Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167962.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_221, 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: 48525
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Found at i:220 original size:13 final size:12
Alignment explanation
Indices: 202--261 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
192 ATGAAATTAT
202 AAATAAAGAAAGA
1 AAATAAA-AAAGA
215 AAATAAAATAAGA
1 AAATAAAA-AAGA
228 AAA-AAATTAAAGCA
1 AAATAAA--AAAG-A
*
242 AAAGAAAAAAGA
1 AAATAAAAAAGA
254 TAAATAAA
1 -AAATAAA
262 GCACAAAAAA
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:227 original size:17 final size:17
Alignment explanation
Indices: 202--262 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
192 ATGAAATTAT
202 AAATAAAGAAAGAAAATA
1 AAATAAAGAAA-AAAATA
220 AAAT-AAGAAAAAAATTA
1 AAATAAAGAAAAAAA-TA
237 AAGCA-AAAGAAAAAAGAT-
1 AA--ATAAAGAAAAAA-ATA
255 AAATAAAG
1 AAATAAAG
263 CACAAAAAAA
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:496 original size:18 final size:18
Alignment explanation
Indices: 469--503 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
459 AGGAAATTTA
469 TGGAAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAAGAAT
* *
487 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAAAAGAA
504 AAATAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
TGGAAAAAAAAAAAGAAT
Found at i:560 original size:18 final size:18
Alignment explanation
Indices: 517--562 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
507 TAAAATTTTA
*
517 AAAAG-AAAAATTAAAAT
1 AAAAGAAAAAATTAAAAC
*
534 AAGAA-AAAAAATTAAAGC
1 AA-AAGAAAAAATTAAAAC
552 AAAAGAAAAAA
1 AAAAGAAAAAA
563 GATAGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (18 bp):
AAAAGAAAAAATTAAAAC
Found at i:1117 original size:57 final size:56
Alignment explanation
Indices: 982--1118 Score: 134
Period size: 57 Copynumber: 2.4 Consensus size: 56
972 AAAAAGTTAT
* *
982 TAAAAATTTACAAAGTAAAAAAAAATTAGGGAATCAAAAAATAAAAGGAAAAAATAAAA
1 TAAAAATTT-CAAA-T-ATAAAAAATTAGGGAATCAAAAAATAAAAAGAAAAAATAAAA
* * * * *
1041 TAACAAA-GTAAGAAAATAAAAAATTAGGGAATCAAAAAATATAAAAAGACAAAAT-GAA
1 TAA-AAATTTCA-AATATAAAAAATTAGGGAATC-AAAAA-ATAAAAAGAAAAAATAAAA
1099 TAAAAATTTCAAATATAAAA
1 TAAAAATTTCAAATATAAAA
1119 GAAAGTGCAC
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
57 28 0.44
58 13 0.21
59 19 0.30
60 3 0.05
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.18
Consensus pattern (56 bp):
TAAAAATTTCAAATATAAAAAATTAGGGAATCAAAAAATAAAAAGAAAAAATAAAA
Found at i:1277 original size:18 final size:19
Alignment explanation
Indices: 1246--1283 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1236 ATATTTGAGA
*
1246 AAAAAATGAGAAAAAGAAG
1 AAAAAATGAAAAAAAGAAG
*
1265 AAAAAAT-AAAAAATGAAG
1 AAAAAATGAAAAAAAGAAG
1283 A
1 A
1284 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:2029 original size:22 final size:21
Alignment explanation
Indices: 2004--2044 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1994 AAGATTTAAG
2004 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
2026 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
2045 TTGAGAAAAG
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:2106 original size:54 final size:54
Alignment explanation
Indices: 2001--2107 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
1991 AAAAAGATTT
* ***
2001 AAGAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAG
1 AAGAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAG
*
2055 AAGAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAATAAAAAGAAAA
1 AAGAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAATAAAAT-AAAAGAAAA
2108 AAATTTATAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 9 0.20
54 37 0.80
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (54 bp):
AAGAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAG
Found at i:2353 original size:18 final size:19
Alignment explanation
Indices: 2309--2366 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
2299 AAAATTTATG
*
2309 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
2329 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
2346 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
2366 A
1 A
2367 GATAAATAAA
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:2673 original size:19 final size:17
Alignment explanation
Indices: 2637--2676 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
2627 TAAAACGACG
*
2637 AAAAATTAAAATAAGAA
1 AAAAATTAAAAAAAGAA
2654 AAAAATTAAAGCAAAAGAA
1 AAAAATTAAA--AAAAGAA
2673 AAAA
1 AAAA
2677 GATAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAATTAAAAAAAGAA
Found at i:2708 original size:25 final size:23
Alignment explanation
Indices: 2654--2709 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
2644 AAAATAAGAA
* *
2654 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAAAAAAAAC
*
2678 ATAAATAAAGCATGAAAAAAAAAAC
1 AAAAATAAAGCA--AAAAAAAAAAC
2703 AAAAATA
1 AAAAATA
2710 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 15 0.58
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAATAAAGCAAAAAAAAAAAC
Found at i:3149 original size:24 final size:24
Alignment explanation
Indices: 3119--3180 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
3109 GTAGAAAAAA
*
3119 AAGAAAATAAAAAATAAATTAAGAG-
1 AAGAAAATAAAAAATAAA-CAA-AGT
3144 AA-AAAAT-AAAAATAAACAAAGT
1 AAGAAAATAAAAAATAAACAAAGT
3166 AAGAAAATAAAAAAT
1 AAGAAAATAAAAAAT
3181 TAGCGAATCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
21 2 0.06
22 4 0.12
23 14 0.42
24 11 0.33
