GGGGCCTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 21 0.88
26 1 0.04
27 2 0.08
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (24 bp):
TAAGAGCCTACCCAAAGAGTACCT
Found at i:190410 original size:32 final size:32
Alignment explanation
Indices: 190365--190448 Score: 116
Period size: 32 Copynumber: 2.6 Consensus size: 32
190355 CAAAGGAGTA
*
190365 CCTTAAGAGCCTACCCGA-GAAAGTACCTTGGGG
1 CCTT-AGAGCCTACCCAAGGAAA-TACCTTGGGG
*
190398 CCTTAGAGCCTACCCAAGGAAATGCCTTGGGG
1 CCTTAGAGCCTACCCAAGGAAATACCTTGGGG
*
190430 CCTCAGAGCCTACCCAAGG
1 CCTTAGAGCCTACCCAAGG
190449 TCACTTTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
32 39 0.83
33 8 0.17
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (32 bp):
CCTTAGAGCCTACCCAAGGAAATACCTTGGGG
Found at i:191612 original size:23 final size:23
Alignment explanation
Indices: 191577--191620 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
191567 TTTTGGTCAT
191577 TTTAATCAATCAATTC-TTTACA
1 TTTAATCAATCAATTCATTTACA
*
191599 TTTAATTCACTCAATTCATTTA
1 TTTAA-TCAATCAATTCATTTA
191621 TTTTCTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATCAATCAATTCATTTACA
Found at i:193184 original size:29 final size:29
Alignment explanation
Indices: 193142--193237 Score: 183
Period size: 29 Copynumber: 3.3 Consensus size: 29
193132 TCAGTTGGGA
193142 GCGTCAGTGCATCGATGCATACCCATGGT
1 GCGTCAGTGCATCGATGCATACCCATGGT
193171 GCGTCAGTGCATCGATGCATACCCATGGT
1 GCGTCAGTGCATCGATGCATACCCATGGT
193200 GCGTCAGTGCATCGATGCATACCCATGGT
1 GCGTCAGTGCATCGATGCATACCCATGGT
*
193229 GCATCAGTG
1 GCGTCAGTG
193238 TAAAATTCAA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.21, C:0.27, G:0.28, T:0.24
Consensus pattern (29 bp):
GCGTCAGTGCATCGATGCATACCCATGGT
Found at i:197952 original size:32 final size:32
Alignment explanation
Indices: 197911--198050 Score: 158
Period size: 32 Copynumber: 4.4 Consensus size: 32
197901 ACTTACCCTG
197911 AGAGCCTACCCAATGGAGTACCTTAGGGCCTA
1 AGAGCCTACCCAATGGAGTACCTTAGGGCCTA
* * *
197943 AGAGCCTACCTAAAGGAGTACCTTAAGGCCTA
1 AGAGCCTACCCAATGGAGTACCTTAGGGCCTA
* * *
197975 AGAGCCTACCCAATGAAGTACCTTGGGGCCTT
1 AGAGCCTACCCAATGGAGTACCTTAGGGCCTA
* * * * *
198007 AGAGCCTACTCAA-GGAAATGCC-TGGGGCCTC
1 AGAGCCTACCCAATGG-AGTACCTTAGGGCCTA
198038 AGAGCCTACCCAA
1 AGAGCCTACCCAA
198051 GGTCACTTAG
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
31 21 0.23
32 71 0.77
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (32 bp):
AGAGCCTACCCAATGGAGTACCTTAGGGCCTA
Found at i:200117 original size:20 final size:20
Alignment explanation
Indices: 200088--200125 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
200078 ACGGGTCAGA
* *
200088 TCGATTCGAGTTGACTCGGT
1 TCGATCCGAGTTAACTCGGT
200108 TCGATCCGAGTTAACTCG
1 TCGATCCGAGTTAACTCG
200126 AACCTGTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (20 bp):
TCGATCCGAGTTAACTCGGT
Found at i:209003 original size:29 final size:29
Alignment explanation
Indices: 208956--209013 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
208946 ATATGATTAG
208956 GATTGCACGGTAATCAATACTGTATAAAA
1 GATTGCACGGTAATCAATACTGTATAAAA
* * *
208985 GATTGTACGGTATTTAATACTGTATAAAA
1 GATTGCACGGTAATCAATACTGTATAAAA
209014 ATAATAAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (29 bp):
GATTGCACGGTAATCAATACTGTATAAAA
Found at i:210585 original size:15 final size:15
Alignment explanation
Indices: 210561--210590 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
210551 GACAAACGCC
210561 GCAAAAAGCGTCGCT
1 GCAAAAAGCGTCGCT
*
210576 GCAAATAGCGTCGCT
1 GCAAAAAGCGTCGCT
210591 AAAGTTCGCG
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:0.30, C:0.27, G:0.27, T:0.17
Consensus pattern (15 bp):
GCAAAAAGCGTCGCT
Done.