Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168119.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_363, 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: 31355
ACGTcount: A:0.65, C:0.05, G:0.13, T:0.17
Found at i:1139 original size:22 final size:22
Alignment explanation
Indices: 1114--1155 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1104 AGATTTAAGA
*
1114 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAATAAAAATGC
* *
1136 AAAATATATAAAATAAAAAT
1 AAAAAATAAAAAATAAAAAT
1156 TGAGAAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAATGC
Found at i:1218 original size:56 final size:56
Alignment explanation
Indices: 1110--1220 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
1100 AAAAAGATTT
* ***
1110 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAAATTGAGAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAAAAAAAGAAAAAG
*
1166 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAATAAAAAGAAAAA
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAATAAAA-AAAAAGAAAAA
1221 AATTTATAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 8 0.17
56 40 0.83
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.13
Consensus pattern (56 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAAAAAAAGAAAAAG
Found at i:2905 original size:12 final size:12
Alignment explanation
Indices: 2876--2947 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 12
2866 ATGAAATTAT
2876 AAATAAAGAAAGA
1 AAATAAA-AAAGA
*
2889 AAATAAAAAATA
1 AAATAAAAAAGA
2901 AAATAAAATAAGA
1 AAATAAAA-AAGA
2914 AAA-AAAGTAAAGCA
1 AAATAAA--AAAG-A
*
2928 AAAGAAAAAAGA
1 AAATAAAAAAGA
2940 TAAATAAA
1 -AAATAAA
2948 GCACAAAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
12 16 0.32
13 26 0.52
14 5 0.10
15 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:2924 original size:17 final size:17
Alignment explanation
Indices: 2874--2924 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
2864 TTATGAAATT
*
2874 ATAAATAAAGAAAG-AAA
1 ATAAA-AAATAAAGTAAA
*
2891 ATAAAAAATAAAATAAA
1 ATAAAAAATAAAGTAAA
2908 ATAAGAAAA-AAAGTAAA
1 ATAA-AAAATAAAGTAAA
2925 GCAAAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 6 0.21
17 19 0.66
18 4 0.14
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (17 bp):
ATAAAAAATAAAGTAAA
Found at i:3259 original size:29 final size:28
Alignment explanation
Indices: 3206--3263 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
3196 AGGAAATTTG
3206 TGGAAAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAAAGAAAAGACAAAA-ATT
* *
3235 TGGAATAAAAAACAGAAAA-ATAAAAATT
1 TGGAA-AAAAAAAAGAAAAGACAAAAATT
3263 T
1 T
3264 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.16
Consensus pattern (28 bp):
TGGAAAAAAAAAAGAAAAGACAAAAATT
Found at i:3703 original size:22 final size:21
Alignment explanation
Indices: 3678--3718 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
3668 AGATTTAAGA
3678 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
3700 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
3719 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATAC
Found at i:4410 original size:17 final size:17
Alignment explanation
Indices: 4388--4438 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
4378 ATAAAAATTT
*
4388 TTAAAACAACGAAAAAA
1 TTAAAACAAAGAAAAAA
*
4405 TTAAAA-AAAGTAAAAA
1 TTAAAACAAAGAAAAAA
* *
4421 TGAAAACATATGAAAAAA
1 TTAAAACA-AAGAAAAAA
4439 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.16
Consensus pattern (17 bp):
TTAAAACAAAGAAAAAA
Found at i:4542 original size:23 final size:24
Alignment explanation
Indices: 4515--4567 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
4505 TTAGGGAATC
*
4515 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
4538 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
4561 AAAAAAT
1 AAAAAAT
4568 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAAATAAACAAAGGAAAAAAAT
Found at i:4772 original size:20 final size:19
Alignment explanation
Indices: 4747--4788 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
4737 AAAATATTTG
4747 AGAAAAAAATGAGAAAAA-GA
1 AGAAAAAAAT-A-AAAAATGA
4767 AGAAAAAAATAAAAAATGA
1 AGAAAAAAATAAAAAATGA
4786 AGA
1 AGA
4789 GGCAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (19 bp):
AGAAAAAAATAAAAAATGA
Found at i:4782 original size:19 final size:20
Alignment explanation
Indices: 4747--4788 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
4737 AAAATATTTG
*
4747 AGAAAAAAATGAGAAAAAGA
1 AGAAAAAAATGAAAAAAAGA
*
4767 AGAAAAAAAT-AAAAAATGA
1 AGAAAAAAATGAAAAAAAGA
4786 AGA
1 AGA
4789 GGCAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AGAAAAAAATGAAAAAAAGA
Found at i:5636 original size:22 final size:24
Alignment explanation
Indices: 5611--5654 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
5601 AATTGAGAAA
5611 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
5633 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
5655 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 7 0.39
24 6 0.33
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (24 bp):
AAGAAGCAAAAAAATGAAAAAATG
Found at i:7354 original size:12 final size:12
