Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold348
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: 425534
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 3
Found at i:2354 original size:2 final size:2
Alignment explanation
Indices: 2347--2376 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2337 CCCTCCAAAC
2347 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
2377 AATATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:2987 original size:2 final size:2
Alignment explanation
Indices: 2943--2968 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2933 CACAAAACAA
2943 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
2969 TATCAATTCT
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):
AT
Found at i:2987 original size:23 final size:21
Alignment explanation
Indices: 2961--3004 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
2951 ATATATATAT
*
2961 ATATATATTATCAATTCTACA
1 ATATATATAATCAATTCTACA
*
2982 ATATATATAATCAATTCTCCA
1 ATATATATAATCAATTCTACA
3003 AT
1 AT
3005 TTACTGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (21 bp):
ATATATATAATCAATTCTACA
Found at i:4662 original size:98 final size:89
Alignment explanation
Indices: 4558--4762 Score: 223
Period size: 91 Copynumber: 2.2 Consensus size: 89
4548 TAGTTTTGTA
* *
4558 AATTTTTT-TTTAAAAGTTTTATAATTAAGTTTTAATTTATATTATGAAAATATTTAATTTTAAT
1 AATTTTTTATTTAAAAGTTTTAT-A-TAA-ATTTAATTTATATTAT--AAAGA-TT--TTTTAAT
** * *
4622 TAGTATTTTTATTTTTTATATAAATATATATAGT
58 TAACA-TTTTA-TTTTTATATAAATAAATATAAT
* *
4656 AATTTTTTATTTAACATATTTTTATATAAATTTAATTTATATTCTAAAGATTTTTTAATTAACAT
1 AATTTTTTATTTAA-A-AGTTTTATATAAATTTAATTTATATTATAAAGATTTTTTAATTAACAT
4721 TTTATTTTTATATAAATAAATATAAT
64 TTTATTTTTATATAAATAAATATAAT
4747 AATTTTTTATTTAAAA
1 AATTTTTTATTTAAAA
4763 ATATTTTTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 15
0.81 0.07 0.13
Matches are distributed among these distances:
89 1 0.01
90 1 0.01
91 34 0.35
92 5 0.05
93 10 0.10
95 2 0.02
96 4 0.04
98 22 0.23
99 8 0.08
100 2 0.02
101 7 0.07
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (89 bp):
AATTTTTTATTTAAAAGTTTTATATAAATTTAATTTATATTATAAAGATTTTTTAATTAACATTT
TATTTTTATATAAATAAATATAAT
Found at i:5390 original size:29 final size:29
Alignment explanation
Indices: 5358--5423 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
5348 TTTTTATTAT
* *
5358 AATTTTATAATTA-TTTAA-TTATAATATAA
1 AATTTTATAA-GAGTTTAATTTAAAATAT-A
*
5387 AATTATATAAGAGTTTAATTTAAAATATA
1 AATTTTATAAGAGTTTAATTTAAAATATA
5416 AATTTTAT
1 AATTTTAT
5424 TTAATATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
28 1 0.03
29 22 0.71
30 8 0.26
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (29 bp):
AATTTTATAAGAGTTTAATTTAAAATATA
Found at i:5485 original size:3 final size:3
Alignment explanation
Indices: 5477--5512 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5467 TAAATACACT
5477 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
5513 GATGTTGTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:10313 original size:2 final size:2
Alignment explanation
Indices: 10308--10340 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10298 TGGTCTAAAC
*
10308 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10341 CAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33868 original size:14 final size:14
Alignment explanation
Indices: 33848--33886 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
33838 AAAAATTTAA
33848 TTTAATTTAAT-AT
1 TTTAATTTAATAAT
*
33861 TATTAATTAAATAAT
1 T-TTAATTTAATAAT
33876 TTTAATTTAAT
1 TTTAATTTAAT
33887 TAATGAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 1 0.05
14 18 0.82
15 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTAATTTAATAAT
Found at i:33877 original size:32 final size:31
Alignment explanation
Indices: 33808--33887 Score: 92
Period size: 31 Copynumber: 2.5 Consensus size: 31
33798 ATAAAAAAAT
*
33808 ATAATTTTA-TTATATTTATATTAATTAATAA
1 ATAATTTAATTTA-ATTTATATTAATTAATAA
*
33839 AAAATTTAATTTAATTTAATATT-ATTAATTAA
1 ATAATTTAATTTAATTT-ATATTAATTAA-TAA
33871 ATAATTTTAATTTAATT
1 ATAA-TTTAATTTAATT
33888 AATGAATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 16 0.38
32 14 0.33
33 12 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (31 bp):
ATAATTTAATTTAATTTATATTAATTAATAA
Found at i:33890 original size:32 final size:32
Alignment explanation
Indices: 33808--33890 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 32
33798 ATAAAAAAAT
*
33808 ATAATTTT-A-TTATATTTATATTAATTAATAA
1 ATAATTTTAATTTA-ATTAATATTAATTAATAA
*
33839 A-AAATTTAATTTAATTTAATATT-ATTAATTAA
1 ATAATTTTAATTTAA-TTAATATTAATTAA-TAA
33871 ATAATTTTAATTTAATTAAT
1 ATAATTTTAATTTAATTAAT
33891 GAATATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
30 5 0.11
31 8 0.18
32 19 0.43
33 12 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (32 bp):
ATAATTTTAATTTAATTAATATTAATTAATAA
Found at i:33958 original size:20 final size:20
Alignment explanation
Indices: 33920--33958 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33910 GTAAAATTTG
* *
33920 TTACATACTTTTTTAAAAAA
1 TTACATACATATTTAAAAAA
33940 TTACATACATATTTGAAAA
1 TTACATACATATTT-AAAA
33959 TGTATCATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (20 bp):
TTACATACATATTTAAAAAA
Found at i:34534 original size:2 final size:2
Alignment explanation
Indices: 34527--34583 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
34517 TAGCCAAGAA
* * * * *
34527 AT AT AT AT AT AT AT AT AA AA AT AT AT AT TT AT TT AT -T TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
34568 GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
34584 TTATTTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
AT
Found at i:35720 original size:22 final size:22
Alignment explanation
Indices: 35695--35737 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
35685 ATTATGTTAC
*
35695 ATTTAAAATTTAAATATAAAAT
1 ATTTAAAATTTAAATAAAAAAT
* *
35717 ATTTTAATTTTAAATAAAAAA
1 ATTTAAAATTTAAATAAAAAA
35738 AAAGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTAAAATTTAAATAAAAAAT
Found at i:36126 original size:24 final size:24
Alignment explanation
Indices: 36099--36148 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
36089 ATTTTAGGCA
36099 GGCAAAATGAAAATACACAGGATT
1 GGCAAAATGAAAATACACAGGATT
36123 GGCAAAATGAAAATACACAGGATT
1 GGCAAAATGAAAATACACAGGATT
36147 GG
1 GG
36149 TTTATGACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (24 bp):
GGCAAAATGAAAATACACAGGATT
Found at i:36234 original size:29 final size:33
Alignment explanation
Indices: 36194--36293 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 33
36184 ATAATTATAA
* *
36194 AATTTAATATTT-T-TATATTTTATTATA-TAAT
1 AATTT-ATATTTATATAAATTTTAATATATTAAT
36225 AA-TTATATTTATATAAATTTTAATATATTAAT
1 AATTTATATTTATATAAATTTTAATATATTAAT
36257 AATTTATA-TTA-ATAAATATTT-ATAT-TT-AT
1 AATTTATATTTATATAAAT-TTTAATATATTAAT
*
36286 ATTTTATA
1 AATTTATA
36294 ATATCCTGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
29 15 0.25
30 5 0.08
31 24 0.39
32 12 0.20
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
AATTTATATTTATATAAATTTTAATATATTAAT
Found at i:36238 original size:17 final size:17
Alignment explanation
Indices: 36216--36287 Score: 62
Period size: 16 Copynumber: 4.4 Consensus size: 17
36206 TTATATTTTA
36216 TTATATAATAATTATAT
1 TTATATAATAATTATAT
*
