Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168081.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_329, 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: 34391
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Found at i:316 original size:180 final size:179
Alignment explanation
Indices: 43--901 Score: 653
Period size: 180 Copynumber: 4.8 Consensus size: 179
33 TAATTGTTCA
* ** * * * * *
43 AATAGTCATAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTA
1 AATAGTCTTAACTATTTGAAC-TGTTCAGCAAACACATTTA-TTTTTTAAATCTCTTGCTTATTA
* *
108 ATCTTTCAAAA-GTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAA
64 AT-TTTCAAAATATTAATAAATTAGTATTATTTT-TATTGAATAAGCTTGTATGAACTAAAACAA
* **
172 TTATTTTATGATTAAACAAAAGGTCAGAACGA-TTTGAAATAAATAATTATTCT
127 TTGTTTTATGACAAAACAAAAGGTCAGAACGACTTTGAAATAAATAATTATT-T
* * *
225 AATAATCTTAACTATTTGAACTGATCAGCAAACACATTTATTTTTTAAATCTCTTACTTATTAAT
1 AATAGTCTTAACTATTTGAACTGTTCAGCAAACACATTTATTTTTTAAATCTCTTGCTTATTAAT
* * * * *
290 TTTCAAAATATTATTAAATTAGTATTATTTTTATCTGAATCAGCTTATATGATA-AAAAATAATT
66 TTTCAAAATATTAATAAATTAGTATTATTTTTAT-TGAATAAGCTTGTATGA-ACTAAAACAATT
* * * * * *
354 GTTTTATGACAAAAC-AAAGATCATAACGACTTTGAGATTAATATTTGTTT
129 GTTTTATGACAAAACAAAAGGTCAGAACGACTTTGAAATAAATAATTATTT
* * * * * * * *
404 AAATACT-TATAACTATTAGAATTGCTT-TGAAAATAGC-TTTAGTTTTTAAATCTCTTGCTTAA
1 -AATAGTCT-TAACTATTTGAACTG-TTCAGCAAACA-CATTTATTTTTTAAATCTCTTGCTTAT
** * * * * *
466 TAATTTTTGAAATATTAATAAAGTAGTATTA-TTTTATTTTAGAT-AGTTTTTATTAACTAAAAC
62 TAATTTTCAAAATATTAATAAATTAGTATTATTTTTA-TTGA-ATAAGCTTGTATGAACTAAAAC
** * ** * * * *
529 AATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAATAGATAATTATTA
125 AATTGTTTTATGACAAAACAAAAGGTCAGAACGACTTTGAAATAAATAATTATTT
* * * ** *
584 AATAGTCATATCTATTTGAAATTGTTCAATAAACAGATTTATTTTTTTAAA-CTCTTGC-T-TTA
1 AATAGTCTTAACTATTTG-AACTGTTCAGCAAACACATTTA-TTTTTTAAATCTCTTGCTTATTA
* * * *
646 ATTTTTC-GAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTATGAACTAAAATA
64 A-TTTTCAAAATATTAATAAATTAGTATTATTTTTATT--GAATAAGCTTGTATGAACTAAAACA
* * *
709 ATTGTTTTATGACTAAACAAAAGGAT-AGAATGA-TTTGAAATAGATAATTATTAT
126 ATTGTTTTATGACAAAACAAAAGG-TCAGAACGACTTTGAAATAAATAATTATT-T
* * * * *
763 GATAGTCTTAACTATTTGAACTAGTTCGGCTACCATATTTATTTTTTAAA--TC-T-CTTATTAA
1 AATAGTCTTAACTATTTGAACT-GTTCAGCAAACACATTTATTTTTTAAATCTCTTGCTTATTAA
** * * * * * ***
824 TTTTTGAAATACTATTAAATTAATATCATTTTAATCTGAATAAGCTTGTATGAAAGGAAACAATT
65 TTTTCAAAATATTAATAAATTAGTATTATTTTTAT-TGAATAAGCTTGTATGAACTAAAACAATT
*
889 GTTGTATGA-AAAA
129 GTTTTATGACAAAA
902 TAAAGATCAT
Statistics
Matches: 536, Mismatches: 112, Indels: 64
0.75 0.16 0.09
Matches are distributed among these distances:
175 1 0.00
176 9 0.02
177 55 0.10
178 65 0.12
179 154 0.29
180 208 0.39
181 25 0.05
182 19 0.04
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (179 bp):
AATAGTCTTAACTATTTGAACTGTTCAGCAAACACATTTATTTTTTAAATCTCTTGCTTATTAAT
TTTCAAAATATTAATAAATTAGTATTATTTTTATTGAATAAGCTTGTATGAACTAAAACAATTGT
TTTATGACAAAACAAAAGGTCAGAACGACTTTGAAATAAATAATTATTT
Found at i:1390 original size:20 final size:21
Alignment explanation
Indices: 1354--1397 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
1344 TTTAATATAG
*
1354 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
1374 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
1395 TTT
1 TTT
1398 TTTGTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:1837 original size:21 final size:20
Alignment explanation
Indices: 1813--1858 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
1803 AATAACTATC
1813 ATAATTAGTATTATTAAATTA
1 ATAATTAGTATTATTAAA-TA
* *
1834 ATAATTATTATTTTTAAATA
1 ATAATTAGTATTATTAAATA
1854 ATAAT
1 ATAAT
1859 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATTAGTATTATTAAATA
Found at i:2199 original size:18 final size:19
Alignment explanation
Indices: 2161--2204 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
2151 ATATTAGTTT
*
2161 TAATATTAATAATTATTAA
1 TAATATTAATAATTATGAA
2180 T-ATATTAATATATT-TGAA
1 TAATATTAATA-ATTATGAA
2198 TAATATT
1 TAATATT
2205 CAAATAGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATATTAATAATTATGAA
Found at i:2685 original size:22 final size:22
Alignment explanation
Indices: 2660--2719 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2650 TTCATTGATG
2660 ATTTAATTAATAAT-TTTATAAA
1 ATTTAA-TAATAATATTTATAAA
* *
2682 ATTTAATAATTATATTTATATA
1 ATTTAATAATAATATTTATAAA
2704 A-TTAATATTATAATAT
1 ATTTAATA--ATAATAT
2720 GAATAACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
21 12 0.38
22 14 0.44
23 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTAATAATAATATTTATAAA
Found at i:3118 original size:13 final size:13
Alignment explanation
Indices: 3085--3137 Score: 54
Period size: 13 Copynumber: 3.9 Consensus size: 13
3075 AAGAAGATAG
*
3085 TATATAATAAATAT
1 TATATAATTAAT-T
3099 TAT-TAATTAATT
1 TATATAATTAATT
*
3111 TATATAATTAATA
1 TATATAATTAATT
3124 TATAATATATTAAT
1 TAT-ATA-ATTAAT
3138 AGTAATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
12 4 0.12
13 18 0.53
14 6 0.18
15 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATATAATTAATT
Found at i:3124 original size:9 final size:9
Alignment explanation
Indices: 3086--3143 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 9
3076 AGAAGATAGT
*
3086 ATATAATAA
1 ATATAATTA
*
3095 ATATTATTA
1 ATATAATTA
*
3104 AT-TAATTT
1 ATATAATTA
3112 ATATAATTA
1 ATATAATTA
3121 ATAT-A-TA
1 ATATAATTA
3128 ATAT-ATTA
1 ATATAATTA
3136 ATAGTAAT
1 ATA-TAAT
3144 AGTTATTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
7 7 0.17
8 12 0.30
9 19 0.47
10 2 0.05
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
ATATAATTA
Found at i:4807 original size:15 final size:14
Alignment explanation
Indices: 4789--4829 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
4779 AATAAATAAT
4789 AACTATATAATTTGA
1 AACTATAT-ATTTGA
*
4804 AACTATCTATTTGA
1 AACTATATATTTGA
*
4818 AACTATCTATTT
1 AACTATATATTT
4830 ATAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (14 bp):
AACTATATATTTGA
Found at i:4817 original size:14 final size:14
Alignment explanation
Indices: 4798--4829 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4788 TAACTATATA
4798 ATTTGAAACTATCT
1 ATTTGAAACTATCT
4812 ATTTGAAACTATCT
1 ATTTGAAACTATCT
4826 ATTT
1 ATTT
4830 ATAATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (14 bp):
ATTTGAAACTATCT
Found at i:4988 original size:15 final size:16
Alignment explanation
Indices: 4961--4994 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4951 AATACTAAAT
4961 ATTAATAATTAATATA
1 ATTAATAATTAATATA
*
4977 ATTAAT-ATTAATTTA
1 ATTAATAATTAATATA
4992 ATT
1 ATT
4995 GTATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATAATTAATATA
Found at i:5133 original size:16 final size:15
Alignment explanation
Indices: 5085--5134 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
5075 TTATTAAATC
*
5085 TTATAATATATTAAA
1 TTATAATATATTTAA
5100 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
5115 TTATAATATATTTATA
1 TTATAATATATTTA-A
5131 TTAT
1 TTAT
5135 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:5691 original size:14 final size:14
Alignment explanation
Indices: 5667--5711 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
5657 ATATTACTAC
*
5667 TAATCATATATTATT
1 TAAT-ATATATTAAT
*
5682 TAATATATATAAAT
1 TAATATATATTAAT
*
5696 AAATATATATTAAT
1 TAATATATATTAAT
5710 TA
1 TA
5712 CACATTATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 21 0.84
15 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
TAATATATATTAAT
Found at i:7811 original size:42 final size:43
Alignment explanation
Indices: 7652--7819 Score: 189
Period size: 43 Copynumber: 3.9 Consensus size: 43
7642 ATCCACATTT
* * *
7652 AAAGATTCTCATTTGAATTTTGGAGATTCATATCCAAAAGTTC
1 AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