Alignment explanation
Indices: 7325--7397 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 12
7315 ATGAAATTAT
7325 AAATAAAGAAAGA
1 AAATAAA-AAAGA
*
7338 AAATAAAAAATA
1 AAATAAAAAAGA
7350 AAATAAAATAAGA
1 AAATAAAA-AAGA
*
7363 AAAAAAAGTAAAGCA
1 AAATAAA--AAAG-A
*
7378 AAAGAAAAAAGA
1 AAATAAAAAAGA
7390 TAAATAAA
1 -AAATAAA
7398 GCACAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.26
13 26 0.52
14 3 0.06
15 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:7357 original size:17 final size:18
Alignment explanation
Indices: 7333--7374 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
7323 ATAAATAAAG
7333 AAAG-AAAATAA-AAAATA
1 AAAGTAAAATAAGAAAA-A
7350 AAA-TAAAATAAGAAAAA
1 AAAGTAAAATAAGAAAAA
7367 AAAGTAAA
1 AAAGTAAA
7375 GCAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAGTAAAATAAGAAAAA
Found at i:7708 original size:29 final size:28
Alignment explanation
Indices: 7655--7712 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
7645 AGGAAATTTG
7655 TGGAAAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAAAGAAAAGACAAAA-ATT
* *
7684 TGGAATAAAAAACAGAAAA-ATAAAAATT
1 TGGAA-AAAAAAAAGAAAAGACAAAAATT
7712 T
1 T
7713 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.16
Consensus pattern (28 bp):
TGGAAAAAAAAAAGAAAAGACAAAAATT
Found at i:7835 original size:8 final size:8
Alignment explanation
Indices: 7819--7893 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
7809 TACAAAGTAG
7819 AAAAAAAT
1 AAAAAAAT
*
7827 AAGAAAAT
1 AAAAAAAT
7835 AAAAAAAT
1 AAAAAAAT
* *
7843 AAATTAAGAG
1 AAA--AAAAT
*
7853 AAAAAATT
1 AAAAAAAT
7861 AAATAAAAT
1 AAA-AAAAT
*
7870 ACCAAAAAAG
1 A--AAAAAAT
*
7880 GAAAAAAT
1 AAAAAAAT
7888 AAAAAA
1 AAAAAA
7894 TTAGCGAATC
Statistics
Matches: 50, Mismatches: 12, Indels: 10
0.69 0.17 0.14
Matches are distributed among these distances:
8 33 0.66
9 5 0.10
10 10 0.20
11 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.07, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8144 original size:22 final size:21
Alignment explanation
Indices: 8119--8159 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8109 AGATTTAAGA
8119 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
8141 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
8160 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATAC
Found at i:8452 original size:13 final size:12
Alignment explanation
Indices: 8434--8493 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
8424 ATGAAATTAT
8434 AAATAAAGAAAGA
1 AAATAAA-AAAGA
8447 AAATAAAATAAGA
1 AAATAAAA-AAGA
8460 AAA-AAATTAAAGCA
1 AAATAAA--AAAG-A
*
8474 AAAGAAAAAAGA
1 AAATAAAAAAGA
8486 TAAATAAA
1 -AAATAAA
8494 GCACGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
12 5 0.12
13 27 0.68
14 5 0.12
15 3 0.08
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.12
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:8459 original size:17 final size:17
Alignment explanation
Indices: 8434--8494 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
8424 ATGAAATTAT
8434 AAATAAAGAAAGAAAATA
1 AAATAAAGAAA-AAAATA
8452 AAAT-AAGAAAAAAATTA
1 AAATAAAGAAAAAAA-TA
8469 AAGCA-AAAGAAAAAAGAT-
1 AA--ATAAAGAAAAAA-ATA
8487 AAATAAAG
1 AAATAAAG
8495 CACGAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 13
0.74 0.00 0.26
Matches are distributed among these distances:
16 5 0.14
17 14 0.38
18 6 0.16
19 11 0.30
20 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.11
Consensus pattern (17 bp):
AAATAAAGAAAAAAATA
Found at i:8822 original size:28 final size:27
Alignment explanation
Indices: 8767--8822 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
8757 AGGAAATTTG
*
8767 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
8794 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
8822 T
1 T
8823 TTAAAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.16
Consensus pattern (27 bp):
TGGAAAAAAAAGAAAAAACAAAAGATT
Found at i:8845 original size:17 final size:17
Alignment explanation
Indices: 8823--8873 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
8813 ATAAAAATTT
*
8823 TTAAAACAACGAAAAAA
1 TTAAAACAAAGAAAAAA
*
8840 TTAAAA-AAAGTAAAAA
1 TTAAAACAAAGAAAAAA
* *
8856 TGAAAACATATGAAAAAA
1 TTAAAACA-AAGAAAAAA
8874 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.16
Consensus pattern (17 bp):
TTAAAACAAAGAAAAAA
Found at i:8977 original size:23 final size:24
Alignment explanation
Indices: 8950--9002 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
8940 TTAGGGAATC
*
8950 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
8973 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
8996 AAAAAAT
1 AAAAAAT
9003 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAAATAAACAAAGGAAAAAAAT
Found at i:9217 original size:18 final size:19
Alignment explanation
Indices: 9186--9223 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9176 ATATTTGAGA
*
9186 AAAAAATGAGAAAAAGAAG
1 AAAAAATGAAAAAAAGAAG
*
9205 AAAAAAT-AAAAAATGAAG
1 AAAAAATGAAAAAAAGAAG
9223 A
1 A
9224 GGCAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (19 bp):
AAAAAATGAAAAAAAGAAG
Found at i:10947 original size:12 final size:12