25 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.15
Consensus pattern (24 bp):
AAGAAAATAAAAAATAAACAAAGT
Found at i:4099 original size:28 final size:27
Alignment explanation
Indices: 4044--4099 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
4034 AGGAAATTTG
*
4044 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
4071 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
4099 T
1 T
4100 TTAAAACAGC
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:4523 original size:22 final size:21
Alignment explanation
Indices: 4498--4538 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4488 AGATTTAAGA
4498 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
4520 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
4539 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:5313 original size:23 final size:24
Alignment explanation
Indices: 5287--5339 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
5277 TTAGGGAATC
*
5287 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
5310 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
5333 AAAAAAT
1 AAAAAAT
5340 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:5557 original size:19 final size:20
Alignment explanation
Indices: 5524--5563 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5514 ATATTTGAGA
*
5524 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
5544 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
5563 A
1 A
5564 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:6313 original size:22 final size:21
Alignment explanation
Indices: 6288--6328 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6278 AGATTTAAGA
6288 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
6310 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
6329 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:6391 original size:55 final size:55
Alignment explanation
Indices: 6288--6393 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
6278 AGATTTAAGA
* ***
6288 AAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAGAAG
1 AAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAAGAAG
*
6343 AAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAATAAAAAGAAAAA
1 AAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAATAAAAT-AAAAGAAAAA
6394 AATTTATAGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
54 9 0.20
55 35 0.80
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (55 bp):
AAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAAGAAG
Found at i:6880 original size:17 final size:18
Alignment explanation
Indices: 6854--6887 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6844 AGGAAATTTA
6854 TGGAAAAAAAAA-AGAAT
1 TGGAAAAAAAAATAGAAT
*
6871 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAATAGAA
6888 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
TGGAAAAAAAAATAGAAT
Found at i:6882 original size:18 final size:17
Alignment explanation
Indices: 6854--6887 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6844 AGGAAATTTA
6854 TGGAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAGAAT
*
6871 TGGAATAAAAAATAGAA
1 TGGAA-AAAAAAAAGAA
6888 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (17 bp):
TGGAAAAAAAAAAGAAT
Found at i:6981 original size:24 final size:23
Alignment explanation
Indices: 6928--6982 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
6918 AAATAAGAAA
*
6928 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAGAAAAAAC
*
6952 ATAAATAAAGCATGAAA-AAAAAAC
1 AAAAATAAAGCA--AAAGAAAAAAC
6976 AAAAATA
1 AAAAATA
6983 CAAAAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 7 0.27
24 16 0.62
25 3 0.12
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAATAAAGCAAAAGAAAAAAC
Found at i:7480 original size:22 final size:22
Alignment explanation
Indices: 7427--7480 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
7417 AGAAAAAATT
7427 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
7450 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
7473 AAATAAAA
1 AAATAAAA
7481 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:8411 original size:28 final size:27
Alignment explanation
Indices: 8356--8411 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
8346 AGGAAATTTG
*
8356 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
8383 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
8411 T
1 T
8412 TTAAAACAGC
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:8835 original size:22 final size:21
Alignment explanation
Indices: 8810--8850 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
8800 AAGATTTAAG
8810 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
8832 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
8851 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:9871 original size:19 final size:20
Alignment explanation
Indices: 9838--9877 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9828 ATATTTGAGA
*
9838 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
9858 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
9877 A
1 A
9878 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:10627 original size:22 final size:21
Alignment explanation
Indices: 10602--10642 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
10592 AGATTTAAGA
10602 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
10624 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
10643 TTGAGAAAAG
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:10705 original size:55 final size:55
Alignment explanation