* *
7695 AAAGCTTCTCATTCAAGTTAAATTTGG-GGTTCACATCCAAAAGTT-
1 AAAGCTTCTCATTC--G--AATTTTGGAGATTCACATCCAAAAGTTC
* *
7740 TAAGCTTTTTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
1 AAAGC-TTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
* *
7784 AAAGCTTCTCATTCG-AGTTTGAAGATTCACATCCAA
1 AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAA
7820 TAAATTTCAT
Statistics
Matches: 105, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
42 26 0.25
43 38 0.36
44 5 0.05
45 5 0.05
46 24 0.23
47 7 0.07
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (43 bp):
AAAGCTTCTCATTCGAATTTTGGAGATTCACATCCAAAAGTTC
Found at i:7872 original size:21 final size:21
Alignment explanation
Indices: 7847--7970 Score: 83
Period size: 21 Copynumber: 5.6 Consensus size: 21
7837 CATCTCAAAA
7847 ATTCTCATTTGAAACTTAAAG
1 ATTCTCATTTGAAACTTAAAG
7868 ATTCTCATTTGAAGA-TTCAAAG
1 ATTCTCATTTGAA-ACTT-AAAG
* * * *
7890 ATTTTCATTTGAGGACTCAAAA
1 ATTCTCATTTGA-AACTTAAAG
7912 ATTCTCATTT-AAGGATTTCTTAAAG
1 ATTCTCATTTGAA--A---CTTAAAG
* *
7937 ATTCTCATTT-ATGACTCAAAG
1 ATTCTCATTTGA-AACTTAAAG
*
7958 ATTTTCATTTGAA
1 ATTCTCATTTGAA
7971 GATTTATTAA
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
21 31 0.39
22 31 0.39
23 1 0.01
24 1 0.01
25 16 0.20
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (21 bp):
ATTCTCATTTGAAACTTAAAG
Found at i:7892 original size:22 final size:22
Alignment explanation
Indices: 7841--7974 Score: 123
Period size: 22 Copynumber: 6.0 Consensus size: 22
7831 ATTTCACATC
*
7841 TCAAAAATTCTCATTTGAA-ACT
1 TCAAAGATTCTCATTTGAAGA-T
7863 T-AAAGATTCTCATTTGAAGAT
1 TCAAAGATTCTCATTTGAAGAT
* * *
7884 TCAAAGATTTTCATTTGAGGAC
1 TCAAAGATTCTCATTTGAAGAT
*
7906 TCAAAAATTCTCATTT-AAGGATT
1 TCAAAGATTCTCATTTGAA-GA-T
* *
7929 TCTTAAAGATTCTCATTT-ATGAC
1 TC--AAAGATTCTCATTTGAAGAT
*
7952 TCAAAGATTTTCATTTGAAGAT
1 TCAAAGATTCTCATTTGAAGAT
7974 T
1 T
7975 TATTAATTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
21 32 0.35
22 39 0.43
23 4 0.04
24 2 0.02
25 14 0.15
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (22 bp):
TCAAAGATTCTCATTTGAAGAT
Found at i:7966 original size:46 final size:47
Alignment explanation
Indices: 7847--7980 Score: 136
Period size: 46 Copynumber: 3.0 Consensus size: 47
7837 CATCTCAAAA
* * * *
7847 ATTCTCATTTGA-AACTTAAAGATTCTCATTTGAAGA--T-TCAAAG
1 ATTCTCATTTGAGGACTCAAAAATTCTCATTTGAAGATTTATTAAAG
* *
7890 ATTTTCATTTGAGGACTCAAAAATTCTCATTT-AAGGATTTCTTAAAG
1 ATTCTCATTTGAGGACTCAAAAATTCTCATTTGAA-GATTTATTAAAG
* * *
7937 ATTCTCATTT-ATGACTCAAAGATTTTCATTTGAAGATTTATTAA
1 ATTCTCATTTGAGGACTCAAAAATTCTCATTTGAAGATTTATTAA
7981 TTATATTTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
43 13 0.17
44 18 0.24
46 28 0.37
47 16 0.21
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (47 bp):
ATTCTCATTTGAGGACTCAAAAATTCTCATTTGAAGATTTATTAAAG
Found at i:9027 original size:15 final size:16
Alignment explanation
Indices: 9007--9049 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
8997 AATTATATAA
9007 TATTATTATAA-AACT
1 TATTATTATAATAACT
*
9022 TATTATTTTAATAACT
1 TATTATTATAATAACT
9038 TA-TATTA-AATAA
1 TATTATTATAATAA
9050 TATTAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 5 0.20
15 14 0.56
16 6 0.24
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTATTATAATAACT
Found at i:9041 original size:38 final size:38
Alignment explanation
Indices: 8963--9042 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 38
8953 ATTAATTTAA
** *
8963 ATATAATATTATAACTATTACTTCTTAGTTTATAAATT
1 ATATAATATTATAACTAAAACTTATTAGTTTATAAATT
* * *
9001 ATATAATATTATTA-TAAAACTTATTATTTTAATAACTT
1 ATATAATATTATAACTAAAACTTATTAGTTT-ATAAATT
9039 ATAT
1 ATAT
9043 TAAATAATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 12 0.34
38 23 0.66
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.50
Consensus pattern (38 bp):
ATATAATATTATAACTAAAACTTATTAGTTTATAAATT
Found at i:9526 original size:19 final size:18
Alignment explanation
Indices: 9504--9542 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
9494 TAAAATACTA
*
9504 TAATATAGTATCTTCTTAT
1 TAATATAGTAT-TTATTAT
9523 TAATATAGTATTTATTAT
1 TAATATAGTATTTATTAT
9541 TA
1 TA
9543 CACTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TAATATAGTATTTATTAT
Found at i:9670 original size:15 final size:15
Alignment explanation
Indices: 9630--9672 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
9620 TTAAGATAAT
*
9630 TATATTATTTA-TAA
1 TATATTATTAATTAA
9644 TATATT-TATAATTAA
1 TATATTAT-TAATTAA
9659 TATATTATTAATTA
1 TATATTATTAATTA
9673 TAGTAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 1 0.04
14 8 0.32
15 15 0.60
16 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATATTATTAATTAA
Found at i:9782 original size:13 final size:12
Alignment explanation
Indices: 9717--9802 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 12
9707 ATTTGAAATA
9717 ATATTA-ATAAT
1 ATATTATATAAT
*
9728 TTATTTAATATAAT
1 ATA-TT-ATATAAT
9742 A-A-T-TATAAT
1 ATATTATATAAT
* *
9751 ATACTATTTAA-
1 ATATTATATAAT
9762 AT-TTATATAAT
1 ATATTATATAAT
9773 ATAATTATATGAAT
1 AT-ATTATAT-AAT
9787 ATATTA-ATAAT
1 ATATTATATAAT
9798 -TATTA
1 ATATTA
9803 AATTAATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 21
0.70 0.06 0.24
Matches are distributed among these distances:
9 7 0.12
10 12 0.20
11 11 0.18
12 8 0.13
13 12 0.20
14 10 0.17
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (12 bp):
ATATTATATAAT
Found at i:9890 original size:22 final size:20
Alignment explanation
Indices: 9845--9882 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9835 ATTAAGATAT
*
9845 ATAAATTTTTAAGTATATTA
1 ATAAAGTTTTAAGTATATTA
9865 ATAAAGTTTTAAGTATAT
1 ATAAAGTTTTAAGTATAT
9883 ATACATAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (20 bp):
ATAAAGTTTTAAGTATATTA
Found at i:10046 original size:24 final size:23
Alignment explanation
Indices: 9997--10051 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
9987 TAAAATTATG
*
9997 TATATTAATAAATATTTAAATAA
1 TATATTAATAAATAGTTAAATAA
*
10020 TATACTTAAT-AATAGTT-AATAT
1 TATA-TTAATAAATAGTTAAATAA
*
10042 TATATAAATA
1 TATATTAATA
10052 TAATTAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 4 0.15
22 8 0.30
23 10 0.37
24 5 0.19
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
TATATTAATAAATAGTTAAATAA
Found at i:10229 original size:18 final size:17
Alignment explanation
Indices: 10204--10237 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
10194 TGACAAAATA
10204 AAATGTTATAATTATTC
1 AAATGTTATAATTATTC
*
10221 AAATAGTTATGATTATT
1 AAAT-GTTATAATTATT
10238 TAATCTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (17 bp):
AAATGTTATAATTATTC
Found at i:10933 original size:19 final size:18
Alignment explanation
Indices: 10901--10939 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
10891 ACGTTATTTT
10901 ATTAAAAATAAATTATTA
1 ATTAAAAATAAATTATTA
*
10919 ATTAAAATATTAATTATTA
1 ATTAAAA-ATAAATTATTA
10938 AT
1 AT
10940 ATTAATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTAAAAATAAATTATTA
Found at i:11255 original size:27 final size:25
Alignment explanation
Indices: 11220--11270 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
11210 GGATAACAAA
11220 ATTACTAATATTATAAAAATATTAATT
1 ATTACTAATATTAT--AAATATTAATT
*
11247 ATTAGTAATATTATAAATATTAAT
1 ATTACTAATATTATAAATATTAAT
11271 AAATTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
27 13 0.57
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTACTAATATTATAAATATTAATT
Found at i:11385 original size:19 final size:20
Alignment explanation
Indices: 11354--11392 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
11344 TTAAACTGTT
11354 AATAATAAATAATCA-TAAA
1 AATAATAAATAATCAGTAAA
11373 AATAA-AAATTAATCAGTAAA
1 AATAATAAA-TAATCAGTAAA
11393 TAATTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 11 0.61
20 4 0.22