Alignment explanation
Indices: 10918--10990 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 12
10908 ATGAAATTAT
10918 AAATAAAGAAAGA
1 AAATAAA-AAAGA
*
10931 AAATAAAAAATA
1 AAATAAAAAAGA
10943 AAATAAAATAAGA
1 AAATAAAA-AAGA
*
10956 AAAAAAAGTAAAGCA
1 AAATAAA--AAAG-A
*
10971 AAAGAAAAAAGA
1 AAATAAAAAAGA
10983 TAAATAAA
1 -AAATAAA
10991 GCACAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.26
13 26 0.52
14 3 0.06
15 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:10950 original size:17 final size:18
Alignment explanation
Indices: 10926--10967 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
10916 ATAAATAAAG
10926 AAAG-AAAATAA-AAAATA
1 AAAGTAAAATAAGAAAA-A
10943 AAA-TAAAATAAGAAAAA
1 AAAGTAAAATAAGAAAAA
10960 AAAGTAAA
1 AAAGTAAA
10968 GCAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAGTAAAATAAGAAAAA
Found at i:11053 original size:17 final size:17
Alignment explanation
Indices: 11013--11054 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
11003 CAAAAATACA
* *
11013 ACAAAAATATAAAAAGT
1 ACAAAAATAAAAAAAGG
11030 A-AGAAAATAAAAAAAGG
1 ACA-AAAATAAAAAAAGG
11047 ACAAAAAT
1 ACAAAAAT
11055 TGAATAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.05
17 19 0.90
18 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.12
Consensus pattern (17 bp):
ACAAAAATAAAAAAAGG
Found at i:11299 original size:29 final size:28
Alignment explanation
Indices: 11246--11303 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
11236 AGGAAATTTG
11246 TGGAAAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAAAGAAAAGACAAAA-ATT
* *
11275 TGGAATAAAAAACAGAAAA-ATAAAAATT
1 TGGAA-AAAAAAAAGAAAAGACAAAAATT
11303 T
1 T
11304 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.16
Consensus pattern (28 bp):
TGGAAAAAAAAAAGAAAAGACAAAAATT
Found at i:12447 original size:17 final size:17
Alignment explanation
Indices: 12425--12475 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
12415 ATAAAAATTT
*
12425 TTAAAACAACGAAAAAA
1 TTAAAACAAAGAAAAAA
*
12442 TTAAAA-AAAGTAAAAA
1 TTAAAACAAAGAAAAAA
* *
12458 TGAAAACATATGAAAAAA
1 TTAAAACA-AAGAAAAAA
12476 AAAAAAGCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.16
Consensus pattern (17 bp):
TTAAAACAAAGAAAAAA
Found at i:12580 original size:23 final size:24
Alignment explanation
Indices: 12553--12605 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
12543 TTAGGGAATC
*
12553 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
12576 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
12599 AAAAAAT
1 AAAAAAT
12606 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAAATAAACAAAGGAAAAAAAT
Found at i:12811 original size:20 final size:19
Alignment explanation
Indices: 12786--12827 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
12776 AAAATATTTG
12786 AGAAAAAAATGAGAAAAA-GA
1 AGAAAAAAAT-A-AAAAATGA
12806 AGAAAAAAATAAAAAATGA
1 AGAAAAAAATAAAAAATGA
12825 AGA
1 AGA
12828 GGCAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (19 bp):
AGAAAAAAATAAAAAATGA
Found at i:12821 original size:19 final size:20
Alignment explanation
Indices: 12786--12827 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
12776 AAAATATTTG
*
12786 AGAAAAAAATGAGAAAAAGA
1 AGAAAAAAATGAAAAAAAGA
*
12806 AGAAAAAAAT-AAAAAATGA
1 AGAAAAAAATGAAAAAAAGA
12825 AGA
1 AGA
12828 GGCAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (20 bp):
AGAAAAAAATGAAAAAAAGA
Found at i:13631 original size:22 final size:22
Alignment explanation
Indices: 13606--13647 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
13596 AGATTTAAGA
*
13606 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAATAAAAATGC
* *
13628 AAAATATATAAAATAAAAAT
1 AAAAAATAAAAAATAAAAAT
13648 TGAGAAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAATGC
Found at i:13680 original size:22 final size:24
Alignment explanation
Indices: 13655--13698 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
13645 AATTGAGAAA
13655 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
13677 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
13699 AAATAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 7 0.39
24 6 0.33
ACGTcount: A:0.73, C:0.02, G:0.16, T:0.09
Consensus pattern (24 bp):
AAGAAGCAAAAAAATGAAAAAATG
Found at i:13716 original size:48 final size:52
Alignment explanation
Indices: 13602--13715 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 52
13592 AAAAAGATTT
*
13602 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAAATTGAGAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAAATT----AAAAG
* *
13658 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAAATAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAATAAAAATTAAAAG
13709 AA-AAAAA
1 AAGAAAAA
13716 TTTATAGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
50 5 0.09
51 7 0.13
55 10 0.19
56 32 0.59
ACGTcount: A:0.75, C:0.02, G:0.11, T:0.12
Consensus pattern (52 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAAATTAAAAG
Found at i:15399 original size:12 final size:12
Alignment explanation
Indices: 15370--15442 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 12