Indices: 10598--10706 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
10588 AAAAAGATTT
* ***
10598 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAG
*
10653 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAA-AAAATAAAAAGAAAA
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAATAAAAT-AAAAGAAAA
10707 AAATTTATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 9 0.19
55 38 0.81
ACGTcount: A:0.72, C:0.02, G:0.12, T:0.14
Consensus pattern (55 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAATAAAATAAAAGAAAAG
Found at i:10953 original size:18 final size:19
Alignment explanation
Indices: 10909--10987 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
10899 AAAATTTATG
*
10909 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
10929 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
10946 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
10966 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
10985 AAA
1 AAA
10988 CAAAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:11211 original size:17 final size:18
Alignment explanation
Indices: 11185--11218 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11175 AGGAAATTTA
11185 TGGAAAAAAAAA-AGAAT
1 TGGAAAAAAAAATAGAAT
*
11202 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAATAGAA
11219 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
TGGAAAAAAAAATAGAAT
Found at i:11213 original size:18 final size:17
Alignment explanation
Indices: 11185--11218 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
11175 AGGAAATTTA
11185 TGGAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAGAAT
*
11202 TGGAATAAAAAATAGAA
1 TGGAA-AAAAAAAAGAA
11219 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (17 bp):
TGGAAAAAAAAAAGAAT
Found at i:11813 original size:22 final size:22
Alignment explanation
Indices: 11760--11813 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
11750 AGAAAAAATT
11760 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
11783 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
11806 AAATAAAA
1 AAATAAAA
11814 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:13145 original size:22 final size:21
Alignment explanation
Indices: 13120--13160 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13110 AAGATTTAAG
13120 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
13142 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
13161 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:13425 original size:13 final size:12
Alignment explanation
Indices: 13407--13466 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
13397 ATGAAATTAT
13407 AAATAAAGAAAGA
1 AAATAAA-AAAGA
13420 AAATAAAATAAGA
1 AAATAAAA-AAGA
13433 AAA-AAATTAAAGCA
1 AAATAAA--AAAG-A
*
13447 AAAGAAAAAAGA
1 AAATAAAAAAGA
13459 TAAATAAA
1 -AAATAAA
13467 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:13432 original size:17 final size:17
Alignment explanation
Indices: 13407--13467 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
13397 ATGAAATTAT
13407 AAATAAAGAAAGAAAATA
1 AAATAAAGAAA-AAAATA
13425 AAAT-AAGAAAAAAATTA
1 AAATAAAGAAAAAAA-TA
13442 AAGCA-AAAGAAAAAAGAT-
1 AA--ATAAAGAAAAAA-ATA
13460 AAATAAAG
1 AAATAAAG
13468 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:13779 original size:28 final size:27
Alignment explanation
Indices: 13724--13779 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
13714 AGGAAATTTG
*
13724 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
13751 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
13779 T
1 T
13780 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:13915 original size:24 final size:24
Alignment explanation
Indices: 13888--13960 Score: 76
Period size: 24 Copynumber: 3.0 Consensus size: 24
13878 TTTACAAAGT
13888 AAAAAAAAATTAGGGAATCAAAAA
1 AAAAAAAAATTAGGGAATCAAAAA
* *** *
13912 AAAAAAAAATAAACAAAGT-AAGAA
1 AAAAAAAAATTAGGGAA-TCAAAAA
*
13936 AATAAAAAATTAGGGAATCAAAAA
1 AAAAAAAAATTAGGGAATCAAAAA
13960 A
1 A
13961 TATAAAAAGA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
23 1 0.03
24 34 0.94
25 1 0.03
ACGTcount: A:0.73, C:0.04, G:0.11, T:0.12
Consensus pattern (24 bp):
AAAAAAAAATTAGGGAATCAAAAA
Found at i:13967 original size:24 final size:23
Alignment explanation
Indices: 13891--13968 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
13881 ACAAAGTAAA
*
13891 AAAAAATTAGGGAATCAAAAAAAA
1 AAAAAATTAGGGAATC-AAAAAAT
* ***
13915 AAAAAATAAACAAAGT-AAGAAAAT
1 AAAAAATTAGGGAA-TCAA-AAAAT
13939 AAAAAATTAGGGAATCAAAAAAT
1 AAAAAATTAGGGAATCAAAAAAT
13962 ATAAAAA
1 A-AAAAA
13969 GACAAAATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
23 9 0.22
24 31 0.76
25 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.10, T:0.14
Consensus pattern (23 bp):
AAAAAATTAGGGAATCAAAAAAT
Found at i:14152 original size:20 final size:19
Alignment explanation
Indices: 14127--14168 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
14117 AAAATATTTG
14127 AGAAAAAAATGAGAAAAA-GA
1 AGAAAAAAAT-A-AAAAATGA
14147 AGAAAAAAATAAAAAATGA
1 AGAAAAAAATAAAAAATGA
14166 AGA
1 AGA
14169 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:14162 original size:19 final size:20
Alignment explanation
Indices: 14127--14168 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
14117 AAAATATTTG
*
14127 AGAAAAAAATGAGAAAAAGA
1 AGAAAAAAATGAAAAAAAGA
*
14147 AGAAAAAAAT-AAAAAATGA
1 AGAAAAAAATGAAAAAAAGA
14166 AGA
1 AGA
14169 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:14918 original size:22 final size:21
Alignment explanation