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (20 bp):
AATAATAAATAATCAGTAAA
Found at i:14398 original size:17 final size:17
Alignment explanation
Indices: 14378--14494 Score: 61
Period size: 17 Copynumber: 6.8 Consensus size: 17
14368 ATAATATATT
14378 TAATTTATTTAATTATA
1 TAATTTATTTAATTATA
14395 TAATATTA-TT-A-TATA
1 TAAT-TTATTTAATTATA
* *
14410 TTAA-ATATTTAAATTAAA
1 -TAATTTATTT-AATTATA
14428 T-ATTTATTATAA-TATAA
1 TAATTTATT-TAATTAT-A
*
14445 TAAATATTATATAATTATA
1 T-AAT-TTATTTAATTATA
*
14464 TTAA-TAATTTAATTATA
1 -TAATTTATTTAATTATA
14481 TAA-TTATATTAATT
1 TAATTTAT-TTAATT
14495 TTATTAAACA
Statistics
Matches: 77, Mismatches: 8, Indels: 30
0.67 0.07 0.26
Matches are distributed among these distances:
14 2 0.03
15 6 0.08
16 13 0.17
17 33 0.43
18 7 0.09
19 8 0.10
20 8 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTTATTTAATTATA
Found at i:14403 original size:34 final size:33
Alignment explanation
Indices: 14365--14494 Score: 95
Period size: 34 Copynumber: 3.8 Consensus size: 33
14355 AATGTTTATC
14365 ATTATAATATATTTAATTTATTTAATTATATAAT
1 ATTATAATATATTTAA-TTATTTAATTATATAAT
* * * *
14399 ATTATTATATA-TTAAATATTTAAATTAAATATTT
1 ATTATAATATATTTAATTATTT-AATTATATA-AT
** *
14433 ATTATAATATAATAAATATTATATAATTATATTAAT
1 ATTATAATAT-ATTTA-ATTATTTAATTATA-TAAT
*
14469 AATT-TAAT-TATATAATTATATTAATT
1 -ATTATAATATATTTAATTAT-TTAATT
14495 TTATTAAACA
Statistics
Matches: 75, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
32 5 0.07
33 17 0.23
34 29 0.39
35 2 0.03
36 12 0.16
37 10 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
ATTATAATATATTTAATTATTTAATTATATAAT
Found at i:14418 original size:41 final size:43
Alignment explanation
Indices: 14367--14484 Score: 107
Period size: 42 Copynumber: 2.7 Consensus size: 43
14357 TGTTTATCAT
* *
14367 TATAATATATTTAATTTATTTAATTATATAATATTAT-TATA-TA
1 TATAA-ATATTTAA-TTATTTAATTATATAATATAATAAATATTA
** *
14410 T-TAAATATTTAAATTAAATATTTATTATAATATAATAAATATTA
1 TATAAATATTT-AATTATTTAATTA-TATAATATAATAAATATTA
* *
14454 TATAATTATATTAATAATTTAATTATATAAT
1 TATAAATAT-TTAATTATTTAATTATATAAT
14485 TATATTAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
41 14 0.24
42 15 0.25
43 4 0.07
44 9 0.15
45 15 0.25
46 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (43 bp):
TATAAATATTTAATTATTTAATTATATAATATAATAAATATTA
Found at i:14461 original size:25 final size:26
Alignment explanation
Indices: 14387--14493 Score: 77
Period size: 25 Copynumber: 4.3 Consensus size: 26
14377 TTAATTTATT
*
14387 TAATTATATAATATTATTATAT-ATTA
1 TAATTA-ATAATATAATTATATAATTA
* * * *
14413 AATATTTA-AAT-TAAATAT-TTATTA
1 TA-ATTAATAATATAATTATATAATTA
14437 TAATATAATAA-AT-ATTATATAATTA
1 TAAT-TAATAATATAATTATATAATTA
*
14462 T-ATTAATAATTTAATTATATAATTA
1 TAATTAATAATATAATTATATAATTA
14487 T-ATTAAT
1 TAATTAAT
14494 TTTATTAAAC
Statistics
Matches: 64, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
23 9 0.14
24 19 0.30
25 31 0.48
26 2 0.03
27 3 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAATTAATAATATAATTATATAATTA
Found at i:14485 original size:13 final size:13
Alignment explanation
Indices: 14384--14485 Score: 51
Period size: 13 Copynumber: 8.2 Consensus size: 13
14374 TATTTAATTT
14384 ATTTAATTATATA
1 ATTTAATTATATA
14397 ATATT-ATTATAT-
1 AT-TTAATTATATA
* *
14409 A-TTAAATATTTA
1 ATTTAATTATATA
* * *
14421 AATTAAATAT-TT
1 ATTTAATTATATA
14433 ATTATAA-TATAATA
1 ATT-TAATTAT-ATA
*
14447 A-AT-ATTATATA
1 ATTTAATTATATA
14458 A-TTATATTA-ATA
1 ATTTA-ATTATATA
14470 ATTTAATTATATA
1 ATTTAATTATATA
14483 ATT
1 ATT
14486 ATATTAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 24
0.69 0.07 0.24
Matches are distributed among these distances:
10 2 0.03
11 11 0.16
12 20 0.29
13 33 0.47
14 4 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTAATTATATA
Found at i:14500 original size:34 final size:31
Alignment explanation
Indices: 14389--14501 Score: 83
Period size: 31 Copynumber: 3.6 Consensus size: 31
14379 AATTTATTTA
*
14389 ATTATATAATATTATT-AT-ATATTAA-ATAT
1 ATTATATAATTTTATTAATAAT-TTAATATAT
* * *
14418 -TTAAATTAAATATTTATT-ATAATATAATAAAT
1 ATTATA-T-AAT-TTTATTAATAATTTAATATAT
*
14450 ATTATATAATTATATTAATAATTTAATTATAT
1 ATTATATAATTTTATTAATAATTTAA-TATAT
14482 AATTATATTAATTTTATTAA
1 -ATTATA-TAATTTTATTAA
14502 ACAATTGAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
28 4 0.06
29 1 0.02
30 8 0.12
31 21 0.32
32 10 0.15
33 10 0.15
34 11 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (31 bp):
ATTATATAATTTTATTAATAATTTAATATAT
Found at i:14507 original size:22 final size:24
Alignment explanation
Indices: 14457--14507 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
14447 AATATTATAT
* *
14457 AATTATATTAATAATTTAATTATAT
1 AATTATATTAAT-ATTTAATTAAAC
14482 AATTATATTAAT-TTT-ATTAAAC
1 AATTATATTAATATTTAATTAAAC
14504 AATT
1 AATT
14508 GAATAATAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 3 0.12
25 12 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AATTATATTAATATTTAATTAAAC
Found at i:14708 original size:22 final size:22
Alignment explanation
Indices: 14683--14746 Score: 56
Period size: 25 Copynumber: 2.8 Consensus size: 22
14673 AAACAAATTT
14683 TTAAAATTAATTTTTAAAATAA
1 TTAAAATTAATTTTTAAAATAA
* * *
14705 TTAAGATAAATTAATATTATAATAA
1 TTAAAATTAATT--T-TTAAAATAA
* *
14730 TTATAATTAATATTTAA
1 TTAAAATTAATTTTTAA
14747 TCTATTAAAG
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
22 13 0.42
23 1 0.03
24 1 0.03
25 16 0.52
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
TTAAAATTAATTTTTAAAATAA
Found at i:15197 original size:15 final size:15
Alignment explanation
Indices: 15154--15197 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
15144 CAATAATTGT
15154 AATTA-TAATTATTA
1 AATTATTAATTATTA
* * *
15168 TATTATCAATAATTA
1 AATTATTAATTATTA
15183 AATTATTAATTATTA
1 AATTATTAATTATTA
15198 CAAATTGTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTATTAATTATTA
Found at i:15313 original size:28 final size:31
Alignment explanation
Indices: 15282--15340 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 31
15272 ACTATAATAA
15282 TAAAATAAATATTAA-CAAAT-AT-ATAATT
1 TAAAATAAATATTAATCAAATAATCATAATT
* * *
15310 TAAATTGATTATTAATCAAATAATCATAATT
1 TAAAATAAATATTAATCAAATAATCATAATT
15341 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 12 0.48
29 5 0.20
30 2 0.08
31 6 0.24
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (31 bp):
TAAAATAAATATTAATCAAATAATCATAATT
Found at i:15319 original size:312 final size:311
Alignment explanation
Indices: 14962--15600 Score: 1260
Period size: 312 Copynumber: 2.1 Consensus size: 311
14952 TTAATATTAT
*
14962 TATAGTAATAAAATAAATATTAACAAATATATAATTTAAATTGATTATTAATCAAATAATCATAA
1 TATAATAATAAAATAAATATTAACAAATATATAATTTAAATTGATTATTAATCAAATAATCATAA
15027 TTATTATTTAAATGAATAATTATTTGAATAGATAATATAAAAATATATTAATTAGTTCATTTTTA
66 TTATTATTTAAATGAATAATTATTTGAATAGATAATATAAAAATATATTAATTAGTTCATTTTTA
15092 TAATATAAACAATATTGGAATAAATTTTTTTATAATAACAAAATATTAGTTACAATAATTGTAAT
131 TAATATAAACAATATTGGAATAAATTTTTTTATAATAACAAAATATTAGTTACAATAATTGTAAT
15157 TATAATTATTATATTATCAATAATTAAATTATTAATTATTACAAATTGTCATAAAATTTTTTATA
196 TATAATTATTATATTATCAATAATTAAATTATTAATTATTACAAATTGTCATAAAA-TTTTTATA
15222 TTACAAAAATTCAATAAATATTAAATATATGATATTAGTAATAATAGTTAAC
260 TTACAAAAATTCAATAAATATTAAATATATGATATTAGTAATAATAGTTAAC
15274 TATAATAATAAAATAAATATTAACAAATATATAATTTAAATTGATTATTAATCAAATAATCATAA
1 TATAATAATAAAATAAATATTAACAAATATATAATTTAAATTGATTATTAATCAAATAATCATAA
15339 TTATTATTTAAATGAATAATTATTTGAATAGATAATATAAAAATATATTAATTAGTTCATTTTTA
66 TTATTATTTAAATGAATAATTATTTGAATAGATAATATAAAAATATATTAATTAGTTCATTTTTA
15404 TAATATAAACAATATTGGAATAAATTTTTTTATAATAACAAAATATTAGTTACAATAATTGTAAT
131 TAATATAAACAATATTGGAATAAATTTTTTTATAATAACAAAATATTAGTTACAATAATTGTAAT
15469 TATAATTATTATATTATCAATAATTAAATTATTAATTATTACAAATTGTCATAAAATTTTTATAT