15360 ATGAAATTAT
15370 AAATAAAGAAAGA
1 AAATAAA-AAAGA
*
15383 AAATAAAAAATA
1 AAATAAAAAAGA
15395 AAATAAAATAAGA
1 AAATAAAA-AAGA
*
15408 AAAAAAAGTAAAGCA
1 AAATAAA--AAAG-A
*
15423 AAAGAAAAAAGA
1 AAATAAAAAAGA
15435 TAAATAAA
1 -AAATAAA
15443 GCACAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.26
13 26 0.52
14 3 0.06
15 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:15402 original size:17 final size:18
Alignment explanation
Indices: 15378--15419 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
15368 ATAAATAAAG
15378 AAAG-AAAATAA-AAAATA
1 AAAGTAAAATAAGAAAA-A
15395 AAA-TAAAATAAGAAAAA
1 AAAGTAAAATAAGAAAAA
15412 AAAGTAAA
1 AAAGTAAA
15420 GCAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAGTAAAATAAGAAAAA
Found at i:15751 original size:29 final size:28
Alignment explanation
Indices: 15698--15755 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
15688 AGGAAATTTG
15698 TGGAAAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAAAGAAAAGACAAAA-ATT
* *
15727 TGGAATAAAAAACAGAAAA-ATAAAAATT
1 TGGAA-AAAAAAAAGAAAAGACAAAAATT
15755 T
1 T
15756 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.16
Consensus pattern (28 bp):
TGGAAAAAAAAAAGAAAAGACAAAAATT
Found at i:15945 original size:32 final size:34
Alignment explanation
Indices: 15878--15946 Score: 81
Period size: 32 Copynumber: 2.1 Consensus size: 34
15868 ATAAGAAAAT
*
15878 AAAAAAAATAAATTAAGAGAAAAAATTAAATATCA
1 AAAAAAAATAAA-TAAGAGAAAAAATGAAATATCA
*
15913 AAAAAAAATAAA-AA-AGACAAAATG-AATAATCA
1 AAAAAAAATAAATAAGAGAAAAAATGAAAT-ATCA
15945 AA
1 AA
15947 TATAAAATGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 3 0.10
32 14 0.45
33 2 0.06
35 12 0.39
ACGTcount: A:0.74, C:0.04, G:0.06, T:0.16
Consensus pattern (34 bp):
AAAAAAAATAAATAAGAGAAAAAATGAAATATCA
Found at i:16159 original size:22 final size:21
Alignment explanation
Indices: 16134--16174 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
16124 AGATTTAAGA
16134 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
16156 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
16175 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATAC
Found at i:16864 original size:17 final size:17
Alignment explanation
Indices: 16842--16892 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
16832 ATAAAAATTT
*
16842 TTAAAACAACGAAAAAA
1 TTAAAACAAAGAAAAAA
*
16859 TTAAAA-AAAGTAAAAA
1 TTAAAACAAAGAAAAAA
* *
16875 TGAAAACATATGAAAAAA
1 TTAAAACA-AAGAAAAAA
16893 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.16
Consensus pattern (17 bp):
TTAAAACAAAGAAAAAA
Found at i:16996 original size:23 final size:24
Alignment explanation
Indices: 16969--17021 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
16959 TTAGGGAATC
*
16969 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
16992 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
17015 AAAAAAT
1 AAAAAAT
17022 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAAATAAACAAAGGAAAAAAAT
Found at i:17774 original size:23 final size:23
Alignment explanation
Indices: 17724--17781 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
17714 CCCAGAAAGG
*
17724 AAAAATAAAAATAAACAAAGTAA
1 AAAAATAAAAATAAACAAAGCAA
* * * *
17747 GAAAATAAAAATTAGCGAAGCAA
1 AAAAATAAAAATAAACAAAGCAA
17770 AAAAATATAAAA
1 AAAAATA-AAAA
17782 AGACAAATGA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 24 0.86
24 4 0.14
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAATAAAAATAAACAAAGCAA
Found at i:18092 original size:54 final size:53
Alignment explanation
Indices: 17988--18093 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
17978 AAAAAGATTT
* ***
17988 AAGAAAAAATAAAAATGAAAATGCAAAATATATAAAATAAAAATTGAGAAAAG
1 AAGAAAAAATAAAAATGAAAAGGCAAAATATATAAAATAAAAAAAAAGAAAAG
*
18041 AAGAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAATAAAAAGAAAA
1 AAGAAAAAAT-AAAAATGAAAAGGCAAAATATAT-AAAATAAAA-AAAAAGAAAA
18094 AATTTATAGA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 18 0.40
54 27 0.60
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (53 bp):
AAGAAAAAATAAAAATGAAAAGGCAAAATATATAAAATAAAAAAAAAGAAAAG
Found at i:19782 original size:12 final size:12
Alignment explanation
Indices: 19753--19825 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 12
19743 ATGAAATTAT
19753 AAATAAAGAAAGA
1 AAATAAA-AAAGA
*
19766 AAATAAAAAATA
1 AAATAAAAAAGA
19778 AAATAAAATAAGA
1 AAATAAAA-AAGA
*
19791 AAAAAAAGTAAAGCA
1 AAATAAA--AAAG-A
*
19806 AAAGAAAAAAGA
1 AAATAAAAAAGA
19818 TAAATAAA
1 -AAATAAA
19826 GCACAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
12 13 0.26
13 26 0.52
14 3 0.06
15 8 0.16
ACGTcount: A:0.78, C:0.01, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:19785 original size:17 final size:18
Alignment explanation
Indices: 19761--19802 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
19751 ATAAATAAAG
19761 AAAG-AAAATAA-AAAATA
1 AAAGTAAAATAAGAAAA-A
19778 AAA-TAAAATAAGAAAAA
1 AAAGTAAAATAAGAAAAA
19795 AAAGTAAA
1 AAAGTAAA
19803 GCAAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAGTAAAATAAGAAAAA
Found at i:20136 original size:29 final size:28
Alignment explanation