36233 TTATAT-A-AATTTTA-
1 TTATATAATAATTATAT
*
36247 ATATATTAATAATTTATAT
1 TTATA-TAATAA-TTATAT
* *
36266 TAATA-AATATTTATAT
1 TTATATAATAATTATAT
36282 TTATAT
1 TTATAT
36288 TTTATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 12
0.69 0.11 0.20
Matches are distributed among these distances:
14 4 0.10
15 7 0.17
16 12 0.29
17 12 0.29
18 4 0.10
19 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATATAATAATTATAT
Found at i:36240 original size:47 final size:49
Alignment explanation
Indices: 36189--36287 Score: 132
Period size: 49 Copynumber: 2.1 Consensus size: 49
36179 CTGAGATAAT
* *
36189 TATAAAATTTAATATTTTTAT-ATTT-TATT-ATATAATAATTATATTTA
1 TATAAAATTTAATATATTAATAATTTATATTAATA-AATAATTATATTTA
* *
36236 TATAAATTTTAATATATTAATAATTTATATTAATAAATATTTATATTTA
1 TATAAAATTTAATATATTAATAATTTATATTAATAAATAATTATATTTA
36285 TAT
1 TAT
36288 TTTATAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
47 18 0.40
48 4 0.09
49 20 0.44
50 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (49 bp):
TATAAAATTTAATATATTAATAATTTATATTAATAAATAATTATATTTA
Found at i:36245 original size:39 final size:36
Alignment explanation
Indices: 36202--36297 Score: 94
Period size: 36 Copynumber: 2.7 Consensus size: 36
36192 AAAATTTAAT
36202 ATTTTTATATTTTATTATATAATAATTATATTTATATAA
1 ATTTTTATATTTTATTATATAAT-ATTATA-TTA-ATAA
*
36241 A-TTTTA-A-TATATTA-ATAAT-TTATATTAATAA
1 ATTTTTATATTTTATTATATAATATTATATTAATAA
* *
36272 ATATTTATATTTATATTTTATAATAT
1 ATTTTTATATTT-TATTATATAATAT
36298 CCTGTTTTTA
Statistics
Matches: 47, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
31 5 0.11
32 7 0.15
33 6 0.13
34 1 0.02
35 9 0.19
36 11 0.23
37 2 0.04
38 5 0.11
39 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
ATTTTTATATTTTATTATATAATATTATATTAATAA
Found at i:36297 original size:16 final size:16
Alignment explanation
Indices: 36188--36283 Score: 51
Period size: 17 Copynumber: 6.1 Consensus size: 16
36178 ACTGAGATAA
*
36188 TTATAAAATTTAATATT
1 TTATAATATTT-ATATT
36205 TT-T-ATATTT-TATT
1 TTATAATATTTATATT
* *
36218 ATATAATAATTATATT
1 TTATAATATTTATATT
*
36234 TATATAA-ATTT-TAAT
1 T-TATAATATTTATATT
*
36249 ATATTAATAATTTATA-T
1 TTA-TAAT-ATTTATATT
*
36266 TAATAAATATTTATATT
1 TTAT-AATATTTATATT
36283 T
1 T
36284 ATATTTTATA
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
15 16 0.27
16 16 0.27
17 18 0.30
18 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATAATATTTATATT
Found at i:38991 original size:30 final size:30
Alignment explanation
Indices: 38957--39013 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
38947 CCTGTTTTGG
*
38957 TTTTGTCTTCATTGCAGCATCTTGATTCGT
1 TTTTGTCTTCATTACAGCATCTTGATTCGT
38987 TTTTGTCTTCATTACAGCATCTTGATT
1 TTTTGTCTTCATTACAGCATCTTGATT
39014 ACTTTAATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (30 bp):
TTTTGTCTTCATTACAGCATCTTGATTCGT
Found at i:39214 original size:12 final size:13
Alignment explanation
Indices: 39197--39225 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
39187 CGTGTTAAAA
39197 CATGCATGAAA-G
1 CATGCATGAAATG
39209 CATGCATGAAATG
1 CATGCATGAAATG
39222 CATG
1 CATG
39226 AAATGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (13 bp):
CATGCATGAAATG
Found at i:39536 original size:11 final size:11
Alignment explanation
Indices: 39520--39554 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
39510 TTTTATTTAA
*
39520 TTATTTTAATT
1 TTATTTTTATT
39531 TTATTTTTATT
1 TTATTTTTATT
*
39542 ATATTTTTATT
1 TTATTTTTATT
39553 TT
1 TT
39555 TTAATGTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTTATT
Found at i:39549 original size:17 final size:17
Alignment explanation
Indices: 39504--39555 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
39494 ATTTTATGTA
39504 TATATTTTTTATTTAATTAT
1 TATA-TTTTTATTT--TTAT
* *
39524 TTTAATTTTATTTTTAT
1 TATATTTTTATTTTTAT
39541 TATATTTTTATTTTT
1 TATATTTTTATTTTT
39556 TAATGTCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 17 0.61
19 8 0.29
20 3 0.11
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TATATTTTTATTTTTAT
Found at i:41734 original size:21 final size:21
Alignment explanation
Indices: 41705--41756 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
41695 TGATAATCAA
* *
41705 ATAAATAAATCAATTAAAAAT
1 ATAATTAAATAAATTAAAAAT
* *
41726 ATAATTAAATAAATTTAATAT
1 ATAATTAAATAAATTAAAAAT
*
41747 AAAATTAAAT
1 ATAATTAAAT
41757 TAATCTTAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAATTAAATAAATTAAAAAT
Found at i:42642 original size:16 final size:16
Alignment explanation
Indices: 42622--42701 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
42612 TGACCTAAAT
*
42622 CCAAAATGACCCGAAC
1 CCAAAATGATCCGAAC
* *
42638 TCAAAATGATCCAAAC
1 CCAAAATGATCCGAAC
* * *
42654 CCGAAATAATCCAAAC
1 CCAAAATGATCCGAAC
42670 CCAAAATGA-CCTGAAC
1 CCAAAATGATCC-GAAC
*
42686 CTGAAAATGATCCGAA
1 C-CAAAATGATCCGAA
42702 AATTTAAAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
15 2 0.04
16 37 0.73
17 10 0.20
18 2 0.04
ACGTcount: A:0.46, C:0.29, G:0.11, T:0.14
Consensus pattern (16 bp):
CCAAAATGATCCGAAC
Found at i:42985 original size:22 final size:22
Alignment explanation
Indices: 42925--42985 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
42915 TTATTTAAAA
42925 ATATTAAAATATTAAAT--TTTT
1 ATATTAAAAT-TTAAATAATTTT
*
42946 ATATTAAAATTTATATAATTTT
1 ATATTAAAATTTAAATAATTTT
42968 ATAATT-AAATTTAAATAA
1 AT-ATTAAAATTTAAATAA
42986 AAATATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 5 0.14
21 10 0.29
22 17 0.49
23 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATATTAAAATTTAAATAATTTT
Found at i:44998 original size:3 final size:3
Alignment explanation
Indices: 44992--45030 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
44982 ATTTTACATC
*
44992 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
45031 TCGGATTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:45159 original size:3 final size:3
Alignment explanation
Indices: 45151--45191 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
45141 ACTCAAGGCA
45151 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45192 AGCTATGGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48291 original size:34 final size:35
Alignment explanation
Indices: 48248--48319 Score: 128
Period size: 34 Copynumber: 2.1 Consensus size: 35
48238 AAAAGATTAT
*
48248 AGCAGACAAGAAAGCGAAGGAATGTGAA-TTTACC
1 AGCAGACAAGAAAACGAAGGAATGTGAATTTTACC
48282 AGCAGACAAGAAAACGAAGGAATGTGAATTTTACC
1 AGCAGACAAGAAAACGAAGGAATGTGAATTTTACC
48317 AGC
1 AGC
48320 TAAGAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 27 0.75
35 9 0.25
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (35 bp):
AGCAGACAAGAAAACGAAGGAATGTGAATTTTACC
Found at i:49171 original size:27 final size:27
Alignment explanation
Indices: 49104--49172 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
49094 AAAAAATTAA
49104 TATTTATTGAAATA-TTTATATTATAAT
1 TATTT-TTGAAATATTTTATATTATAAT
* *
49131 TATATTTAAAATATTTTATATT-TATAT
1 TATTTTTGAAATATTTTATATTATA-AT
*
49158 TATTTTTGATATATT
1 TATTTTTGAAATATT
49173 AATAATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (27 bp):
TATTTTTGAAATATTTTATATTATAAT
Found at i:49182 original size:33 final size:32
Alignment explanation
Indices: 49115--49190 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
49105 ATTTATTGAA
*
49115 ATATTTATATTATAATTATATTTAAAATATTTT