196 TATAATTATTATATTATCAATAATTAAATTATTAATTATTACAAATTGTCATAAAATTTTTATAT
15534 TACAAAAATTCAATAAATATTAAATATATGATATTAGTAATAATAGTTAAC
261 TACAAAAATTCAATAAATATTAAATATATGATATTAGTAATAATAGTTAAC
15585 TATAATAATAAAATAA
1 TATAATAATAAAATAA
15601 GTTATTAAAA
Statistics
Matches: 326, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
311 76 0.23
312 250 0.77
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (311 bp):
TATAATAATAAAATAAATATTAACAAATATATAATTTAAATTGATTATTAATCAAATAATCATAA
TTATTATTTAAATGAATAATTATTTGAATAGATAATATAAAAATATATTAATTAGTTCATTTTTA
TAATATAAACAATATTGGAATAAATTTTTTTATAATAACAAAATATTAGTTACAATAATTGTAAT
TATAATTATTATATTATCAATAATTAAATTATTAATTATTACAAATTGTCATAAAATTTTTATAT
TACAAAAATTCAATAAATATTAAATATATGATATTAGTAATAATAGTTAAC
Found at i:15509 original size:15 final size:15
Alignment explanation
Indices: 15466--15509 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
15456 CAATAATTGT
15466 AATTA-TAATTATTA
1 AATTATTAATTATTA
* * *
15480 TATTATCAATAATTA
1 AATTATTAATTATTA
15495 AATTATTAATTATTA
1 AATTATTAATTATTA
15510 CAAATTGTCA
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
AATTATTAATTATTA
Found at i:15896 original size:23 final size:24
Alignment explanation
Indices: 15852--15903 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
15842 TTGTTCAAAG
*
15852 ATTATAAGTTAATAATGGATAAA-
1 ATTATAAGTTAATAATGCATAAAT
*
15875 ATTATATGATTAATAAT-CATAAAT
1 ATTATAAG-TTAATAATGCATAAAT
15899 ATTAT
1 ATTAT
15904 TAATATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.40
Consensus pattern (24 bp):
ATTATAAGTTAATAATGCATAAAT
Found at i:16339 original size:20 final size:19
Alignment explanation
Indices: 16316--16380 Score: 53
Period size: 18 Copynumber: 3.4 Consensus size: 19
16306 TTAATATTAA
16316 ATTAATTAAATTATTTATAT
1 ATTAATTAAATTATTTAT-T
* *
16336 ATTAAATCAATATTAATTATT
1 ATT-AATTAA-ATTATTTATT
* *
16357 TTTAA-TAAATTATTGATT
1 ATTAATTAAATTATTTATT
16375 A-TAATT
1 ATTAATT
16381 TATAAATTTA
Statistics
Matches: 35, Mismatches: 7, Indels: 8
0.70 0.14 0.16
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 2 0.06
20 5 0.14
21 8 0.23
22 8 0.23
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAATTAAATTATTTATT
Found at i:16370 original size:21 final size:21
Alignment explanation
Indices: 16346--16426 Score: 57
Period size: 21 Copynumber: 4.0 Consensus size: 21
16336 ATTAAATCAA
16346 TATTAATTATTTTTAATAAAT
1 TATTAATTATTTTTAATAAAT
* *
16367 TATTGATTATAATTT-ATAAATT
1 TATTAATTAT-TTTTAATAAA-T
*
16389 TATTAA--A-TTTTAAT-ATT
1 TATTAATTATTTTTAATAAAT
*
16406 TATTATATTATTATTAA-AAAT
1 TATTA-ATTATTTTTAATAAAT
16427 ATATATTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
17 6 0.13
18 5 0.11
19 2 0.04
20 2 0.04
21 21 0.47
22 9 0.20
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (21 bp):
TATTAATTATTTTTAATAAAT
Found at i:16397 original size:17 final size:18
Alignment explanation
Indices: 16367--16412 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
16357 TTTAATAAAT
*
16367 TATTGATTATAATTTATAA
1 TATTTATTATAATTT-TAA
16386 -ATTTATTA-AATTTTAA
1 TATTTATTATAATTTTAA
16402 TATTTATTATA
1 TATTTATTATA
16413 TTATTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 3 0.12
17 13 0.54
18 8 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTATTATAATTTTAA
Found at i:16856 original size:12 final size:13
Alignment explanation
Indices: 16833--16868 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
16823 TAATAAATAA
16833 TTATAATT-ATTT
1 TTATAATTAATTT
16845 TTAT-ATTAA-TT
1 TTATAATTAATTT
16856 TTATAATTAATTT
1 TTATAATTAATTT
16869 ATAATAAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 9 0.43
12 10 0.48
13 2 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATAATTAATTT
Found at i:16857 original size:11 final size:12
Alignment explanation
Indices: 16796--16873 Score: 60
Period size: 11 Copynumber: 7.0 Consensus size: 12
16786 ATTAAACAAA
16796 TAATTTTATAAT
1 TAATTTTATAAT
* *
16808 TAAATATATAA-
1 TAATTTTATAAT
* * *
16819 T-ACTTAATAAA
1 TAATTTTATAAT
16830 TAA--TTATAAT
1 TAATTTTATAAT
*
16840 TATTTTTAT-AT
1 TAATTTTATAAT
16851 TAATTTTATAAT
1 TAATTTTATAAT
16863 TAA-TTTATAAT
1 TAATTTTATAAT
16874 AAGATTATAA
Statistics
Matches: 52, Mismatches: 9, Indels: 11
0.72 0.12 0.15
Matches are distributed among these distances:
10 13 0.25
11 20 0.38
12 19 0.37
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (12 bp):
TAATTTTATAAT
Found at i:16881 original size:22 final size:22
Alignment explanation
Indices: 16832--16894 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
16822 TTAATAAATA
* * *
16832 ATTATAATTATTTTTATATTAAT
1 ATTATAATTA-ATTTATAATAAG
*
16855 TTTATAATTAATTTATAATAAG
1 ATTATAATTAATTTATAATAAG
16877 ATTATAA--AA-TTATAATAA
1 ATTATAATTAATTTATAATAA
16895 TTTATATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
22 15 0.43
23 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATAATTAATTTATAATAAG
Found at i:16889 original size:19 final size:19
Alignment explanation
Indices: 16867--16911 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16857 TATAATTAAT
16867 TTATAATAAGATTATA-AAA
1 TTATAATAA-ATTATATAAA
*
16886 TTATAATAATTTATATAAA
1 TTATAATAAATTATATAAA
16905 TTA-AATA
1 TTATAATA
16912 TAATAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (19 bp):
TTATAATAAATTATATAAA
Found at i:16908 original size:55 final size:55
Alignment explanation
Indices: 16796--16908 Score: 126
Period size: 55 Copynumber: 2.1 Consensus size: 55
16786 ATTAAACAAA
* * *
16796 TAATTTTATAATTAAATATATAATACTTAATAAATAATTATAATTATTTTTATAT
1 TAATTTTATAATTAAATATATAATAATTAATAAATAATTATAATAATTTTTAAAT
*
16851 TAATTTTATAATT-AATTTATAATAAGATT-AT-AA-AATTATAATAATTTATATAAAT
1 TAATTTTATAATTAAATATATAAT-A-ATTAATAAATAATTATAATAATTT-T-TAAAT
16906 TAA
1 TAA
16909 ATATAATAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
53 13 0.26
54 12 0.24
55 23 0.46
56 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.49
Consensus pattern (55 bp):
TAATTTTATAATTAAATATATAATAATTAATAAATAATTATAATAATTTTTAAAT
Found at i:16917 original size:23 final size:23
Alignment explanation
Indices: 16786--16922 Score: 65
Period size: 23 Copynumber: 5.8 Consensus size: 23
16776 ATAGCTTATT
*
16786 ATTAAACA-AATAATTT-TAT-A
1 ATTAAATATAATAATTTATATAA
16806 ATTAAATAT-ATAATACTTA-ATAA
1 ATTAAATATAATAAT--TTATATAA
* * *
16829 A-TAATTATAATTATTT-T-TAT
1 ATTAAATATAATAATTTATATAA
*
16849 ATTAATTTTATAATTAATTTATAATAA
1 ATTAA--ATATAA-TAATTTAT-ATAA
16876 GATTATAAAATTATAATAATTTATATAA
1 -A-T-T-AAA-TATAATAATTTATATAA
*
16904 ATTAAATATAATAAATTAT
1 ATTAAATATAATAATTTAT
16923 TTATTAATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 35
0.68 0.06 0.26
Matches are distributed among these distances:
20 15 0.17
21 5 0.06
22 10 0.11
23 24 0.27
24 8 0.09
25 2 0.02
26 1 0.01
27 3 0.03
28 5 0.06
29 9 0.10
30 6 0.07
31 2 0.02
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (23 bp):
ATTAAATATAATAATTTATATAA
Found at i:17112 original size:21 final size:23
Alignment explanation
Indices: 17088--17129 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
17078 AAATTTTTTG
17088 TTATTAA-AAATT-AAAAAATTC
1 TTATTAATAAATTCAAAAAATTC
*
17109 TTATTAATATATTCAAAAAAT
1 TTATTAATAAATTCAAAAAAT
17130 AATATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 4 0.22
23 7 0.39
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (23 bp):
TTATTAATAAATTCAAAAAATTC
Found at i:17449 original size:16 final size:17
Alignment explanation
Indices: 17384--17461 Score: 54
Period size: 17 Copynumber: 4.5 Consensus size: 17
17374 AAATTGATAA
17384 TAAT-ATTATTAAT-TAG
1 TAATAATTA-TAATATAG
* *
17400 TACTAATTATTAATTATAA
1 TAATAATTA-TAA-TATAG
* *
17419 AAATAATAAATAATATAG
1 TAATAAT-TATAATATAG
*
17437 T-ATAATTATAATATAT
1 TAATAATTATAATATAG
17453 TAATAATTA
1 TAATAATTA
17462 ATTAATTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 9
0.73 0.14 0.14
Matches are distributed among these distances:
16 12 0.25
17 20 0.42
18 5 0.10
19 10 0.21
20 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATAATTATAATATAG
Found at i:18026 original size:25 final size:24
Alignment explanation
Indices: 17992--18059 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
17982 TACTAATATC
*
17992 TTATAATAATATAAATTAAATATAA
1 TTATTATAATATAAATTAAAT-TAA
*
18017 TTATTATAAT-TAATTTTATAATTAA
1 TTATTATAATATAA-ATTA-AATTAA
* *
18042 TTAATATTATA-AAATTAA
1 TTATTATAATATAAATTAA
18060 TGATAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
23 1 0.03
24 6 0.17
25 25 0.71
26 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATTATAATATAAATTAAATTAA
Found at i:18037 original size:12 final size:13
Alignment explanation
Indices: 18014--18044 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
18004 AAATTAAATA
18014 TAATTATTATAAT
1 TAATTATTATAAT
18027 TAATT-TTATAAT
1 TAATTATTATAAT
18039 TAATTA
1 TAATTA
18045 ATATTATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATTATTATAAT
Found at i:18044 original size:16 final size:16
Alignment explanation
Indices: 18023--18053 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18013 ATAATTATTA
*
18023 TAATTAATTTTATAAT
1 TAATTAATATTATAAT
18039 TAATTAATATTATAA
1 TAATTAATATTATAA
18054 AATTAATGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATTAATATTATAAT
Found at i:19063 original size:20 final size:20
Alignment explanation
Indices: 19040--19093 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
19030 CATGTATATT
*
19040 ATATTATATTTA-AATATAAA
1 ATATTATAATTATAAT-TAAA
*
19060 ATATTTTAATTATAATTAAA
1 ATATTATAATTATAATTAAA
*
19080 ATAATATAAATTAT
1 ATATTAT-AATTAT
19094 TACTATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTATAATTATAATTAAA
Found at i:19305 original size:13 final size:13
Alignment explanation
Indices: 19289--19412 Score: 57
Period size: 13 Copynumber: 9.8 Consensus size: 13
19279 TTACAAATAA
19289 ATATAATATAATT
1 ATATAATATAATT
*
19302 ATAT-A-ACAATT
1 ATATAATATAATT
**
19313 ATATGACA-ATTGTT
1 ATAT-A-ATATAATT
* *
19327 ATCTAATGTAATT
1 ATATAATATAATT
*
19340 ATA-ATATTTAATT
1 ATATA-ATATAATT
19353 ATAGTAATA-AATT
1 ATA-TAATATAATT
**
19366 ATATTCTATAATTT
1 ATATAATATAA-TT
* *
19380 AAATATTATAATT
1 ATATAATATAATT
19393 -TATAATA-AATT
1 ATATAATATAATT
19404 ATA-AATATA
1 ATATAATATA
19413 TAAAATTTAA
Statistics
Matches: 82, Mismatches: 18, Indels: 23
0.67 0.15 0.19
Matches are distributed among these distances:
11 17 0.21
12 14 0.17
13 31 0.38
14 19 0.23
15 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (13 bp):
ATATAATATAATT
Found at i:19420 original size:41 final size:38
Alignment explanation
Indices: 19336--19435 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 38
19326 TATCTAATGT
* *
19336 AATTATAATATT-TAATTATAGTAATAAATTATATTCTAT
1 AATT-TAATATTATAATT-TAGTAATAAATTATATTATAA
19375 AATTTAAATATTATAATTTA-TAATAAATTATAAATATATAA
1 AATTT-AATATTATAATTTAGTAATAAATTAT--AT-TATAA
*
19416 AATTTAATAATTATTATTTA
1 AATTTAAT-ATTATAATTTA
19436 ATAAACCAAC
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
38 12 0.23
39 12 0.23
40 10 0.19
41 18 0.35
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (38 bp):
AATTTAATATTATAATTTAGTAATAAATTATATTATAA
Found at i:19432 original size:27 final size:26
Alignment explanation
Indices: 19375--19426 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
19365 TATATTCTAT
*
19375 AATT-TAAATATTATAATTTATAATA
1 AATTATAAATATTAAAATTTATAATA
19400 AATTATAAATATATAAAATTTAATAAT
1 AATTATAAATAT-TAAAATTT-ATAAT
19427 TATTATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 7 0.30
27 7 0.30
28 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTATAAATATTAAAATTTATAATA
Found at i:19531 original size:22 final size:21
Alignment explanation
Indices: 19505--19553 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
19495 TTATAATTTG
19505 TAATTAGTACA-AACTAGTTAAT
1 TAATTAGTACATAA-TA-TTAAT
*
19527 TAATTAGTATATAATATTAAT
1 TAATTAGTACATAATATTAAT
19548 TAATTA
1 TAATTA
19554 TAGTATTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 11 0.44
22 12 0.48
23 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (21 bp):
TAATTAGTACATAATATTAAT
Found at i:19560 original size:16 final size:17
Alignment explanation
Indices: 19525--19567 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
19515 AAACTAGTTA
*
19525 ATTAATTAGTATATAAT
1 ATTAATTAATATATAAT
*
19542 ATTAATTAAT-TATAGT
1 ATTAATTAATATATAAT
19558 ATTAA-TAATA
1 ATTAATTAATA
19568 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 4 0.17
16 10 0.43
17 9 0.39
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (17 bp):
ATTAATTAATATATAAT
Found at i:20358 original size:27 final size:29
Alignment explanation
Indices: 20294--20367 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
20284 TAAAATATTG
* *
20294 AAATAACATAATATTAATAAAATTTAATT
1 AAATAATATAATATTAATAAAATTTAAAT
*
20323 AAATAATATAATATT-AT-AATTTTAAAT
1 AAATAATATAATATTAATAAAATTTAAAT
*
20350 -AAT-ATATATTATTCAATA
1 AAATAATATAATATT-AATA
20368 GATCAAGTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.24
26 3 0.08
27 10 0.26
28 2 0.05
29 14 0.37
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (29 bp):
AAATAATATAATATTAATAAAATTTAAAT
Found at i:20693 original size:62 final size:62
Alignment explanation
Indices: 20563--20695 Score: 139
Period size: 62 Copynumber: 2.1 Consensus size: 62
20553 TTAGGTAATT
* * *
20563 TATTAATTAACATTTATTAATTAGTAAATGTAATTAATTAATTATATACTATTTGATAATAA
1 TATTAATTAACATTTATTAATTAGAAAATGTAAATAATTAATTATATACTATATGATAATAA
* * * *
20625 TTTTAATTAATATTTTATT-ATTA-AAATATTTAAATAATTAATATTTATACTATAAT-ATAA-A
1 TATTAATTAACA-TTTATTAATTAGAAA-ATGTAAATAATTAAT-TATATACTAT-ATGATAATA
20686 A
62 A
20687 TATTAATTA
1 TATTAATTA
20696 TGTTAAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
61 2 0.03
62 37 0.63
63 19 0.32
64 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (62 bp):
TATTAATTAACATTTATTAATTAGAAAATGTAAATAATTAATTATATACTATATGATAATAA
Found at i:20694 original size:31 final size:31
Alignment explanation
Indices: 20595--20695 Score: 75
Period size: 31 Copynumber: 3.3 Consensus size: 31
20585 AGTAAATGTA
* *
20595 ATTAATTAAT-TATATACTAT-TTGATAATAAT
1 ATTAATTAATATTTATACTATAAT-ATAA-AAT
* * * **
20626 TTTAATTAATATTTTATTATTAAAATATTTAA-
1 ATTAATTAATA-TTTA-TACTATAATATAAAAT
20658 A-TAATTAATATTTATACTATAATATAAAAT
1 ATTAATTAATATTTATACTATAATATAAAAT
20688 ATTAATTA
1 ATTAATTA
20696 TGTTAAATAT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
29 11 0.21
30 5 0.10
31 24 0.46
33 5 0.10
34 6 0.12
35 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.50
Consensus pattern (31 bp):
ATTAATTAATATTTATACTATAATATAAAAT
Found at i:21438 original size:23 final size:25
Alignment explanation
Indices: 21412--21470 Score: 77
Period size: 23 Copynumber: 2.4 Consensus size: 25
21402 TTTAAATATT
21412 AAATTATATTTATTTCA-AATT-AA
1 AAATTATATTTATTTCATAATTCAA
* *
21435 AAATAATATTTATTTGATAATTCAA
1 AAATTATATTTATTTCATAATTCAA
*
21460 AAATTAAATTT
1 AAATTATATTT
21471 GTTGATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 15 0.50
24 4 0.13
25 11 0.37
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATTATATTTATTTCATAATTCAA
Found at i:21676 original size:31 final size:28
Alignment explanation
Indices: 21604--21679 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 28
21594 TAGATAATAG
*
21604 TATTAATTATAATTATTCTAAATATAAA
1 TATTAGTTATAATTATTCTAAATATAAA
*
21632 T-TTGGTTTAATAATTATTCTAATAGTATAAA
1 TATTAG-TT-ATAATTATTCTAA-A-TATAAA
21663 TAATTAGTTATAATTAT
1 T-ATTAGTTATAATTAT
21680 ATAACTATTA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
27 2 0.05
28 3 0.08
29 13 0.33
30 1 0.03
31 15 0.38
32 2 0.05
33 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (28 bp):
TATTAGTTATAATTATTCTAAATATAAA
Found at i:21772 original size:11 final size:10