Indices: 20083--20140 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
20073 AGGAAATTTG
20083 TGGAAAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAAAGAAAAGACAAAA-ATT
* *
20112 TGGAATAAAAAACAGAAAA-ATAAAAATT
1 TGGAA-AAAAAAAAGAAAAGACAAAAATT
20140 T
1 T
20141 TTAAAACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 4 0.15
29 10 0.38
30 12 0.46
ACGTcount: A:0.67, C:0.03, G:0.14, T:0.16
Consensus pattern (28 bp):
TGGAAAAAAAAAAGAAAAGACAAAAATT
Found at i:20543 original size:22 final size:21
Alignment explanation
Indices: 20518--20558 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
20508 AGATTTAAGA
20518 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
20540 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
20559 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATAC
Found at i:20935 original size:13 final size:13
Alignment explanation
Indices: 20898--20941 Score: 54
Period size: 12 Copynumber: 3.4 Consensus size: 13
20888 GATAAAGCAG
*
20898 AAAAAGAAAAAA-
1 AAAAACAAAAAAT
20910 AAAAACAAAAAAT
1 AAAAACAAAAAAT
*
20923 AACAACAAAAAATT
1 AAAAACAAAAAA-T
20937 AAAAA
1 AAAAA
20942 AAGTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 11 0.41
14 5 0.19
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAACAAAAAAT
Found at i:21401 original size:23 final size:22
Alignment explanation
Indices: 21351--21401 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
21341 TAGGGAATCA
*
21351 AAAAATATAAAAGGAAAAAAAT
1 AAAAATAAAAAAGGAAAAAAAT
* *
21373 AAAAATAAACAAAGTAAGAAAAT
1 AAAAATAAA-AAAGGAAAAAAAT
21396 AAAAAT
1 AAAAAT
21402 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 8 0.32
23 17 0.68
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAAATAAAAAAGGAAAAAAAT
Found at i:21607 original size:19 final size:19
Alignment explanation
Indices: 21583--21620 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
21573 AAATATTGAG
21583 AAAAAATAGAAAAA-GAAGA
1 AAAAAATA-AAAAATGAAGA
21602 AAAAAATAAAAAATGAAGA
1 AAAAAATAAAAAATGAAGA
21621 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (19 bp):
AAAAAATAAAAAATGAAGA
Found at i:21654 original size:27 final size:25
Alignment explanation
Indices: 21624--21683 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
21614 ATGAAGAGGC
21624 AAAAATATGAAA-TAAAACAAAAAGAAA
1 AAAAATA-GAAATTAAAAC--AAAGAAA
*
21651 AAAAATAGAAATTTTAAACAAAGAAA
1 AAAAATAGAAA-TTAAAACAAAGAAA
21677 AAAAATA
1 AAAAATA
21684 CAAAAAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 18 0.60
27 7 0.23
28 5 0.17
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (25 bp):
AAAAATAGAAATTAAAACAAAGAAA
Found at i:21766 original size:18 final size:17
Alignment explanation
Indices: 21743--21778 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
21733 ACAAAATGAA
*
21743 AAAAAAAAGTTTAAAAAC
1 AAAAAAAA-TTGAAAAAC
21761 AAAAAAAATTGAAAAAC
1 AAAAAAAATTGAAAAAC
21778 A
1 A
21779 TATAAGTCCT
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:0.75, C:0.06, G:0.06, T:0.14
Consensus pattern (17 bp):
AAAAAAAATTGAAAAAC
Found at i:22408 original size:22 final size:21
Alignment explanation
Indices: 22383--22423 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22373 AGATTTAAGA
22383 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
22405 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
22424 TGAGAAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:24170 original size:16 final size:17
Alignment explanation
Indices: 24147--24186 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
24137 TATAATAAAG
24147 AAAG-AAAATAA-AAATA
1 AAAGTAAAATAAGAAA-A
24163 AAA-TAAAATAAGAAAA
1 AAAGTAAAATAAGAAAA
24179 AAAGTAAA
1 AAAGTAAA
24187 GCAAAAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAGTAAAATAAGAAAA
Found at i:24210 original size:21 final size:19
Alignment explanation
Indices: 24184--24248 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
24174 GAAAAAAAGT
24184 AAAGCAAAAGAAAAAGATAAA
1 AAAGCAAAA-AAAAA-ATAAA
*
24205 AAAGCACAAAAAAAAACAAA
1 AAAGCA-AAAAAAAAATAAA
*
24225 AAA-AAAAACAAAAAATATAA
1 AAAGCAAAA-AAAAAATA-AA
24245 AAAG
1 AAAG
24249 TAAGAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 3 0.08
19 8 0.22
20 12 0.32
21 11 0.30
22 3 0.08
ACGTcount: A:0.80, C:0.08, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAGCAAAAAAAAAATAAA
Found at i:24231 original size:12 final size:12
Alignment explanation
Indices: 24202--24239 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
24192 AGAAAAAGAT
* *
24202 AAAAAAGCACAA
1 AAAAAAACAAAA
24214 AAAAAAACAAAA
1 AAAAAAACAAAA
24226 AAAAAAACAAAA
1 AAAAAAACAAAA
24238 AA
1 AA
24240 TATAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.87, C:0.11, G:0.03, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:25729 original size:32 final size:33
Alignment explanation
Indices: 25688--25750 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
25678 AAAAGGACAG
25688 AAAATGAATAAAA-A-TTTCAAAAATAAAAAGAC
1 AAAATGAATAAAATAGTTT-AAAAATAAAAAGAC
25720 AAAATGAATAAAATTAGTTTAAAAATAAAAA
1 AAAATGAATAAAA-TAGTTTAAAAATAAAAA
25751 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.46