1 ATATTTATATTATAATTATATTT-AAATAATTT
**
49148 ATATTTATATTATTTTTGATATATT-AATAATTT
1 ATATTTATATTATAATT-ATAT-TTAAATAATTT
49181 ATAATTTATA
1 AT-ATTTATA
49191 AATTTTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 24 0.65
34 11 0.30
35 2 0.05
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
ATATTTATATTATAATTATATTTAAATAATTT
Found at i:49204 original size:48 final size:47
Alignment explanation
Indices: 49120--49253 Score: 132
Period size: 47 Copynumber: 2.8 Consensus size: 47
49110 TTGAAATATT
* * *
49120 TATATTATAA-TTAT-ATTTAAAATATTTTATATTTATATTATTTTTGA
1 TATATTATAATTTATAATTTATAA-ATTTTA-AATTATATTATTTATGA
*
49167 TATATTAATAATTTATAATTTATAAATTTTAAATTATA-TATTTATGT
1 TATATT-ATAATTTATAATTTATAAATTTTAAATTATATTATTTATGA
* *
49214 TATATCATATTTTAATAATTT-TAATAATTTTAAATTATAT
1 TATATTATAATTT-ATAATTTAT-A-AATTTTAAATTATAT
49254 CATATTTTAA
Statistics
Matches: 74, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
46 7 0.09
47 26 0.35
48 24 0.32
49 10 0.14
50 7 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (47 bp):
TATATTATAATTTATAATTTATAAATTTTAAATTATATTATTTATGA
Found at i:49236 original size:9 final size:9
Alignment explanation
Indices: 49222--49246 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49212 GTTATATCAT
49222 ATTTTAATA
1 ATTTTAATA
49231 ATTTTAATA
1 ATTTTAATA
49240 ATTTTAA
1 ATTTTAA
49247 ATTATATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTTAATA
Found at i:49270 original size:19 final size:19
Alignment explanation
Indices: 49213--49277 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 19
49203 TATATTTATG
49213 TTATATCATATTTTAATAA
1 TTATATCATATTTTAATAA
*
49232 TT-T-TAATAATTTT-A-AA
1 TTATATCAT-ATTTTAATAA
49248 TTATATCATATTTTAATAA
1 TTATATCATATTTTAATAA
49267 TTATAT-ATATT
1 TTATATCATATT
49278 ACATTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.10
17 10 0.26
18 15 0.38
19 10 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TTATATCATATTTTAATAA
Found at i:49812 original size:13 final size:13
Alignment explanation
Indices: 49794--49818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49784 CATTATGCTT
49794 TGTATCGATACAA
1 TGTATCGATACAA
49807 TGTATCGATACA
1 TGTATCGATACA
49819 TGCTCATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:49856 original size:20 final size:19
Alignment explanation
Indices: 49807--49858 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
49797 ATCGATACAA
* *
49807 TGTATCGATACATGCTCAT
1 TGTATCGATACATACTAAT
**
49826 TGTATTAATACATACTTAAT
1 TGTATCGATACATAC-TAAT
49846 TGTATCGATACAT
1 TGTATCGATACAT
49859 GAAACTATCA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTAAT
Found at i:49911 original size:20 final size:20
Alignment explanation
Indices: 49883--49920 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49873 CTACCCTAAG
*
49883 TGAAATGTATCGATACATGA
1 TGAAATGTATCAATACATGA
*
49903 TGAATTGTATCAATACAT
1 TGAAATGTATCAATACAT
49921 TATGCCCAAC
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:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (20 bp):
TGAAATGTATCAATACATGA
Found at i:56257 original size:9 final size:9
Alignment explanation
Indices: 56233--56258 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
56223 TCGTTGTTCA
56233 AATTTCATC
1 AATTTCATC
56242 AATTTCATC
1 AATTTCATC
56251 AATTTCAT
1 AATTTCAT
56259 ATCAAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (9 bp):
AATTTCATC
Found at i:58674 original size:13 final size:13
Alignment explanation
Indices: 58656--58680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58646 TACATGGGAC
58656 ATTGTATCGATAA
1 ATTGTATCGATAA
58669 ATTGTATCGATA
1 ATTGTATCGATA
58681 CACAAAGAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTGTATCGATAA
Found at i:60847 original size:3 final size:3
Alignment explanation
Indices: 60839--60883 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
60829 TTTAAAGATC
* * * *
60839 GAT GAT GAT GAT GAT GGT CAT GAT CAT GAT GAT GAT AAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
60884 AATAATAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:61227 original size:17 final size:18
Alignment explanation
Indices: 61198--61233 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
61188 TTAAAATAAT
61198 AAATAATTAATTAATTTA
1 AAATAATTAATTAATTTA
*
61216 AAATAATT-ATTATTTTA
1 AAATAATTAATTAATTTA
61233 A
1 A
61234 TCCTAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATAATTAATTAATTTA
Found at i:63267 original size:21 final size:21
Alignment explanation
Indices: 63229--63268 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63219 GAATATTATA
*
63229 AAAAAATAGAAAATAAATCTT
1 AAAAAATAGAAAAGAAATCTT
63250 AAAAAATA-AAAGAGAAATC
1 AAAAAATAGAAA-AGAAATC
63269 AAACAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (21 bp):
AAAAAATAGAAAAGAAATCTT
Found at i:68181 original size:2 final size:2
Alignment explanation
Indices: 68174--68198 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
68164 AAATTACACT
68174 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 T
68199 TATGATGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70812 original size:3 final size:3
Alignment explanation
Indices: 70799--70845 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
70789 AAGATAAGAA
*
70799 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
70846 GTATAGCAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:74816 original size:12 final size:12
Alignment explanation
Indices: 74801--74825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
74791 TATTAAGAAG
74801 TCTATTGAATTT
1 TCTATTGAATTT
74813 TCTATTGAATTT
1 TCTATTGAATTT
74825 T
1 T
74826 GATTAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TCTATTGAATTT
Found at i:85419 original size:18 final size:18
Alignment explanation
Indices: 85378--85419 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
85368 AGATAGAACA
* *
85378 ATAAATAAATTTAAAATT
1 ATAAATTAATTGAAAATT
*
85396 -TAAATTAATTGAGAATT
1 ATAAATTAATTGAAAATT
85413 ATAAATT
1 ATAAATT
85420 TAAATTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
ATAAATTAATTGAAAATT
Found at i:85736 original size:17 final size:17
Alignment explanation
Indices: 85711--85751 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
85701 TTATATTAAA
*
85711 TATAAAATTTTAAAAAT
1 TATATAATTTTAAAAAT
* *
85728 TATATAATTTTAATATT
1 TATATAATTTTAAAAAT
85745 TATATAA
1 TATATAA
85752 ATTATATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TATATAATTTTAAAAAT
Found at i:85996 original size:19 final size:18
Alignment explanation
Indices: 85927--86007 Score: 52
Period size: 18 Copynumber: 4.9 Consensus size: 18
85917 TTGATGATTA
*
85927 ATAAATT-TAATTTAAAT
1 ATAAATTATTATTTAAAT
85944 -TAAATTA--A-TTAAAT
1 ATAAATTATTATTTAAAT
**
85958 AT-AA-TATT-TAAAAAT
1 ATAAATTATTATTTAAAT
*
85973 ATAAAGTTATTTTTTAAAT
1 ATAAA-TTATTATTTAAAT
*
85992 TTAAATTATTATTTAA
1 ATAAATTATTATTTAA
86008 TAAATAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 17
0.68 0.08 0.24
Matches are distributed among these distances:
13 2 0.04
14 8 0.16
15 8 0.16
16 8 0.16
18 14 0.29
19 9 0.18
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (18 bp):
ATAAATTATTATTTAAAT
Found at i:86000 original size:18 final size:19
Alignment explanation
Indices: 85969--86007 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
85959 TAATATTTAA
*
85969 AAATATAAAGTTATTTTTT