Alignment explanation
Indices: 21746--21805 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
21736 AATTAATACT
21746 ATTAT-AAT-
1 ATTATAAATA
*
21754 ATTTTAAATA
1 ATTATAAATA
21764 ACTTATAAATA
1 A-TTATAAATA
* *
21775 GTTTTAAATA
1 ATTATAAATA
*
21785 ATTTATAAATT
1 A-TTATAAATA
21796 ATTATAAATA
1 ATTATAAATA
21806 TTAATATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
8 4 0.10
9 3 0.08
10 17 0.43
11 16 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (10 bp):
ATTATAAATA
Found at i:21781 original size:21 final size:20
Alignment explanation
Indices: 21747--21805 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 20
21737 ATTAATACTA
21747 TTAT-AATATTTTAAATAAC
1 TTATAAATATTTTAAATAAC
*
21766 TTATAAATAGTTTTAAATAAT
1 TTATAAATA-TTTTAAATAAC
*
21787 TTATAAATTATTATAAATA
1 TTATAAA-TATTTTAAATA
21806 TTAATATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.11
20 4 0.11
21 25 0.71
22 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TTATAAATATTTTAAATAAC
Found at i:22067 original size:26 final size:26
Alignment explanation
Indices: 22012--22068 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
22002 TATATTTTAG
22012 ATATTAAATATAAATATATTTAAAAT
1 ATATTAAATATAAATATATTTAAAAT
*
22038 ATATCTAATTATAAA-ATATTTAACAA-
1 ATAT-TAAATATAAATATATTTAA-AAT
22064 ATATT
1 ATATT
22069 TTAATAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 16 0.57
27 11 0.39
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (26 bp):
ATATTAAATATAAATATATTTAAAAT
Found at i:22073 original size:27 final size:27
Alignment explanation
Indices: 22015--22078 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
22005 ATTTTAGATA
*
22015 TTAAATATAAATATATTTAAAATATAT
1 TTAATTATAAATATATTTAAAATATAT
*
22042 CTAATTATAAA-ATATTTAACAA-ATATT
1 TTAATTATAAATATATTTAA-AATATA-T
*
22069 TTAATAATAA
1 TTAATTATAA
22079 TTATCAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
TTAATTATAAATATATTTAAAATATAT
Found at i:22177 original size:21 final size:21
Alignment explanation
Indices: 22148--22189 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22138 TTAAGTCTCA
*
22148 TTTATTTATATAA-TTAAAATT
1 TTTACTTAT-TAATTTAAAATT
22169 TTTACTTATTAATTTAAAATT
1 TTTACTTATTAATTTAAAATT
22190 AAAATAATTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTACTTATTAATTTAAAATT
Found at i:22222 original size:16 final size:16
Alignment explanation
Indices: 22201--22234 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22191 AAATAATTGT
22201 TATAATTAAATAATAA
1 TATAATTAAATAATAA
* *
22217 TATAATTTAATTATAA
1 TATAATTAAATAATAA
22233 TA
1 TA
22235 AATAAACAAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATTAAATAATAA
Found at i:22245 original size:22 final size:23
Alignment explanation
Indices: 22203--22256 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
22193 ATAATTGTTA
*
22203 TAATTA-AAT-AATAATATAATT
1 TAATTATAATAAATAATACAATT
22224 TAATTATAATAAATAA-ACAATT
1 TAATTATAATAAATAATACAATT
* *
22246 AAAATATAATA
1 TAATTATAATA
22257 TTAATATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 17 0.61
23 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
TAATTATAATAAATAATACAATT
Found at i:22586 original size:14 final size:14
Alignment explanation
Indices: 22563--22599 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
22553 TTATCCAAAA
22563 TAAA-AATAATTAT
1 TAAATAATAATTAT
*
22576 TTAATAATAATTAT
1 TAAATAATAATTAT
22590 TAAAT-ATAAT
1 TAAATAATAAT
22600 AAACAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATAATTAT
Found at i:24462 original size:22 final size:25
Alignment explanation
Indices: 24415--24463 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
24405 TATGTATAAT
*
24415 ATTAATAATATTATAATTAATTAAA
1 ATTAATAATATTATAATTAATCAAA
24440 ATTAATAATA-TATAA-T-ATCAAA
1 ATTAATAATATTATAATTAATCAAA
24462 AT
1 AT
24464 GATTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 1 0.04
24 5 0.22
25 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATTAATAATATTATAATTAATCAAA
Found at i:25972 original size:27 final size:27
Alignment explanation
Indices: 25916--25992 Score: 66
Period size: 27 Copynumber: 2.8 Consensus size: 27
25906 ATAGATCTAA
* *
25916 AAAATAAATATTTAAAATATTTAAATT
1 AAAATAAATATTTAAAATAATTAAAAT
* *
25943 AAAATCAATA-TTAAGATAATTAATAAT
1 AAAATAAATATTTAAAATAATTAA-AAT
* *
25970 AAATTATAAGTATTTATAATAAT
1 AAA--ATAAATATTTAAAATAAT
25993 AATAATTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
26 11 0.29
27 14 0.37
29 5 0.13
30 8 0.21
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (27 bp):
AAAATAAATATTTAAAATAATTAAAAT
Found at i:26128 original size:16 final size:15
Alignment explanation
Indices: 26109--26151 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
26099 TTATTAATTA
26109 TAAATTAATTGATAAT
1 TAAATTAATT-ATAAT
*
26125 TAAATTTATT-TAAT
1 TAAATTAATTATAAT
26139 T-AATTAATTATAA
1 TAAATTAATTATAA
26152 CTGTATAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 7 0.29
14 8 0.33
16 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
TAAATTAATTATAAT
Found at i:26394 original size:19 final size:19
Alignment explanation
Indices: 26370--26439 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
26360 ATTTATAATT
26370 ATTTATTAATTATGAATAA
1 ATTTATTAATTATGAATAA
****
26389 ATTTATTAGATTGCCTATAA
1 ATTTATTA-ATTATGAATAA
26409 ATTTATATAATTATGTAATATA
1 ATTTAT-TAATTATG-AATA-A
26431 ATTATATTA
1 ATT-TATTA
26440 CATAACAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
19 8 0.21
20 16 0.42
21 5 0.13
22 6 0.16
23 3 0.08
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (19 bp):
ATTTATTAATTATGAATAA
Found at i:26486 original size:18 final size:18
Alignment explanation
Indices: 26447--26488 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
26437 TTACATAACA
* *
26447 AATAGTTTATTTTTTATT
1 AATAATTTATTTTTAATT
26465 -ATAATTTATTTTTAATT
1 AATAATTTATTTTTAATT
26482 AATAATT
1 AATAATT
26489 AATATTTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATAATTTATTTTTAATT
Found at i:27424 original size:19 final size:19
Alignment explanation
Indices: 27361--27431 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 19
27351 TTATAGTTAC
* *
27361 ATTAATTTAATTAATATTT
1 ATTAATTTAATTAAAATTA
* * *
27380 ATTAATTAAAGATAATGAATAGA
1 ATTAATTTAA-TTAA--AAT-TA
27403 ATTAATTTAATTAAAATTA
1 ATTAATTTAATTAAAATTA
*
27422 ATTAAATTAA
1 ATTAATTTAA
27432 ATGTATTGAA
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
19 19 0.49
20 6 0.15
22 5 0.13
23 9 0.23
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTAATTTAATTAAAATTA
Found at i:27477 original size:15 final size:16
Alignment explanation
Indices: 27450--27483 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
27440 AATACTAAAT
27450 ATTAATAATTAATATA
1 ATTAATAATTAATATA
*
27466 ATTAAT-ATTAATTTA
1 ATTAATAATTAATATA
27481 ATT
1 ATT
27484 GTATTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTAATAATTAATATA
Found at i:27622 original size:16 final size:15
Alignment explanation
Indices: 27574--27623 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
27564 TTATTAAATC
*
27574 TTATAATATATTAAA
1 TTATAATATATTTAA
27589 TTAT-ATAT-TCATTAA
1 TTATAATATAT--TTAA
27604 TTATAATATATTTATA
1 TTATAATATATTTA-A
27620 TTAT
1 TTAT
27624 TAATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 1 0.03
14 4 0.14
15 14 0.48
16 9 0.31
17 1 0.03
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATAATATATTTAA
Found at i:29362 original size:42 final size:40
Alignment explanation
Indices: 29280--29381 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 40
29270 TAATAATTTA
29280 AATTACTTATTAATAATT-ATTATATATTAATAATTTTTAATT
1 AATT-CTTATTAAT-ATTAATTATATATTAATAATTTTTAA-T
*
29322 AATTGTT-TTAATATTAATTATATA-TAATAAGATTTATTAAT
1 AATTCTTATTAATATTAATTATATATTAAT-A-ATTT-TTAAT
*
29363 AATTCTTATGAATATTAAT
1 AATTCTTATTAATATTAAT