34 12 0.43
35 3 0.11
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.22
Consensus pattern (33 bp):
AAAATGAATAAAATAGTTTAAAAATAAAAAGAC
Found at i:26128 original size:22 final size:22
Alignment explanation
Indices: 26075--26128 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
26065 AGAAAAAATT
26075 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
26098 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
26121 AAATAAAA
1 AAATAAAA
26129 AATTAGCGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 12 0.44
23 9 0.33
24 6 0.22
ACGTcount: A:0.76, C:0.06, G:0.07, T:0.11
Consensus pattern (22 bp):
AAATAAAATACAAAAAAGGAAA
Found at i:26692 original size:536 final size:534
Alignment explanation
Indices: 26150--27804 Score: 1309
Period size: 536 Copynumber: 3.0 Consensus size: 534
26140 CAAAAAATAT
* *
26150 AAAAAGACAAAATGAATAAAAATTTCAAATATAAAATGAAAAAACTATTGGTTCAGAATGTACAA
1 AAAAAGACAAAATGAATAAAAAATTCAAATATAAAATGAAAAAACTATTGGTTAAGAATGTACAA
*
26215 AGAAAAATAAAAAAAATATAACAAGCAGAGGAAAAAGATATAAAATATGAAAGATGAAAAATAAA
66 AGAAAAATAAAAAAAATATAACAAGAAGAGGAAAAAGATATAAAATATGAAAGATGAAAAATAAA
26280 ATAAAAGAAAGTGCACAAAAAAAGAAGTTTGAGGTTTTAAAACTATAAAGAAGAAATAAAAAAAG
131 ATAAAAGAAAGTGCACAAAAAAAGAAGTTTGAGGTTTTAAAACTATAAAGAAGAAATAAAAAAAG
26345 GTGTGAACAAAAAGATTTAAGAAAA-AAAAAGAAAATACAAAATATATAAAATAAAATTTGAGAA
196 GTGTGAACAAAAAGATTTAAGAAAAGAAAAAGAAAATACAAAATATATAAAATAAAATTTGAGAA
26409 AAAGAAG-AAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAAGAAAAAGAAAAATTTAT
261 AAAGAAGAAAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAAGAAAAAGAAAAATTTAT
* * **
26473 AGAAAATTTTAAAACAAAGAGAAAAGTGAACAAAAAAGAATGATGGCATATAAAAAAAAAGTAAA
326 AGAAAATTTTAAAACAAAGAAAAAACTGAACAAAAAAGAATGAAAGCATAT-AAAAAAAAGT-AA
26538 AAAAAGAAGAAAAATTTGGAAGGAGAAAAAGTTAATGAAAAAAATATAAAAATGCAATAGAAAAT
389 AAAAAGAAGAAAAATTTGGAAGGAGAAAAAGTTAATG-AAAAAATATAAAAATGCAATAGAAAAT
*
26603 AACCAAGAATGATAAAAGAAAAAAAGATAGAAAAGTAAAAAATTCTAAAAACTTTATAAAAATTT
453 AACCAAGAATGATAAAAGAAAAAAAGATAGAAAAATAAAAAATTC-AAAAACTTTATAAAAATTT
26668 ATGAAATTATAAATAAAG
517 ATGAAATTATAAATAAAG
* ** * * * * ** ** * * * *
26686 AAAAAGAAAATAAAAAATAAAAAAAT-AAGAAAAAAAAGTAAAGCAAAGAAAAAAGATAAATAAA
1 AAAAAGACAA-AATGAATAAAAAATTCAA-ATATAAAA-TGAA--AAA-ACTATTGGTTAAGAAT
* * * ** *
26750 GCACAAAAAAAAAAAAAATAAACAAAAAATATAAAAAGTAAGAAAATAAAAAAAGGACA-AAAAT
60 GTAC-----AAAGAAAAAT-AA-AAAAAATATAACAAG-AAG---A-GGAAAAA-GATATAAAAT
* * * * * * * ** * *
26814 -TGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATG-AAAAAAAAATTAGTTTAACAAAAA
112 ATG---AAAGA--TGAAAAATAAAAT--AA-AAGAAAGTGCACAAAAAAAGAAGTTT-----GAG
* ** * * * **
26877 ATTGAAAAACATATAAGACCTAATAACATATAAAAA-GTCAG-ACAAAAA-A-TTAA-AAAAGAG
164 GTTTTAAAAC-TATAA-A--GAAGAA-ATAAAAAAAGGTGTGAACAAAAAGATTTAAGAAAAGA-
** * *
26937 AAAAGTTAATGCAAAATA-A-AAAA-AAAAGTATGAGAATTTAAA-AACGCAAATAAGAAATGAA
223 AAAAGAAAATACAAAATATATAAAATAAAA-TTTGAGAA---AAAGAA-G-AAA-AA-AAAT-AA
** *** * * * * ***
26998 AGGAAATTTGTGGAAAAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAACAGAAAAATA-A
279 A--AAA--TGAAGAGGCAAAAATATG--AA-ATAAAAGA-----AA-AAGAAA-A-ATTTATAGA
* * * ** *
27062 AAATTTTAAAACAACGAAAAAATTAAAACAAGTAA-AATGAAAGCATATGAAAAAAAAG--CAAA
329 AAATTTTAAAACAAAGAAAAAACT-GAACAAAAAAGAATGAAAGCATAT-AAAAAAAAGTAAAAA
* * * * *
27124 AAGAAGGAAAA-TTGTGAAGG-GAAAAAGTT-ATTAAAAAAT-TACAAAGTAG-AA-AAAAAAAA
392 AAGAAGAAAAATTTG-GAAGGAGAAAAAGTTAATGAAAAAATATA-AAAAT-GCAATAGAAAATA
** * ** * * ***
27183 AAGAAAAAAAATAAATTAAGAGAAAAAA-TTAAATAAAATACCAAAAAAGGAAAAA----ATAAA
454 ACCAAGAATGAT-AA--AAGA-AAAAAAGATAGA-AAAATA--AAAAATTCAAAAACTTTATAAA
* * * * *
27243 AAATTA-GCGAATCA-AAAAAATAT
512 AATTTATG-AAATTATAAATAA-AG
* * * *
27266 AAAAAGACAAAATGAAT-AAAACTTCAAATATAAAATGGAAAAAACTTTTAGTTTAGAATGTACA
1 AAAAAGACAAAATGAATAAAAAATTCAAATATAAAAT-GAAAAAACTATTGGTTAAGAATGTACA
27330 AAG-AAAA-AAAAAAAA-A-AACAA-ATAGAGGAAAAAGATATAAAATATGAAAGATGAAAAATA
65 AAGAAAAATAAAAAAAATATAACAAGA-AGAGGAAAAAGATATAAAATATGAAAGATGAAAAATA
*
27390 AAATAAAAGAAAGTGCACAAAAAAAGAAGTTTGAGGTTTTAAAATTATAAAGAAGAAATAAAAAA
129 AAATAAAAGAAAGTGCACAAAAAAAGAAGTTTGAGGTTTTAAAACTATAAAGAAGAAATAAAAAA
*
27455 AGGTGTGAACAAAAAGATTTAAGAAAAAAATAAAAATGAAAATACAAAATATATAAAATAAAATT
194 AGGTGTGAACAAAAAGATTTAAG---AAAAGAAAAA-GAAAATACAAAATATATAAAATAAAATT
*
27520 TGAGAAAAAGAAGAAAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAACAAAAAGAAAA
255 TGAGAAAAAGAAGAAAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAAGAAAAAG---A
* *
27585 AAAATTTATAGAAAATTTTAAAACAAAGAAAAAACTGAACGAAAAAGAATGAAAGCACATAAAAA
317 AAAATTTATAGAAAATTTTAAAACAAAGAAAAAACTGAACAAAAAAGAATGAAAGCATATAAAAA
* * *
27650 AAAGTAAAAAAAGAAGAAAAATTCGGAAGGAGAAAAAGTTAATGAAAAATTATAAAAATGCAACA
382 AAAGTAAAAAAAGAAGAAAAATTTGGAAGGAGAAAAAGTTAATGAAAAAATATAAAAATGCAATA
*
27715 GAAAATAACCAAGAATGATAAAAG-AAAAAAGATAGAAAAATAAAAAATTCCAAAACTTTATAAA
447 GAAAATAACCAAGAATGATAAAAGAAAAAAAGATAGAAAAATAAAAAATTCAAAAACTTTATAAA
27779 AATTTATGAAATTATAAATAAAG
512 AATTTATGAAATTATAAATAAAG
27802 AAA
1 AAA
27805 GAAAATAAAA
Statistics
Matches: 819, Mismatches: 184, Indels: 232
0.66 0.15 0.19
Matches are distributed among these distances:
532 9 0.01