1 AAATATAAAGTTATTATTT
*
85988 AAATTTAAA-TTATTATTT
1 AAATATAAAGTTATTATTT
86006 AA
1 AA
86008 TAAATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
AAATATAAAGTTATTATTT
Found at i:86011 original size:21 final size:21
Alignment explanation
Indices: 85924--86012 Score: 64
Period size: 21 Copynumber: 4.4 Consensus size: 21
85914 AATTTGATGA
* *
85924 TTAATAAATTTAATTTA-AAT
1 TTAATAAATTTAAATTATTAT
* * *
85944 TAAATTAA-TTAAATATAATAT
1 TTAATAAATTTAAAT-TATTAT
*
85965 TTAA-AAATATAAAGTTATT-T
1 TTAATAAATTTAAA-TTATTAT
85985 TT--TAAATTTAAATTATTAT
1 TTAATAAATTTAAATTATTAT
86004 TTAATAAAT
1 TTAATAAAT
86013 AAAAATATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 15
0.68 0.12 0.20
Matches are distributed among these distances:
18 5 0.10
19 16 0.31
20 13 0.25
21 17 0.33
22 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (21 bp):
TTAATAAATTTAAATTATTAT
Found at i:86042 original size:36 final size:36
Alignment explanation
Indices: 85954--86082 Score: 107
Period size: 37 Copynumber: 3.4 Consensus size: 36
85944 TAAATTAATT
** * *
85954 AAATATAATATTTAAAAATATAAAGTTATTTTTTAAATTT
1 AAAT-TAA-ATTTAAAAA-ATAAAAATA-TTTTTATATTA
* *
85994 AAATTATTATTTAATAAATAAAAATATTTTTATATTA
1 AAATTA-AATTTAAAAAATAAAAATATTTTTATATTA
* * *
86031 AAATTAAATTTAAAAAATATAAATATTATTATTTTAA
1 AAATTAAATTTAAAAAATAAAAATATTTTTATATT-A
86068 TAAATT-AATTTAAAA
1 -AAATTAAATTTAAAA
86083 TTTTTTAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
36 24 0.32
37 25 0.33
38 12 0.16
39 10 0.13
40 4 0.05
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (36 bp):
AAATTAAATTTAAAAAATAAAAATATTTTTATATTA
Found at i:86862 original size:35 final size:37
Alignment explanation
Indices: 86797--86871 Score: 102
Period size: 35 Copynumber: 2.1 Consensus size: 37
86787 GCAAATAAAC
* *
86797 AAATATTTTTTAATTTTATATATAAAAAAT-AAATAA
1 AAATATTTATTAATTATATATATAAAAAATAAAATAA
86833 AAATA-TTATTAATTATAT-TATAAATAAATAAAATAA
1 AAATATTTATTAATTATATATATAAA-AAATAAAATAA
86869 AAA
1 AAA
86872 CATAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 6 0.17
35 15 0.43
36 14 0.40
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
AAATATTTATTAATTATATATATAAAAAATAAAATAA
Found at i:86887 original size:36 final size:34
Alignment explanation
Indices: 86817--86888 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 34
86807 TAATTTTATA
* * * *
86817 TATAAAAAATAAATAAAAATATTATTAATTATAT
1 TATAAAAAATAAATAAAAACATAAATAATAATAT
86851 TATAAATAAATAAAATAAAAACATAAATAATAATAT
1 TATAAA-AAAT-AAATAAAAACATAAATAATAATAT
86887 TA
1 TA
86889 ATATTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 6 0.19
35 4 0.12
36 22 0.69
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (34 bp):
TATAAAAAATAAATAAAAACATAAATAATAATAT
Found at i:86899 original size:51 final size:48
Alignment explanation
Indices: 86818--86916 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 48
86808 AATTTTATAT
* *
86818 ATAAAAAATAAATAAAAATATTATTAATTATATTATAA-ATAAATAAA
1 ATAAAAAATAAATAAAAATAATATTAATTATATTATAATAAAAATAAA
86865 ATAAAAACATAAATAATAATATTAATATTAATTATATTATAATAAAAATAAA
1 ATAAAAA-ATAAATAA-AA-A-TAATATTAATTATATTATAATAAAAATAAA
86917 TTTATTTAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
47 7 0.16
48 8 0.18
49 2 0.04
50 1 0.02
51 19 0.42
52 8 0.18
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (48 bp):
ATAAAAAATAAATAAAAATAATATTAATTATATTATAATAAAAATAAA
Found at i:86939 original size:23 final size:22
Alignment explanation
Indices: 86912--86974 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
86902 TATAATAAAA
86912 ATAAATTTATTTAAAATCATTT
1 ATAAATTTATTTAAAATCATTT
* *
86934 ATTAAATTAAATTT-AAATTATTT
1 A-TAAATT-TATTTAAAATCATTT
86957 ATAAATTTATTTATAAAT
1 ATAAATTTATTTA-AAAT
86975 ATAAATAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 4 0.12
22 7 0.21
23 19 0.56
24 4 0.12
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAATTTATTTAAAATCATTT
Found at i:86951 original size:34 final size:35
Alignment explanation
Indices: 86913--86980 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 35
86903 ATAATAAAAA
86913 TAAATTTATTTA-AAA-TCATTTATTAAAT-TAAATT
1 TAAA-TTATTTATAAATTCATTTA-TAAATATAAATT
*
86947 TAAATTATTTATAAATTTATTTATAAATATAAAT
1 TAAATTATTTATAAATTCATTTATAAATATAAAT
86981 AAATTAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 7 0.23
34 12 0.40
35 11 0.37
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (35 bp):
TAAATTATTTATAAATTCATTTATAAATATAAATT
Found at i:86961 original size:11 final size:11
Alignment explanation
Indices: 86912--86974 Score: 58
Period size: 12 Copynumber: 5.5 Consensus size: 11
86902 TATAATAAAA
86912 ATAAATTTATTT
1 ATAAA-TTATTT
*
86924 A-AAATCATTT
1 ATAAATTATTT
*
86934 ATTAAATTAAATT
1 A-TAAATT-ATTT
86947 -TAAATTATTT
1 ATAAATTATTT
86957 ATAAATTTATTT
1 ATAAA-TTATTT
86969 ATAAAT
1 ATAAAT
86975 ATAAATAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
10 9 0.21
11 14 0.33
12 16 0.38
13 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (11 bp):
ATAAATTATTT
Found at i:86979 original size:29 final size:29
Alignment explanation
Indices: 86898--87023 Score: 85
Period size: 29 Copynumber: 4.1 Consensus size: 29
86888 AATATTAATT
* *
86898 ATATTATAATAAAAATAAATTTATTTA-AA
1 ATATTTTAATAAATATAAA-TTATTTATAA
*
86927 ATCATTTATTAAATTAAATTTAAATTATTTATAA
1 AT-A-TT-TT-AA-TAAATATAAATTATTTATAA
* * * *
86961 AT-TTATTTATAAATATAAATAAATTAAAA
1 ATATT-TTAATAAATATAAATTATTTATAA
*
86990 ATATTTTAATAAAATATAATTTATTTAATAA
1 ATATTTTAAT-AAATATAAATTATTT-ATAA
87021 ATA
1 ATA
87024 AATTTTAAAA
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
29 24 0.32
30 16 0.21
31 13 0.17
32 1 0.01
33 9 0.12
34 12 0.16
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (29 bp):
ATATTTTAATAAATATAAATTATTTATAA
Found at i:86982 original size:22 final size:21
Alignment explanation
Indices: 86896--86985 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 21
86886 TTAATATTAA
* *
86896 TTATATTATAATAAAAATAAAT
1 TTAT-TTAAAATATAAATAAAT
* *
86918 TTATTTAAAATCATTTATTAAAT
1 TTATTTAAAAT-A-TAAATAAAT
* * **
86941 TAAATTTAAATTATTTATAAAT
1 T-TATTTAAAATATAAATAAAT
86963 TTATTTATAAATATAAATAAAT
1 TTATTTA-AAATATAAATAAAT
86985 T
1 T
86986 AAAAATATTT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
21 11 0.21
22 25 0.48
23 8 0.15
24 8 0.15
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (21 bp):
TTATTTAAAATATAAATAAAT
Found at i:88336 original size:68 final size:66
Alignment explanation
Indices: 88194--88323 Score: 190
Period size: 68 Copynumber: 1.9 Consensus size: 66
88184 AAATCACTCA
* * * *
88194 AAAAATGTGTAAATAATAACATTTTTGTGTATGTTAGGAACGTTTTAGGAGGTTGAGTATTTCTG
1 AAAAATGTGTAAAAAATAAAATTTTGGTGTATGTTAGGAACATTTTAGGAGGTTGAGTATTTCTG
88259 T
66 T
88260 AAAAATGTGTAAAAAATTCAAAATTTTGGTGTAAT-TTAGGAACATTTTAGGAGGTTGAGTATTT
1 AAAAATGTGTAAAAAA-T-AAAATTTTGGTGT-ATGTTAGGAACATTTTAGGAGGTTGAGTATTT
88324 TTGTGAATAT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
66 15 0.26
67 1 0.02
68 39 0.68
69 2 0.04
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (66 bp):
AAAAATGTGTAAAAAATAAAATTTTGGTGTATGTTAGGAACATTTTAGGAGGTTGAGTATTTCTG
T
Found at i:89980 original size:2 final size:2
Alignment explanation
Indices: 89975--90011 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
89965 TTCTCTCCAG
*
89975 TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