29382 AATTTCAAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
39 7 0.13
40 14 0.27
41 13 0.25
42 18 0.35
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
AATTCTTATTAATATTAATTATATATTAATAATTTTTAAT
Found at i:31066 original size:180 final size:179
Alignment explanation
Indices: 30632--31589 Score: 676
Period size: 180 Copynumber: 5.3 Consensus size: 179
30622 TTTAAATCTC
* * * * * * * *
30632 TTAATTTTCAAAATATTAAGAAAAGTAGTATTA-TTTTATTTTGGATAAACTTTTGTGAACTAAA
1 TTAATTTTCAAAATATTAA-TAAATTAGTATTATTTTTA-TCTGAATAAGCTTGTATGAACAAAA
* ** * ** * * * * * *
30696 ACAATTATTTTATAACAAAACAAAAATTCACAACAATTTTAGATAGATAATTGTTCAAATAGTCA
64 ACAATTATTTTATGACAAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATT-TAATAGTCT
** * * * *
30761 TAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTA
128 TAACTATTTGAAC-TGTTCAGCAAACATATTTAGTTTTTCAAATCT-CTTCTTA
* **
30815 TTAATCTTTCAAAA-GTTAATAAATTAGTATTATTTTCTAT-TGAATAAGCTTGTATGAACTGAA
1 TTAAT-TTTCAAAATATTAATAAATTAGTATTATTTT-TATCTGAATAAGCTTGTATGAACAAAA
** *
30878 ACAATTATTTTATGATTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTCTAATAATCT
64 ACAATTATTTTATGACAAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATT-TAATAGTCT
* *
30943 TAACTATTTGAACTGATCAGCAAACACATTTA-TTTTTCAAATCTCTTACTTA
128 TAACTATTTGAACTGTTCAGCAAACATATTTAGTTTTTCAAATCTCTT-CTTA
* * *
30995 TTAATTTTCAAAATATTATTAAATTAGTATTATTTTTATCTGAATCAGCTTATATGATA-AAAAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCTGAATAAGCTTGTATGA-ACAAAAA
* * * * * * * * * *
31059 TAATTATTTTATGACAAAAC-AAAGATCATAACGACTTGAGATTAATATTTGTTTAAATACT-TA
65 CAATTATTTTATGACAAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTT-AATAGTCT-
* * * *
31122 TAACTATTAGAATTGCTT-TG-AAAAATAGCTTTAGTTTTT-AAATCTCTTGCTTA
128 TAACTATTTGAACTG-TTCAGCAAACATA--TTTAGTTTTTCAAATCTCTT-CTTA
* ** * * * * * * *
31175 ATAATTTTTGAAATATTAATAAAGTAGTATTA-TTTTATTTTAGATAAGTTTTTATTAACCAAAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCTGA-ATAAGCTTGTATGAACAAAAA
* ** * * * * *
31239 CAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAATAGATAATTATTTAAATAGTCAT
65 CAATTATTTTATGACAAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTT-AATAGTCTT
* * * * * * *
31304 ATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAATCTCTTGTT-
129 AACTATTTG-AACTGTTCAGCAAACATATTTAGTTTTTCAAATCTCTTCTTA
* * * ** **
31355 TTATTTTTTC-GAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTATGAACTGAA
1 TTA-ATTTTCAAAATATTAATAAATTAGTATTATTTTTA-TCTGAATAAGCTTGTATGAACAAAA
* * * * *
31418 ATAATTGTTTTATGACTAAACAAAAGGAT-AGAATGATTTGAAATAGATAATTATTATGATAGTC
64 ACAATTATTTTATGACAAAACAAAAGG-TCAGAATGATTTGAAATAAATAATTATT-TAATAGTC
* * * *
31482 TTAACTATTTGAACTAGTTCGGCTACCATATTTA-TTTTTTAAA--TC-TCTTA
127 TTAACTATTTGAACT-GTTCAGCAAACATATTTAGTTTTTCAAATCTCTTCTTA
* * * * * * *
31532 TTAATTTTTAAAATACTATTAAATTAATATCATTTTAATATGAATAAGCTTGTATGAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCTGAATAAGCTTGTATGAA
31590 AGGAAACAAC
Statistics
Matches: 613, Mismatches: 133, Indels: 64
0.76 0.16 0.08
Matches are distributed among these distances:
176 7 0.01
177 38 0.06
178 11 0.02
179 78 0.13
180 267 0.44
181 77 0.13
182 107 0.17
183 18 0.03
184 10 0.02
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (179 bp):
TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCTGAATAAGCTTGTATGAACAAAAAC
AATTATTTTATGACAAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTTAATAGTCTTAA
CTATTTGAACTGTTCAGCAAACATATTTAGTTTTTCAAATCTCTTCTTA
Found at i:31422 original size:360 final size:362
Alignment explanation
Indices: 30632--31442 Score: 802
Period size: 360 Copynumber: 2.2 Consensus size: 362
30622 TTTAAATCTC
* * **** * * *
30632 TTAATTTTCAAAATATTAAGAAAAGTAGTATTA-TTTTATTTTGGATAAACTTTTGTGAACTAAA
1 TTAATTTTCAAAATATTAA-TAAATTAGTATTATTTTTA-TCCAAATAAGCTTATATGAACTAAA
* * * * *
30696 ACAATTATTTTATAACAAAACAAAAATTCACAACAATTTTAGATAGATAATTGTTCAAATAGTCA
64 ATAATTATTTTATGACAAAACAAAAATTCACAACAACTTGAGATAGATAATTGTTCAAATACTCA
* ** *
30761 TAACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCA
129 TAACTATTAGAACTTGTTTGAAAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAATCTTTCA
* * **
30826 AAAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTAT
194 AAAGTTAATAAAGTAGTATTATTTTATATTGAATAAGCTTGTATGAACCAAAACAATTATTTTAT
** * * * *
30891 GATTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTCTAATAATCTTAACTATTTGAAC
259 GACAAAACAAAAGCTCAAAATAATTTGAAATAAATAATTATTCTAATAATCATAACTATTTGAAC
30956 TGATCAGCAAACACATTTATTTTTCAAATCTCTTACTTA
324 TGATCAGCAAACACATTTATTTTTCAAATCTCTTACTTA
* ** * *
30995 TTAATTTTCAAAATATTATTAAATTAGTATTATTTTTATCTGAATCAGCTTATATGATA-AAAAA
1 TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATATGA-ACTAAAA
* * * * * *
31059 TAATTATTTTATGACAAAACAAAGA-TCATAACGACTTGAGATTA-ATATTTGTTTAAATACTTA
65 TAATTATTTTATGACAAAACAAAAATTCACAACAACTTGAGA-TAGATAATTGTTCAAATACTCA
* ** * * * *
31122 TAACTATTAGAA-TTGCTTTGAAAAATAGCTTTAGTTTTT-AAATCTCTTGCTTAATAATTTTTG
129 TAACTATTAGAACTTG-TTTGAAAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAATCTTTC
* * * * *
31185 AAATA-TTAATAAAGTAGTATTATTTTAT-TTTAGATAAGTTTTTATTAACCAAAACAATTGTTT
193 AAA-AGTTAATAAAGTAGTATTATTTTATATTGA-ATAAGCTTGTATGAACCAAAACAATTATTT
* * * * *
31248 TATGACAAAACAAAATCTCAAAATAATTTTAAATAGATAATTATT-TAAATAGTCATATCTATTT
256 TATGACAAAACAAAAGCTCAAAATAATTTGAAATAAATAATTATTCT-AATAATCATAACTATTT
* * * * * *
31312 GAAATTGTTCAGTAAACAGATTTATTTTTTTAAATCTCTT-GTT-
320 G-AACTGATCAGCAAACACATTTA-TTTTTCAAATCTCTTACTTA
* * * * *
31355 TTATTTTTTC-GAATGTTAATAAATTAGTATTA-TTTTATTCCAAATAAGCTTGTATGAACTGAA
1 TTA-ATTTTCAAAATATTAATAAATTAGTATTATTTTTA-TCCAAATAAGCTTATATGAACTAAA
* *
31418 ATAATTGTTTTATGACTAAACAAAA
64 ATAATTATTTTATGACAAAACAAAA
31443 GGATAGAATG
Statistics
Matches: 365, Mismatches: 71, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
359 10 0.03
360 183 0.50
361 82 0.22
362 66 0.18
363 24 0.07
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (362 bp):
TTAATTTTCAAAATATTAATAAATTAGTATTATTTTTATCCAAATAAGCTTATATGAACTAAAAT
AATTATTTTATGACAAAACAAAAATTCACAACAACTTGAGATAGATAATTGTTCAAATACTCATA
ACTATTAGAACTTGTTTGAAAAACAAATTTAGTTTTTCAAATATCCTGCTTAATAATCTTTCAAA
AGTTAATAAAGTAGTATTATTTTATATTGAATAAGCTTGTATGAACCAAAACAATTATTTTATGA
CAAAACAAAAGCTCAAAATAATTTGAAATAAATAATTATTCTAATAATCATAACTATTTGAACTG
ATCAGCAAACACATTTATTTTTCAAATCTCTTACTTA
Found at i:31997 original size:180 final size:178
Alignment explanation
Indices: 31618--32458 Score: 522
Period size: 180 Copynumber: 4.7 Consensus size: 178
31608 CTTGTTTGGT
* * * *
31618 AAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATTTTTCAAAA-GTTAATAAATTAGTATTA
1 AAACACATTTAGTTTTT-AAATCTCTTGCTTATTAA-TTTTCAAAATATTAATAAATTAGTATTA
* ** ** *
31682 TTTTCTATTGAATAAGCTTGTATGA-ACTGAAACAATTATTTTATGATTAAACAAAAGGTCAGAA
64 TTTT-TATTGAATAAGCTTATATGATA-AAAAACAATTATTTTATGACAAAAC-AAAGATCAGAA
* *
31746 CGATTTGACATAGATAATTATTCTAATAATCTTAACTATTTGAACTGATCAGC
126 CGATTTGACATAGATAATTATTCTAATAATCTTAACTATTAGAACTGATCAGA
* * *
31799 AAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTATTATT
1 AAACACATTTAGTTTTTAAATCTCTTGCTTATTAATTTTCAAAATATTAATAAATTAGTATTATT
* *
31864 TTTATCTGAATCAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCATAACGAT
66 TTTAT-TGAATAAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCAGAACGAT
* * * * * **
31929 TTGAGATTA-ATATTTGTT-TAAATACT-TATAACTATTAGAACTGCTTTGA
130 TTGACA-TAGATAATTATTCT-AATAATCT-TAACTATTAGAACTGATCAGA
* * ** *
31978 AAA-ATAGCTTTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTA
1 AAACACA--TTTAGTTTTTAAATCTCTTGCTTATTAATTTTCAAAATATTAATAAATTAGTATTA
* * * *
32042 -TTTTATTTTAGATAAGTTTTTAT--TAACTAAAACAATTGTTTTATGACAAAACAAA-ATCTCA
64 TTTTTA-TTGA-ATAAGCTTATATGATAA--AAAACAATTATTTTATGACAAAACAAAGA--TCA
* ** * * * * * * * *
32103 AAATAATTTTAAATAGATAATTATT-TAAATAGT-TCTATCTATTTGAAATTGTTCAGT
123 GAACGATTTGACATAGATAATTATTCT-AATAATCT-TAACTATTAG-AACTGATCAGA