533 2 0.00
534 33 0.04
535 39 0.05
536 53 0.06
537 35 0.04
538 19 0.02
539 21 0.03
540 5 0.01
541 10 0.01
542 11 0.01
543 8 0.01
544 10 0.01
545 7 0.01
546 14 0.02
547 15 0.02
548 23 0.03
549 5 0.01
550 8 0.01
551 18 0.02
552 10 0.01
553 36 0.04
554 7 0.01
555 15 0.02
557 15 0.02
558 3 0.00
559 25 0.03
560 9 0.01
562 1 0.00
563 6 0.01
564 27 0.03
565 12 0.01
566 25 0.03
567 13 0.02
568 7 0.01
569 14 0.02
570 5 0.01
571 4 0.00
572 3 0.00
574 3 0.00
575 8 0.01
576 14 0.02
577 1 0.00
578 15 0.02
579 35 0.04
580 39 0.05
581 3 0.00
582 19 0.02
583 29 0.04
584 7 0.01
585 10 0.01
586 43 0.05
587 11 0.01
ACGTcount: A:0.66, C:0.05, G:0.13, T:0.17
Consensus pattern (534 bp):
AAAAAGACAAAATGAATAAAAAATTCAAATATAAAATGAAAAAACTATTGGTTAAGAATGTACAA
AGAAAAATAAAAAAAATATAACAAGAAGAGGAAAAAGATATAAAATATGAAAGATGAAAAATAAA
ATAAAAGAAAGTGCACAAAAAAAGAAGTTTGAGGTTTTAAAACTATAAAGAAGAAATAAAAAAAG
GTGTGAACAAAAAGATTTAAGAAAAGAAAAAGAAAATACAAAATATATAAAATAAAATTTGAGAA
AAAGAAGAAAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAAGAAAAAGAAAAATTTAT
AGAAAATTTTAAAACAAAGAAAAAACTGAACAAAAAAGAATGAAAGCATATAAAAAAAAGTAAAA
AAAGAAGAAAAATTTGGAAGGAGAAAAAGTTAATGAAAAAATATAAAAATGCAATAGAAAATAAC
CAAGAATGATAAAAGAAAAAAAGATAGAAAAATAAAAAATTCAAAAACTTTATAAAAATTTATGA
AATTATAAATAAAG
Found at i:26696 original size:15 final size:15
Alignment explanation
Indices: 26678--26737 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 15
26668 ATGAAATTAT
26678 AAATAAAGAAAAAGA
1 AAATAAAGAAAAAGA
*
26693 AAATAAA-AAATAAAA
1 AAATAAAGAAA-AAGA
26708 AAAT-AAGAAAAA-A
1 AAATAAAGAAAAAGA
* *
26721 AAGTAAAG-CAAAGA
1 AAATAAAGAAAAAGA
26735 AAA
1 AAA
26738 AAGATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
13 7 0.19
14 13 0.35
15 17 0.46
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (15 bp):
AAATAAAGAAAAAGA
Found at i:26752 original size:22 final size:21
Alignment explanation
Indices: 26678--26803 Score: 93
Period size: 22 Copynumber: 6.0 Consensus size: 21
26668 ATGAAATTAT
26678 AAATAAAG-AAAAAGAAAATAAA
1 AAATAAAGCAAAAA-AAAA-AAA
26700 AAATAAA--AAAATAAGAAAAAA
1 AAATAAAGCAAAA-AA-AAAAAA
* * *
26721 AAGTAAAGCAAAGAAAAAAGAT
1 AAATAAAGCAAA-AAAAAAAAA
26743 AAATAAAGCACAAAAAAAAAAA
1 AAATAAAGCA-AAAAAAAAAAA
* *
26765 AAATAAA-CAAAAAATATAAA
1 AAATAAAGCAAAAAAAAAAAA
* *
26785 AAGT-AAG-AAAATAAAAAAA
1 AAATAAAGCAAAAAAAAAAAA
26804 GGACAAAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 17
0.75 0.11 0.15
Matches are distributed among these distances:
19 11 0.13
20 12 0.14
21 16 0.19
22 38 0.45
23 7 0.08
24 1 0.01
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (21 bp):
AAATAAAGCAAAAAAAAAAAA
Found at i:26803 original size:65 final size:65
Alignment explanation
Indices: 26676--26804 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 65
26666 TTATGAAATT
* *
26676 ATAAATAAAGAAAAAGAAAATAAAAAATAAAAAAATAAGAAAAAAAAGTAAAGCAAAGAAAAAAG
1 ATAAATAAAGAAAAAGAAAATAAAAAATAAAAAAATAAGAAAAAAAAGTAAAGAAAAAAAAAAAG
* *
26741 ATAAATAAAGCACAAAA-AAAA-AAAAAATAAACAAAA-AA-TATAAAAAGT-AAGAAAATAAAA
1 ATAAATAAAG-A-AAAAGAAAATAAAAAATAAA-AAAATAAGAAAAAAAAGTAAAGAAAA-AAAA
26801 AAAG
62 AAAG
26805 GACAAAAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
63 6 0.11
64 15 0.27
65 22 0.39
66 9 0.16
67 4 0.07
ACGTcount: A:0.78, C:0.03, G:0.09, T:0.10
Consensus pattern (65 bp):
ATAAATAAAGAAAAAGAAAATAAAAAATAAAAAAATAAGAAAAAAAAGTAAAGAAAAAAAAAAAG
Found at i:26810 original size:54 final size:56
Alignment explanation
Indices: 26697--26812 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 56
26687 AAAAGAAAAT
* *
26697 AAAAAATAAAAAAATAAGAAAAAAAAGTAAAGCAAAGAAAAAAGATAAATAAAGCAC
1 AAAAAAAAAAAAAATAAGAAAAAAAAGTAAA-CAAAGAAAAAAGATAAAAAAAGCAC
* * *
26754 AAAAAAAAAAAAAATAA-ACAAAAAA-TATAA-AAAGTAAGAAA-ATAAAAAAAGGAC
1 AAAAAAAAAAAAAATAAGAAAAAAAAGTA-AACAAAG-AAAAAAGATAAAAAAAGCAC
26808 AAAAA
1 AAAAA
26813 TTGAATAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 20 0.38
55 7 0.13
56 9 0.17
57 16 0.31
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (56 bp):
AAAAAAAAAAAAAATAAGAAAAAAAAGTAAACAAAGAAAAAAGATAAAAAAAGCAC
Found at i:27203 original size:17 final size:18
Alignment explanation
Indices: 27171--27216 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
27161 ATTACAAAGT
27171 AGAAAAAAA-AAA--AAG
1 AGAAAAAAATAAATTAAG
27186 A-AAAAAAATAAATTAAG
1 AGAAAAAAATAAATTAAG
*
27203 AGAAAAAATTAAAT
1 AGAAAAAAATAAAT
27217 AAAATACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 7 0.27
15 4 0.15
17 4 0.15
18 11 0.42
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (18 bp):
AGAAAAAAATAAATTAAG
Found at i:27503 original size:21 final size:21
Alignment explanation
Indices: 27479--27518 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
27469 AGATTTAAGA
27479 AAAAAATA-AAAATGAAAATAC
1 AAAAAATATAAAAT-AAAATAC
*
27500 AAAATATATAAAATAAAAT
1 AAAAAATATAAAATAAAAT
27519 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
AAAAAATATAAAATAAAATAC
Found at i:27831 original size:18 final size:19
Alignment explanation
Indices: 27787--27844 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
27777 AAAATTTATG
*
27787 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