90012 ACAGCGGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:92536 original size:14 final size:13
Alignment explanation
Indices: 92484--92537 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
92474 TATATTAATG
*
92484 AATATTATTTTT-
1 AATATAATTTTTA
92496 AATATAA-TTTTA
1 AATATAATTTTTA
92508 AATA-ACATTGTTTA
1 AATATA-ATT-TTTA
92522 AATATAATTTATTA
1 AATATAATTT-TTA
92536 AA
1 AA
92538 ATATTTGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
11 5 0.14
12 11 0.31
13 2 0.06
14 16 0.46
15 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
AATATAATTTTTA
Found at i:92594 original size:13 final size:13
Alignment explanation
Indices: 92551--92618 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
92541 TTTGTATTGT
92551 ATTAATTTATATT-
1 ATTAATTT-TATTA
* *
92564 TTTATTTTTA-TA
1 ATTAATTTTATTA
*
92576 AATAATTTTATTA
1 ATTAATTTTATTA
*
92589 ATTAATTTTTATTT
1 ATTAA-TTTTATTA
* *
92603 ATTAATATAATTA
1 ATTAATTTTATTA
92616 ATT
1 ATT
92619 TAATATTATA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
11 1 0.02
12 9 0.21
13 20 0.48
14 12 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
ATTAATTTTATTA
Found at i:92600 original size:14 final size:14
Alignment explanation
Indices: 92567--92608 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
92557 TTATATTTTT
*
92567 ATTTTTA-TAAATA
1 ATTTTTATTAATTA
92580 A-TTTTATTAATTA
1 ATTTTTATTAATTA
*
92593 ATTTTTATTTATTA
1 ATTTTTATTAATTA
92607 AT
1 AT
92609 ATAATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 7 0.28
14 13 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTATTAATTA
Found at i:92608 original size:27 final size:27
Alignment explanation
Indices: 92540--92618 Score: 65
Period size: 27 Copynumber: 3.0 Consensus size: 27
92530 TTATTAAAAT
* *
92540 ATTTGTATTGTATTAATTTATATT--TTT
1 ATTTTTATT-TATTAATTT-TATTAATTA
* *
92567 ATTTTTA-TAAATAATTTTATTAATTA
1 ATTTTTATTTATTAATTTTATTAATTA
* *
92593 ATTTTTATTTATTAATATAATTAATT
1 ATTTTTATTTATTAATTTTATTAATT
92619 TAATATTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
24 4 0.10
25 7 0.17
26 10 0.24
27 20 0.49
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (27 bp):
ATTTTTATTTATTAATTTTATTAATTA
Found at i:92622 original size:32 final size:33
Alignment explanation
Indices: 92550--92615 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
92540 ATTTGTATTG
*
92550 TATTAATTTATATTTTTATTTTTATAAATAATTT
1 TATTAA-TTATATTTTTATTTTTATAAATAATTA
*
92584 TATTAATTA-ATTTTTATTTATTA-ATATAATTA
1 TATTAATTATATTTTTATTT-TTATAAATAATTA
92616 ATTTAATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 17 0.59
33 6 0.21
34 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (33 bp):
TATTAATTATATTTTTATTTTTATAAATAATTA
Found at i:92826 original size:16 final size:16
Alignment explanation
Indices: 92807--92845 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92797 TTTATTTTAT
92807 TTTTATTAAATAATTA
1 TTTTATTAAATAATTA
* **
92823 TTTTATTATATTTTTA
1 TTTTATTAAATAATTA
92839 TTTTATT
1 TTTTATT
92846 TTAACAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTATTAAATAATTA
Found at i:95114 original size:18 final size:18
Alignment explanation
Indices: 95091--95127 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
95081 TAAATATGAC
*
95091 TAATAAAATGATTTTATA
1 TAATAAAATAATTTTATA
*
95109 TAATAAATTAATTTTATA
1 TAATAAAATAATTTTATA
95127 T
1 T
95128 TTTTTACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TAATAAAATAATTTTATA
Found at i:95901 original size:15 final size:15
Alignment explanation
Indices: 95868--95912 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
95858 TAATATAAAA
* *
95868 ATAATTTTTTTAATA
1 ATAATTTTTTTATTT
95883 ATAATTTTTTTATTT
1 ATAATTTTTTTATTT
**
95898 ATAAAATTTTTATTT
1 ATAATTTTTTTATTT
95913 TAAACTTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATAATTTTTTTATTT
Found at i:96111 original size:28 final size:29
Alignment explanation
Indices: 96064--96128 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
96054 AATTTAATTC
* * *
96064 AATTTAATTTAATCATAAAATTAATAATTTA
1 AATTT-ATTTAAT-ATAAAATAAAAAATATA
96095 AATTTATTTAAT-TAAAATAAAAAATATA
1 AATTTATTTAATATAAAATAAAAAATATA
96123 AATTTA
1 AATTTA
96129 AAATAATACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 19 0.61
30 7 0.23
31 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (29 bp):
AATTTATTTAATATAAAATAAAAAATATA
Found at i:96141 original size:16 final size:16
Alignment explanation
Indices: 96112--96162 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
96102 TTAATTAAAA
*
96112 TAAAA-AATATAAATT
1 TAAAATAATAAAAATT
*
96127 TAAAATAATACAAATT
1 TAAAATAATAAAAATT
*
96143 TAAAATAATAAAAAAT
1 TAAAATAATAAAAATT
96159 TAAA
1 TAAA
96163 TTAAAGATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
15 5 0.16
16 27 0.84
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
TAAAATAATAAAAATT
Found at i:100947 original size:58 final size:59
Alignment explanation
Indices: 100843--100959 Score: 191
Period size: 58 Copynumber: 2.0 Consensus size: 59
100833 GATCGTGCTT
* *
100843 TAGGTTGTTTGATTTCCATAGTTTTGGTGATTTGTGTCAAGCAAAG-TAAGTATAGGTC
1 TAGGTTGTTTGATTTCCATAGTTTTGGTGATTTGTGTCAAGAAAAGTTAACTATAGGTC
**
100901 TAGGTTGTTTGATTTCCATAGTTTTGGTGATTTGTGTTGAGAAAAGTTAACTATAGGTC
1 TAGGTTGTTTGATTTCCATAGTTTTGGTGATTTGTGTCAAGAAAAGTTAACTATAGGTC
100960 ATGAATGAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 43 0.80
59 11 0.20
ACGTcount: A:0.24, C:0.08, G:0.26, T:0.43
Consensus pattern (59 bp):
TAGGTTGTTTGATTTCCATAGTTTTGGTGATTTGTGTCAAGAAAAGTTAACTATAGGTC
Found at i:104455 original size:10 final size:10
Alignment explanation
Indices: 104425--104456 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
104415 TTTACTCGAG
104425 TTTTTGTTTT
1 TTTTTGTTTT
*
104435 GTTTTGTTTT
1 TTTTTGTTTT
104445 TTTTTGTTTT
1 TTTTTGTTTT
104455 TT
1 TT
104457 GTAAATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:105212 original size:31 final size:31
Alignment explanation
Indices: 105154--105213 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
105144 AGTTTTTTAA
*
105154 ATTTTTAGTATGAATATAAATTTAATAATGT
1 ATTTTTAATATGAATATAAATTTAATAATGT
105185 ATTTTTAATAT-AA-ATACAATTTAAATAAT
1 ATTTTTAATATGAATATA-AATTT-AATAAT
105214 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 3 0.12
30 7 0.27
31 16 0.62
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (31 bp):
ATTTTTAATATGAATATAAATTTAATAATGT
Found at i:105291 original size:22 final size:23
Alignment explanation
Indices: 105261--105303 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
105251 ATATTTTCTT
*
105261 ATTTAATATATATAATTTAATAA
1 ATTTAATATACATAATTTAATAA
*
105284 ATTT-ATATACATATTTTAAT
1 ATTTAATATACATAATTTAAT
105304 TTAATAACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTTAATATACATAATTTAATAA
Found at i:106785 original size:17 final size:17
Alignment explanation
Indices: 106763--106799 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
106753 TAATAATATT
106763 AAATTAAAATATAATAA
1 AAATTAAAATATAATAA
**
106780 AAATTATGATATAATAA
1 AAATTAAAATATAATAA
106797 AAA
1 AAA
106800 ATAATATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATTAAAATATAATAA
Found at i:112225 original size:24 final size:24
Alignment explanation
Indices: 112193--112240 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
112183 CTTATTATCT
*
112193 TTCATGAATACAGATCACAAACCA
1 TTCATGAATACAGATAACAAACCA
*
112217 TTCATGAATACATATAACAAACCA