* * * *
32160 AAACAGATTTATTTTTTTAAATCTCTTG-TT-TTAATTTTTC-GAATGTTAATAAATTAGTATTA
1 AAACACATTTA-GTTTTTAAATCTCTTGCTTATTAA-TTTTCAAAATATTAATAAATTAGTATTA
* * ** * * *
32222 -TTTTATTCCAAATAAGCTTGTATGA-ACTGAAATAATTGTTTTATGACTAAACAAAAGGAT-AG
64 TTTTTATT--GAATAAGCTTATATGATA-AAAAACAATTATTTTATGACAAAAC-AAA-GATCAG
* * * * * * * * * *
32284 AATGATTTGAAATAGATAATTATTATGATAGTCTTAACTATTTGAATTAGTTCGGC
124 AACGATTTGACATAGATAATTATTCTAATAATCTTAACTATTAGAACT-GATCAGA
* * * * ** * * * *
32340 TACCATATTTATTTTTTAAA--TC-T-CTTATTAATTTTTGAAATACTATTAAATTAATATCATT
1 AAACACATTTAGTTTTTAAATCTCTTGCTTATTAATTTTCAAAATATTAATAAATTAGTATTATT
* * * * * *
32401 TTAATCTGAATAAGCTTGTATGA-AAGGAAACAATTGTTGTATGACAAAATAAAGATCA
66 TTTAT-TGAATAAGCTTATATGATAA-AAAACAATTATTTTATGACAAAACAAAGATCA
32459 TTATGATTTG
Statistics
Matches: 532, Mismatches: 91, Indels: 79
0.76 0.13 0.11
Matches are distributed among these distances:
175 3 0.01
176 11 0.02
177 58 0.11
178 12 0.02
179 85 0.16
180 268 0.50
181 68 0.13
182 24 0.05
183 3 0.01
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (178 bp):
AAACACATTTAGTTTTTAAATCTCTTGCTTATTAATTTTCAAAATATTAATAAATTAGTATTATT
TTTATTGAATAAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCAGAACGATT
TGACATAGATAATTATTCTAATAATCTTAACTATTAGAACTGATCAGA
Found at i:32371 original size:835 final size:835
Alignment explanation
Indices: 30762--32433 Score: 3211
Period size: 835 Copynumber: 2.0 Consensus size: 835
30752 AAATAGTCAT
30762 AACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCAA
1 AACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCAA
30827 AAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTATG
66 AAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTATG
*
30892 ATTAAACAAAAGGTCAGAATGATTTGAAATAAATAATTATTCTAATAATCTTAACTATTTGAACT
131 ATTAAACAAAAGGTCAGAACGATTTGAAATAAATAATTATTCTAATAATCTTAACTATTTGAACT
30957 GATCAGCAAACACATTTATTTTTCAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAG
196 GATCAGCAAACACATTTATTTTTCAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAG
*
31022 TATTATTTTTATCTGAATCAGCTTATATGATAAAAAATAATTATTTTATGACAAAACAAAGATCA
261 TATTATTTTTATCTGAATCAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCA
*
31087 TAACGACTTGAGATTAATATTTGTTTAAATACTTATAACTATTAGAATTGCTTTGAAAAATAGCT
326 TAACGACTTGAGATTAATATTTGTTTAAATACTTATAACTATTAGAACTGCTTTGAAAAATAGCT
31152 TTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTA
391 TTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTA
31217 GATAAGTTTTTATTAACCAAAACAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAT
456 GATAAGTTTTTATTAACCAAAACAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAT
31282 AGATAATTATTTAAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAAT
521 AGATAATTATTTAAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAAT
*
31347 CTCTTGTTTTATTTTTTCGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGA
586 CTCTTGTTTTAATTTTTCGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGA
31412 ACTGAAATAATTGTTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTATGA
651 ACTGAAATAATTGTTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTATGA
31477 TAGTCTTAACTATTTGAACTAGTTCGGCTACCATATTTATTTTTTAAATCTCTTATTAATTTTTA
716 TAGTCTTAACTATTTGAACTAGTTCGGCTACCATATTTATTTTTTAAATCTCTTATTAATTTTTA
31542 AAATACTATTAAATTAATATCATTTTAATATGAATAAGCTTGTATGAAAGGAAAC
781 AAATACTATTAAATTAATATCATTTTAATATGAATAAGCTTGTATGAAAGGAAAC
*
31597 AACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATTTTTCAA
1 AACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCAA
31662 AAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTATG
66 AAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTATG
* *
31727 ATTAAACAAAAGGTCAGAACGATTTGACATAGATAATTATTCTAATAATCTTAACTATTTGAACT
131 ATTAAACAAAAGGTCAGAACGATTTGAAATAAATAATTATTCTAATAATCTTAACTATTTGAACT
*
31792 GATCAGCAAACACATTTATTTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAG
196 GATCAGCAAACACATTTATTTTTCAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAG
31857 TATTATTTTTATCTGAATCAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCA
261 TATTATTTTTATCTGAATCAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCA
*
31922 TAACGATTTGAGATTAATATTTGTTTAAATACTTATAACTATTAGAACTGCTTTGAAAAATAGCT
326 TAACGACTTGAGATTAATATTTGTTTAAATACTTATAACTATTAGAACTGCTTTGAAAAATAGCT
31987 TTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTA
391 TTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTA
*
32052 GATAAGTTTTTATTAACTAAAACAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAT
456 GATAAGTTTTTATTAACCAAAACAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAT
32117 AGATAATTATTTAAATAGTTC-TATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAA
521 AGATAATTATTTAAATAG-TCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAA
32181 TCTCTTGTTTTAATTTTTCGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATG
585 TCTCTTGTTTTAATTTTTCGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATG
32246 AACTGAAATAATTGTTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTATG
650 AACTGAAATAATTGTTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTATG
*
32311 ATAGTCTTAACTATTTGAATTAGTTCGGCTACCATATTTATTTTTTAAATCTCTTATTAATTTTT
715 ATAGTCTTAACTATTTGAACTAGTTCGGCTACCATATTTATTTTTTAAATCTCTTATTAATTTTT
* *
32376 GAAATACTATTAAATTAATATCATTTTAATCTGAATAAGCTTGTATGAAAGGAAAC
780 AAAATACTATTAAATTAATATCATTTTAATATGAATAAGCTTGTATGAAAGGAAAC
32432 AA
1 AA
32434 TTGTTGTATG
Statistics
Matches: 823, Mismatches: 13, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
835 821 1.00
836 2 0.00
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (835 bp):
AACTATTTGAACTTGTTTGGTAAACAAATTTAGTTTTTCAAATATCCTGCTTATTAATCTTTCAA
AAGTTAATAAATTAGTATTATTTTCTATTGAATAAGCTTGTATGAACTGAAACAATTATTTTATG
ATTAAACAAAAGGTCAGAACGATTTGAAATAAATAATTATTCTAATAATCTTAACTATTTGAACT
GATCAGCAAACACATTTATTTTTCAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAG
TATTATTTTTATCTGAATCAGCTTATATGATAAAAAACAATTATTTTATGACAAAACAAAGATCA
TAACGACTTGAGATTAATATTTGTTTAAATACTTATAACTATTAGAACTGCTTTGAAAAATAGCT
TTAGTTTTTAAATCTCTTGCTTAATAATTTTTGAAATATTAATAAAGTAGTATTATTTTATTTTA
GATAAGTTTTTATTAACCAAAACAATTGTTTTATGACAAAACAAAATCTCAAAATAATTTTAAAT
AGATAATTATTTAAATAGTCATATCTATTTGAAATTGTTCAGTAAACAGATTTATTTTTTTAAAT
CTCTTGTTTTAATTTTTCGAATGTTAATAAATTAGTATTATTTTATTCCAAATAAGCTTGTATGA
ACTGAAATAATTGTTTTATGACTAAACAAAAGGATAGAATGATTTGAAATAGATAATTATTATGA
TAGTCTTAACTATTTGAACTAGTTCGGCTACCATATTTATTTTTTAAATCTCTTATTAATTTTTA
AAATACTATTAAATTAATATCATTTTAATATGAATAAGCTTGTATGAAAGGAAAC
Found at i:32915 original size:20 final size:21
Alignment explanation
Indices: 32879--32922 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
32869 TTTAATATAG
*
32879 TTTAATTAATATTATAA-TTA
1 TTTAATTAATATAATAACTTA
32899 TTTAATTAA-ATAAATAACTTA
1 TTTAATTAATAT-AATAACTTA
32920 TTT
1 TTT
32923 TTTGTTTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTAATTAATATAATAACTTA
Found at i:33365 original size:21 final size:20
Alignment explanation
Indices: 33341--33386 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
33331 ATATACTATC
33341 ATAATTAGTATTATTAAATTA
1 ATAATTAGTATTATTAAA-TA
* *
33362 ATAATTATTATTTTTAAATA
1 ATAATTAGTATTATTAAATA
33382 ATAAT
1 ATAAT
33387 CAAATAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
ATAATTAGTATTATTAAATA
Found at i:33661 original size:29 final size:27
Alignment explanation
Indices: 33629--33683 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
33619 ATTAAGTAAG
* *
33629 ATAAATTTAATCTAATGATATTTATAATT
1 ATAAATTTAA-ATAAT-ATACTTATAATT
33658 ATAAATTTAAATAATATACTTATAAT
1 ATAAATTTAAATAATATACTTATAAT
33684 ATTTGTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 10 0.42
28 4 0.17
29 10 0.42
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (27 bp):
ATAAATTTAAATAATATACTTATAATT
Done.