27807 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
27824 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
27844 A
1 A
27845 GATAATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
17 9 0.29
18 8 0.26
19 2 0.06
20 12 0.39
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:28157 original size:18 final size:19
Alignment explanation
Indices: 28136--28177 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
28126 TAAAACGACG
*
28136 AAAAATTAAA-ATAAGAAA
1 AAAAATTAAACAAAAGAAA
28154 AAAAATTAAAGCAAAAGAAA
1 AAAAATTAAA-CAAAAGAAA
28174 AAAA
1 AAAA
28178 GATAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAAATTAAACAAAAGAAA
Found at i:29288 original size:22 final size:22
Alignment explanation
Indices: 29201--29289 Score: 67
Period size: 22 Copynumber: 4.0 Consensus size: 22
29191 ATAAAGAAAG
**
29201 AAAA-AAAAATAAAATAAAATAA
1 AAAACAAAAATAAAGCAAAA-AA
* *
29223 GAAA-AAAAGTAAAGCAAAAGAA
1 AAAACAAAAATAAAGCAAAA-AA
* * *
29245 AAAAGATAAATAAAGCACAAAA
1 AAAACAAAAATAAAGCAAAAAA
29267 AAAACAAAAATACAA-CAAAAAA
1 AAAACAAAAATA-AAGCAAAAAA
29289 A
1 A
29290 TAAAAAGTAA
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 39 0.74
23 14 0.26
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.08
Consensus pattern (22 bp):
AAAACAAAAATAAAGCAAAAAA
Found at i:29711 original size:22 final size:22
Alignment explanation
Indices: 29678--29728 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
29668 TACAAAGTAG
29678 AAAA-AAA-TAAGA-AAATAAAA
1 AAAATAAATTAAGAGAAA-AAAA
*
29698 AAAATAAATTAAGAGAAAAAAT
1 AAAATAAATTAAGAGAAAAAAA
*
29720 TAAATAAAT
1 AAAATAAAT
29729 ACCAAAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 3 0.12
22 16 0.62
23 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (22 bp):
AAAATAAATTAAGAGAAAAAAA
Found at i:29718 original size:26 final size:25
Alignment explanation
Indices: 29689--29751 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 25
29679 AAAAAATAAG
*
29689 AAAATAAAAAAAATA-AATTAAGAGAA
1 AAAATAAAAAAAATACAA-AAAG-GAA
* *
29715 AAAATTAAATAAATACCAAAAAGGAA
1 AAAATAAAAAAAATA-CAAAAAGGAA
29741 AAAATAAAAAA
1 AAAATAAAAAA
29752 TTAGCGAATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
26 25 0.83
27 3 0.10
28 2 0.07
ACGTcount: A:0.76, C:0.03, G:0.06, T:0.14
Consensus pattern (25 bp):
AAAATAAAAAAAATACAAAAAGGAA
Found at i:30009 original size:22 final size:21
Alignment explanation
Indices: 29984--30024 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
29974 AGATTTAAGA
29984 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
30006 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
30025 TTGAGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATAC
Found at i:30171 original size:13 final size:12
Alignment explanation
Indices: 30153--30182 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
30143 AAAGCACATA
30153 AAAAAAAAGAAG
1 AAAAAAAAGAAG
30165 TAAAAAAAAGAAG
1 -AAAAAAAAGAAG
30178 AAAAA
1 AAAAA
30183 TTATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:30663 original size:28 final size:27
Alignment explanation
Indices: 30608--30663 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
30598 AGGAAATTTG
*
30608 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
30635 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
30663 T
1 T
30664 TTAAAACAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 5 0.20
28 12 0.48
29 8 0.32
ACGTcount: A:0.66, C:0.02, G:0.16, T:0.16
Consensus pattern (27 bp):
TGGAAAAAAAAGAAAAAACAAAAGATT
Found at i:30686 original size:17 final size:17
Alignment explanation
Indices: 30664--30714 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
30654 ATAAAAATTT
*
30664 TTAAAACAACGAAAAAA
1 TTAAAACAAAGAAAAAA
*
30681 TTAAAA-AAAGTAAAAA
1 TTAAAACAAAGAAAAAA
* *
30697 TGAAAACATATGAAAAAA
1 TTAAAACA-AAGAAAAAA
30715 AAAAAGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 13 0.48
17 7 0.26
18 7 0.26
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.16
Consensus pattern (17 bp):
TTAAAACAAAGAAAAAA
Found at i:30818 original size:23 final size:24
Alignment explanation
Indices: 30791--30843 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
30781 TTAGGGAATC
*
30791 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
30814 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
30837 AAAAAAT
1 AAAAAAT
30844 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 8 0.32
23 11 0.44
24 6 0.24
ACGTcount: A:0.77, C:0.02, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAAATAAACAAAGGAAAAAAAT
Found at i:31037 original size:32 final size:32
Alignment explanation
Indices: 30978--31056 Score: 88
Period size: 32 Copynumber: 2.4 Consensus size: 32
30968 AAAGATTTAA
* *
30978 GAAAAAAATAACAAATGAAAATACAAAATATAT
1 GAAAAAAATAAAAAATGAAAAGACAAAA-ATAT
* *
31011 -AAAAAAATAAAAAATGAAGAGGCAAAAATAT
1 GAAAAAAATAAAAAATGAAAAGACAAAAATAT
*
31042 GAAATAAAACAAAAA
1 GAAA-AAAATAAAAA
31057 GAAAAAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
31 4 0.10
32 26 0.67
33 9 0.23
ACGTcount: A:0.72, C:0.05, G:0.09, T:0.14
Consensus pattern (32 bp):
GAAAAAAATAAAAAATGAAAAGACAAAAATAT
Done.