1 TTCATGAATACAGATAACAAACCA
112241 AAACAAGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (24 bp):
TTCATGAATACAGATAACAAACCA
Found at i:113007 original size:24 final size:24
Alignment explanation
Indices: 112975--113078 Score: 154
Period size: 24 Copynumber: 4.3 Consensus size: 24
112965 TGTAGTGGTT
112975 GCTGCTGCTGTTGATCAAACTGGG
1 GCTGCTGCTGTTGATCAAACTGGG
*
112999 GCTGCTGCTGTTGATCAAACTGAG
1 GCTGCTGCTGTTGATCAAACTGGG
*
113023 GCTGCTGCTGTTGATCAAATTGGG
1 GCTGCTGCTGTTGATCAAACTGGG
* * *
113047 CCTGTTGCTGTTGATCAAATTGGG
1 GCTGCTGCTGTTGATCAAACTGGG
*
113071 CCTGCTGC
1 GCTGCTGC
113079 AATATATAGC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
24 74 1.00
ACGTcount: A:0.16, C:0.21, G:0.31, T:0.32
Consensus pattern (24 bp):
GCTGCTGCTGTTGATCAAACTGGG
Found at i:114948 original size:15 final size:15
Alignment explanation
Indices: 114928--114959 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
114918 TCATTGAAAT
114928 TATTTTTT-AAAAAA
1 TATTTTTTGAAAAAA
114942 TATTTTTTGAAAAAA
1 TATTTTTTGAAAAAA
114957 TAT
1 TAT
114960 GAAGATTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATTTTTTGAAAAAA
Found at i:115097 original size:32 final size:32
Alignment explanation
Indices: 115021--115114 Score: 107
Period size: 32 Copynumber: 2.8 Consensus size: 32
115011 TTTTTATTTT
* * **
115021 TATACTATTATTATTAAAATATTAATTATATATTT
1 TATA-TATTA-TATTAAAATATT-ATTTTAAATAA
115056 TATATATTATATTAAAATATTATTTTAAATAA
1 TATATATTATATTAAAATATTATTTTAAATAA
* *
115088 TATATATTATACTAAAATCTTATTTTA
1 TATATATTATATTAAAATATTATTTTA
115115 TAATTCTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
32 32 0.60
33 12 0.23
34 5 0.09
35 4 0.08
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (32 bp):
TATATATTATATTAAAATATTATTTTAAATAA
Found at i:115215 original size:23 final size:23
Alignment explanation
Indices: 115172--115233 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
115162 AAAAATTTAA
* *
115172 AATATTAAAATTTATTAATTTTT
1 AATATTAAAATTTAATAATTTTC
115195 AATATTAAAATTGTAAT-ATTTTC
1 AATATTAAAATT-TAATAATTTTC
* *
115218 AATAATAATATTTAAT
1 AATATTAAAATTTAAT
115234 GATAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.12
23 27 0.79
24 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (23 bp):
AATATTAAAATTTAATAATTTTC
Found at i:115296 original size:22 final size:23
Alignment explanation
Indices: 115247--115296 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
115237 AAAATATTAT
*
115247 ATTAATATTAAATACTTAAAATA
1 ATTAATATTAAATACTTAAAAAA
* *
115270 A-TAATATTTATTA-TTAAAAAA
1 ATTAATATTAAATACTTAAAAAA
115291 ATTAAT
1 ATTAAT
115297 TATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 8 0.35
22 14 0.61
23 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTAATATTAAATACTTAAAAAA
Found at i:115577 original size:17 final size:16
Alignment explanation
Indices: 115538--115609 Score: 67
Period size: 17 Copynumber: 4.4 Consensus size: 16
115528 TTATAAAAAC
115538 AATAATATTGTTTTATTA
1 AATAATA-T-TTTTATTA
115556 AATAATATTTTTATTAA
1 AATAATATTTTTATT-A
* *
115573 AATAATAATTATATT-
1 AATAATATTTTTATTA
*
115588 AATAAT-TTATTATTA
1 AATAATATTTTTATTA
*
115603 AAAAATA
1 AATAATA
115610 ATATTATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 5 0.11
15 11 0.24
16 7 0.16
17 15 0.33
18 7 0.16
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (16 bp):
AATAATATTTTTATTA
Found at i:115614 original size:16 final size:16
Alignment explanation
Indices: 115550--115616 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
115540 TAATATTGTT
* * *
115550 TTATTAAATAATATTT
1 TTATTAAAAAATAATA
115566 TTATTAAAATAATAAT-
1 TTATTAAAA-AATAATA
* *
115582 TATATT-AATAAT-TTA
1 T-TATTAAAAAATAATA
115597 TTATTAAAAAATAATA
1 TTATTAAAAAATAATA
115613 TTAT
1 TTAT
115617 ATTGTAAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 17 0.43
17 9 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTATTAAAAAATAATA
Found at i:115616 original size:32 final size:33
Alignment explanation
Indices: 115522--115619 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 33
115512 ATAATGTTAC
* *
115522 AATTTATTATAAAAACAATAATATTGTTTTATTAAAT
1 AATTTATTATTAAAA-AATAATA---TTATATTAAAT
*
115559 AATATTTTTATT--AAAATAATAATTATATT-AAT
1 AAT-TTATTATTAAAAAATAAT-ATTATATTAAAT
115591 AATTTATTATTAAAAAATAATATTATATT
1 AATTTATTATTAAAAAATAATATTATATT
115620 GTAAAATATA
Statistics
Matches: 53, Mismatches: 4, Indels: 13
0.76 0.06 0.19
Matches are distributed among these distances:
31 7 0.13
32 14 0.26
33 14 0.26
35 6 0.11
36 3 0.06
37 3 0.06
38 6 0.11
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (33 bp):
AATTTATTATTAAAAAATAATATTATATTAAAT
Found at i:115619 original size:18 final size:19
Alignment explanation
Indices: 115588--115639 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 19
115578 TAATTATATT
115588 AATAAT-TTATTAT-TAAAA
1 AATAATATTA-TATGTAAAA
115606 AATAATATTATATTGTAAAA
1 AATAATATTATA-TGTAAAA
*
115626 TATAATA-TATATGT
1 AATAATATTATATGT
115640 TTAATAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
18 11 0.37
19 8 0.27
20 11 0.37
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
AATAATATTATATGTAAAA
Found at i:115662 original size:18 final size:18
Alignment explanation
Indices: 115641--115681 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
115631 TATATATGTT
*
115641 TAATAATATTTAAAATTA
1 TAATAATAATTAAAATTA
115659 TAATAATAATTAAAATTA
1 TAATAATAATTAAAATTA
115677 TAATA
1 TAATA
115682 TTTTAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATAATAATTAAAATTA
Found at i:115729 original size:22 final size:23
Alignment explanation
Indices: 115672--115729 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 23
115662 TAATAATTAA
*
115672 AATT-ATAATATTTTAATATTTTT
1 AATTAATAATA-TTAAATATTTTT
115695 AAATTAA-AA-ATTAAATATTTTT
1 -AATTAATAATATTAAATATTTTT
115717 -ATTAATAATATTA
1 AATTAATAATATTA
115730 TTTAACTCGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 5 0.17
21 2 0.07
22 15 0.50
23 1 0.03
24 6 0.20
25 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATTAATAATATTAAATATTTTT
Found at i:115836 original size:19 final size:18
Alignment explanation
Indices: 115790--115844 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
115780 GCTTTCTCAA
115790 AAAAATATTTTTATTTTTT
1 AAAAATA-TTTTATTTTTT
115809 AAAAA-ATTTT-TTTTTT
1 AAAAATATTTTATTTTTT
115825 AAATTAATATTTTATTTTTT
1 AAA--AATATTTTATTTTTT
115845 TGTTGATCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.28
17 4 0.12
18 3 0.09
19 10 0.31
20 6 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
AAAAATATTTTATTTTTT
Found at i:115907 original size:10 final size:10
Alignment explanation
Indices: 115883--115918 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
115873 CAAATTATAT
115883 TTATTAAATAA
1 TTATTAAA-AA
115894 TTATTAAAAA
1 TTATTAAAAA
115904 TTATTAAAAA
1 TTATTAAAAA
115914 TTATT
1 TTATT
115919 TTTTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:115978 original size:20 final size:20
Alignment explanation
Indices: 115953--115991 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
115943 TTTTTTTATT
115953 AAATTTAT-ATAATAATAAAA
1 AAATTTATAATAAT-ATAAAA
115973 AAATTTATAATAATATAAA
1 AAATTTATAATAATATAAA
115992 TACATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTATAATAATATAAAA
Found at i:116712 original size:28 final size:29
Alignment explanation
Indices: 116682--116786 Score: 102
Period size: 30 Copynumber: 3.4 Consensus size: 29
116672 TTTTAAATTA
116682 TTTTATTTTATTTTTTAAAATAATATAAT
1 TTTTATTTTATTTTTTAAAATAATATAAT
* ** *
116711 TTTAATTATTATTTAATATAAATAAGTTTTTAAT
1 TTTTATT-TTATTTTTTA-AAATAA---TATAAT
*
116745 TATTTATTTTATTATTTAAAATAAATATAAT
1 T-TTTATTTTATTTTTTAAAAT-AATATAAT
116776 TTTTATTTTAT
1 TTTTATTTTAT
116787 AATTATTTAT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
29 6 0.10
30 18 0.30
31 12 0.20
33 4 0.07
34 15 0.25
35 5 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTATTTTATTTTTTAAAATAATATAAT
Found at i:116726 original size:27 final size:27
Alignment explanation
Indices: 116689--116753 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 27
116679 TTATTTTATT
*
116689 TTATTTTTTAAAATAATATAA-TTTTAA
1 TTATTATTTAAAATAA-ATAAGTTTTAA
*
116716 TTATTATTTAATATAAATAAGTTTTTAA
1 TTATTATTTAAAATAAATAAG-TTTTAA
116744 TTATTTATTT
1 TTA-TTATTT
116754 TATTATTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 4 0.12
27 14 0.42
28 9 0.27
29 6 0.18
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTATTATTTAAAATAAATAAGTTTTAA
Found at i:116789 original size:14 final size:15
Alignment explanation
Indices: 116769--116802 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
116759 TTTAAAATAA
116769 ATATAATT-TTTATT
1 ATATAATTATTTATT
*
116783 TTATAATTATTTATT
1 ATATAATTATTTATT
116798 ATATA
1 ATATA
116803 TATACATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATAATTATTTATT
Found at i:116797 original size:37 final size:37
Alignment explanation
Indices: 116711--116797 Score: 92
Period size: 37 Copynumber: 2.4 Consensus size: 37
116701 ATAATATAAT
* *
116711 TTTAATTA-TTATTTAATATAAATAAGTTTTTAATTA
1 TTTAATTATTTATTTAAAATAAATAAATTTTTAATTA
*
116747 TTT-ATTTTATTATTTAAAATAAATATAATTTTT-ATT-
1 TTTAATTAT-TTATTTAAAATAAATA-AATTTTTAATTA
116783 TTATAATTATTTATT
1 TT-TAATTATTTATT
116798 ATATATATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
35 3 0.07
36 5 0.12
37 24 0.57
38 10 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (37 bp):
TTTAATTATTTATTTAAAATAAATAAATTTTTAATTA
Found at i:117092 original size:16 final size:16
Alignment explanation
Indices: 117071--117107 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
117061 ATAAATTTAC
117071 ATTTTAAATTTAAATT
1 ATTTTAAATTTAAATT
*
117087 ATTTTATATTTAAATT
1 ATTTTAAATTTAAATT
117103 ATTTT
1 ATTTT
117108 TTGTTACTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTAAATTTAAATT
Found at i:120052 original size:60 final size:59
Alignment explanation
Indices: 119965--120080 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 59
119955 TTTAAGTTTT
* * * * * * *
119965 AAATTAAATTAAATTTAAAATAATTAAATATATGATTTATTATAATTATTTTAAAATTA
1 AAATTAAATCAAATATAAAATAATTAAATATATAATTCATAATAATGATTTAAAAATTA
*
120024 AAATTAAAATCAAATATAAAATAATTAAATGTATAATTCATAATAATGATTTAAAAA
1 AAATT-AAATCAAATATAAAATAATTAAATATATAATTCATAATAATGATTTAAAAA
120081 AATTCACGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
59 5 0.10
60 43 0.90
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.40
Consensus pattern (59 bp):
AAATTAAATCAAATATAAAATAATTAAATATATAATTCATAATAATGATTTAAAAATTA
Found at i:121087 original size:18 final size:17
Alignment explanation
Indices: 121035--121084 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
121025 ATTTAAATCT
121035 TATAA-TATTTTATTTA
1 TATAATTATTTTATTTA
* **
121051 AATAAATTAAATTATTTA
1 TAT-AATTATTTTATTTA
121069 TATAATTATTTTATTT
1 TATAATTATTTTATTT
121085 TATTTTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
16 2 0.08
17 13 0.50
18 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATAATTATTTTATTTA
Found at i:121758 original size:19 final size:19
Alignment explanation
Indices: 121731--121795 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 19
121721 TTATTTTATT
121731 ATTTAATATATAATAATTAA
1 ATTT-ATATATAATAATTAA
*
121751 ATTTATATATCTATATTATTTAA
1 ATTTATATA--TA-A-TAATTAA
*
121774 ATTTATATATAATAATAAA
1 ATTTATATATAATAATTAA
121793 ATT
1 ATT
121796 AATTATCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 13 0.34
20 5 0.13
21 4 0.11
22 1 0.03
23 15 0.39
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTATATATAATAATTAA
Found at i:121760 original size:40 final size:41
Alignment explanation
Indices: 121705--121795 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
121695 AATCTGGATA
* * *
121705 AATTAAATTTTTATATTTATTTTA-TT-ATTTAATATATAAT
1 AATTAAATTTATATATCTATATTATTTAATTT-ATATATAAT
121745 AATTAAATTTATATATCTATATTATTTAAATTTATATATAAT
1 AATTAAATTTATATATCTATATTATTT-AATTTATATATAAT
*
121787 AATAAAATT
1 AATTAAATT
121796 AATTATCATA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
40 21 0.48
41 2 0.05
42 17 0.39
43 4 0.09
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (41 bp):
AATTAAATTTATATATCTATATTATTTAATTTATATATAAT
Found at i:121984 original size:3 final size:3
Alignment explanation
Indices: 121976--122015 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
121966 AATGTCGCTA
* *
121976 AAT AAT AAT AAT AAT AAA AAT AA- AAT AAC AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
122016 CTTTCAGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:128689 original size:2 final size:2
Alignment explanation
Indices: 128684--128713 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
128674 CAGCACTGTC
128684 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
128714 GTGTGTGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128746 original size:20 final size:20
Alignment explanation
Indices: 128721--128759 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
128711 TATGTGTGTG
128721 TGTGTGTGTGTATATGTATA
1 TGTGTGTGTGTATATGTATA
128741 TGTGTGTGTGTATATGTAT
1 TGTGTGTGTGTATATGTAT
128760 GCATGATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (20 bp):
TGTGTGTGTGTATATGTATA
Found at i:129915 original size:18 final size:18
Alignment explanation
Indices: 129849--129907 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
129839 TGGCGATGCG
*
129849 ATTGGTAAAA-GTGGTGGC
1 ATTGG-AAAAGGTGGTGGA
*
129867 ATTGGAAAAGGTAGTGGA
1 ATTGGAAAAGGTGGTGGA
*
129885 ATTGGCAAAGGTGGTGGA
1 ATTGGAAAAGGTGGTGGA
129903 ATTGG
1 ATTGG
129908 GAAGGGTGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.11
18 32 0.89
ACGTcount: A:0.31, C:0.03, G:0.41, T:0.25
Consensus pattern (18 bp):
ATTGGAAAAGGTGGTGGA
Found at i:129920 original size:18 final size:18
Alignment explanation
Indices: 129867--129920 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
129857 AAGTGGTGGC
*
129867 ATTGGAAAAGGT-AGTGGA
1 ATTGGCAAAGGTGA-TGGA
*
129885 ATTGGCAAAGGTGGTGGA
1 ATTGGCAAAGGTGATGGA
* *
129903 ATTGGGAAGGGTGATGGA
1 ATTGGCAAAGGTGATGGA
129921 CATGGAGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.31, C:0.02, G:0.44, T:0.22
Consensus pattern (18 bp):
ATTGGCAAAGGTGATGGA
Found at i:131225 original size:32 final size:32
Alignment explanation
Indices: 131164--131227 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
131154 AATTATTACT
*
131164 TATTATATTTAATATAATATTATTACTATAAA
1 TATTATATTTAATATAATATAATTACTATAAA
*
131196 TATTATA-TTAA-ATAATCATAAATTGCTATAAA
1 TATTATATTTAATATAAT-AT-AATTACTATAAA
131228 AACGATATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 5 0.18
31 6 0.21
32 17 0.61
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (32 bp):
TATTATATTTAATATAATATAATTACTATAAA
Found at i:143734 original size:30 final size:30
Alignment explanation
Indices: 143700--143763 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
143690 AAATAGGAAA
143700 TGGTGGTAGAATCGGAAAAAGTGGTGGGAT
1 TGGTGGTAGAATCGGAAAAAGTGGTGGGAT
* * * *
143730 TGGTGGTGGATTTGGAAAAGGTGGTGGGAT
1 TGGTGGTAGAATCGGAAAAAGTGGTGGGAT
143760 TGGT
1 TGGT
143764 AAAGGAGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.02, G:0.47, T:0.28
Consensus pattern (30 bp):
TGGTGGTAGAATCGGAAAAAGTGGTGGGAT
Found at i:149905 original size:27 final size:27
Alignment explanation
Indices: 149875--149927 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
149865 ATGATTATTT
* *
149875 TTTTATTTACAATATTTAAAT-TTAAAA
1 TTTTATTTA-AAAAGTTAAATGTTAAAA
149902 TTTTATTTAAAAAGTTAAATGTTAAA
1 TTTTATTTAAAAAGTTAAATGTTAAA
149928 CTACTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTTATTTAAAAAGTTAAATGTTAAAA
Found at i:150175 original size:19 final size:19
Alignment explanation
Indices: 150151--150193 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
150141 ACAAAGTATA
150151 TTATTTAAGATATTAATAC
1 TTATTTAAGATATTAATAC
*
150170 TTATTTAAGATATTATTAC
1 TTATTTAAGATATTAATAC
150189 TTATT
1 TTATT
150194 AAGGTAGATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATTTAAGATATTAATAC
Found at i:152455 original size:21 final size:21
Alignment explanation
Indices: 152420--152479 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
152410 AAATTTATTT
*
152420 TATTATTTATTATATTAGTAAAA
1 TATTA-TTATTATATTA-AAAAA
152443 TATTATT-TTATATTAAAAAA
1 TATTATTATTATATTAAAAAA
152463 TA-TA-TATTATAATTAAA
1 TATTATTATTAT-ATTAAA
152480 TTTAAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 1 0.03
19 6 0.18
20 12 0.35
21 8 0.24
22 2 0.06
23 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTATTATTATATTAAAAAA
Found at i:153523 original size:49 final size:49
Alignment explanation
Indices: 153451--153550 Score: 175
Period size: 49 Copynumber: 2.0 Consensus size: 49
153441 ACACTGAGAG
153451 TTTAAAAGTTATGGCTTTAATGTTTAATGGAAAAAA-CAAATTTGCTAAC
1 TTTAAAAGTTATGGCTTTAATGTTTAAT-GAAAAAATCAAATTTGCTAAC
*
153500 TTTAAAAGTTATGGCTTTAATGTTTAATGAAAAAATCAGATTTGCTAAC
1 TTTAAAAGTTATGGCTTTAATGTTTAATGAAAAAATCAAATTTGCTAAC
153549 TT
1 TT
153551 ACTTCCACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 7 0.14
49 42 0.86
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (49 bp):
TTTAAAAGTTATGGCTTTAATGTTTAATGAAAAAATCAAATTTGCTAAC
Found at i:157056 original size:100 final size:100
Alignment explanation
Indices: 156853--157046 Score: 343
Period size: 100 Copynumber: 1.9 Consensus size: 100
156843 TCTTCGTAAA
* *
156853 TTTTGCCCTCTGTTTTTTAGATATATATATTTTTTTACGGATAAATGGAATGTCCGATGAAAGAT
1 TTTTGCCCTCTGTTTTTTAGATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGAT
*
156918 TCACACTAGTATATTATTATATTTATAAAAAAAAT
66 TCACACTAATATATTATTATATTTATAAAAAAAAT
* *
156953 TTTTGCCTTCTGTTTTTTAGATATATATATTTTTTTACGGATAAATAGAATGCCCGATGGAAGAT
1 TTTTGCCCTCTGTTTTTTAGATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGAT
157018 TCACACTAATATATTATTATATTTATAAA
66 TCACACTAATATATTATTATATTTATAAA
157047 TAATTTTTTT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 89 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.44
Consensus pattern (100 bp):
TTTTGCCCTCTGTTTTTTAGATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGAT
TCACACTAATATATTATTATATTTATAAAAAAAAT
Found at i:157077 original size:100 final size:100
Alignment explanation
Indices: 156873--157082 Score: 273
Period size: 100 Copynumber: 2.1 Consensus size: 100
156863 TGTTTTTTAG
* * *
156873 ATATATATATTTTTTTACGGATAAATGGAATGTCCGATGAAAGATTCACACTAGTATATTATTAT
1 ATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGATTCACACTAATATATTATTAT
** * ** *
156938 ATTTATAAAAAAAATTTTTGCCTTCTGTTTTTTAG
66 ATTTATAAAAAAAATTTTTGAATTATGTTTTAAAA
*
156973 ATATATATATTTTTTTACGGATAAATAGAATGCCCGATGGAAGATTCACACTAATATATTATTAT
1 ATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGATTCACACTAATATATTATTAT
* * *
157038 ATTTAT-AAATAATTTTTTTAATTAAT-TTTTAAAA
66 ATTTATAAAAAAAATTTTTGAATT-ATGTTTTAAAA
157072 A-ATATATATTT
1 ATATATATATTT
157083 AAAATATTAA
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
98 10 0.10
99 18 0.19
100 68 0.71
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (100 bp):
ATATATATATTTTTTTACGGATAAATAGAATGCCCGATGAAAGATTCACACTAATATATTATTAT
ATTTATAAAAAAAATTTTTGAATTATGTTTTAAAA
Found at i:158964 original size:17 final size:17
Alignment explanation
Indices: 158921--158957 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
158911 ATTTTATCTA
158921 ATTTAT-AATTAAATTT
1 ATTTATAAATTAAATTT
158937 ATTTATAAATTAAA-TT
1 ATTTATAAATTAAATTT
158953 ATTTA
1 ATTTA
158958 CTCAATTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATAAATTAAATTT
Found at i:160152 original size:3 final size:3
Alignment explanation
Indices: 160144--160171 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
160134 AATCCTGACT
160144 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC T
160172 TTGGGCTTTC
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:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (3 bp):
TCC
Found at i:160478 original size:3 final size:3
Alignment explanation
Indices: 160470--160513 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
160460 GGATCATGTG
160470 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
160514 CGATCCCTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:161174 original size:2 final size:2
Alignment explanation
Indices: 161167--161191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
161157 AAACTAGGAC
161167 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
161192 TGGGAAGCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:167383 original size:36 final size:39
Alignment explanation
Indices: 167315--167387 Score: 91
Period size: 41 Copynumber: 1.9 Consensus size: 39
167305 TTACCATAAG
167315 TTGTTAAAATTAATTAACTTATTATTTATAATAATATTTTT
1 TTGTTAAAATTAATTAACTTA-TATTTATAAT-ATATTTTT
*
167356 TTGTTAAATTTAA-TAA-TTA-ATTT-TAATATATT
1 TTGTTAAAATTAATTAACTTATATTTATAATATATT
167388 ATATAACTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
35 5 0.16
36 4 0.13
37 4 0.13
39 3 0.10
40 3 0.10
41 12 0.39
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (39 bp):
TTGTTAAAATTAATTAACTTATATTTATAATATATTTTT
Found at i:167610 original size:16 final size:15
Alignment explanation
Indices: 167589--167643 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 15
167579 TCTATAAAAT
167589 TATAATCAAAATATAA
1 TATAAT-AAAATATAA
167605 TATAATAAAAACATATAA
1 TATAAT--AAA-ATATAA
*
167623 TATAATATAAAAATAA
1 TATAATA-AAATATAA
167639 TATAA
1 TATAA
167644 AAATTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 17 0.50
17 5 0.15
18 12 0.35
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (15 bp):
TATAATAAAATATAA
Found at i:167622 original size:18 final size:17
Alignment explanation
Indices: 167596--167643 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
167586 AATTATAATC
167596 AAAATATAATATAATAA
1 AAAATATAATATAATAA
*
167613 AAACATATAATATAATAT
1 AAA-ATATAATATAATAA
167631 AAAA-ATAATATAA
1 AAAATATAATATAA
167644 AAATTTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 9 0.31
17 4 0.14
18 16 0.55
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAATATAATATAATAA
Done.