Indices: 14893--14933 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
14883 AGATTTAAGA
14893 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
14915 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
14934 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:14997 original size:56 final size:55
Alignment explanation
Indices: 14893--14999 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
14883 AGATTTAAGA
* * ***
14893 AAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAGAAG
1 AAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAGAAG
*
14948 AAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAATAAAAAGAAAAA
1 AAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAAAAAAAT-AAAAGAAAAA
15000 AATTTATAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 4 0.09
55 33 0.75
56 7 0.16
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.14
Consensus pattern (55 bp):
AAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAGAAG
Found at i:15244 original size:18 final size:19
Alignment explanation
Indices: 15200--15278 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
15190 AAAATTTATG
*
15200 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
15220 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
15237 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
15257 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
15276 AAA
1 AAA
15279 CAAAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:15502 original size:17 final size:18
Alignment explanation
Indices: 15476--15509 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15466 AGGAAATTTA
15476 TGGAAAAAAAAA-AGAAT
1 TGGAAAAAAAAATAGAAT
*
15493 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAATAGAA
15510 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (18 bp):
TGGAAAAAAAAATAGAAT
Found at i:15504 original size:18 final size:17
Alignment explanation
Indices: 15476--15509 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15466 AGGAAATTTA
15476 TGGAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAGAAT
*
15493 TGGAATAAAAAATAGAA
1 TGGAA-AAAAAAAAGAA
15510 AAATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (17 bp):
TGGAAAAAAAAAAGAAT
Found at i:15604 original size:25 final size:23
Alignment explanation
Indices: 15550--15615 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
15540 AAATAAGAAA
* *
15550 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAAAAAAAAC
*
15574 ATAAATAAAGCATGAAAAAAAAAAC
1 AAAAATAAAGCA--AAAAAAAAAAC
15599 AAAAATACAA-CAAAAAA
1 AAAAATA-AAGCAAAAAA
15616 TTATAAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 12 0.34
24 4 0.11
25 17 0.49
26 2 0.06
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.09
Consensus pattern (23 bp):
AAAAATAAAGCAAAAAAAAAAAC
Found at i:16102 original size:22 final size:22
Alignment explanation
Indices: 16049--16102 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
16039 AGAAAAAATT
16049 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
16072 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
16095 AAATAAAA
1 AAATAAAA
16103 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:17027 original size:28 final size:27
Alignment explanation
Indices: 16972--17027 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
16962 AGGAAATTTG
*
16972 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
16999 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
17027 T
1 T
17028 TTAAAACAGC
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:18081 original size:28 final size:27
Alignment explanation
Indices: 18026--18081 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
18016 AGGAAATTTG
*
18026 TGGAAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAGATT
*
18053 TGGAATAAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAAGA-AAAAACAAAAGATT
18081 T
1 T
18082 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:18460 original size:20 final size:19
Alignment explanation
Indices: 18435--18476 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
18425 AAAATATTTG
18435 AGAAAAAAATGAGAAAAA-GA
1 AGAAAAAAAT-A-AAAAATGA
18455 AGAAAAAAATAAAAAATGA
1 AGAAAAAAATAAAAAATGA
18474 AGA
1 AGA
18477 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:18470 original size:19 final size:20
Alignment explanation
Indices: 18435--18476 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
18425 AAAATATTTG
*
18435 AGAAAAAAATGAGAAAAAGA
1 AGAAAAAAATGAAAAAAAGA
*
18455 AGAAAAAAAT-AAAAAATGA
1 AGAAAAAAATGAAAAAAAGA
18474 AGA
1 AGA
18477 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:19204 original size:22 final size:21
Alignment explanation
Indices: 19179--19219 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19169 AAGATTTAAG
19179 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
19201 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
19220 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:19253 original size:22 final size:24
Alignment explanation
Indices: 19228--19271 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
19218 ATTTGAGAAA
19228 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
19250 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
19272 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:19284 original size:57 final size:56
Alignment explanation
Indices: 19179--19286 Score: 128
Period size: 56 Copynumber: 1.9 Consensus size: 56
19169 AAGATTTAAG
* * ***
19179 AAAAAATAAAAAATGAAAATACAAAATATATAAAATAAAATTTGAGAAAAAGAAGA
1 AAAAAATAAAAAATGAAAAGACAAAATATATAAAAAAAAATAAAAGAAAAAGAAGA
* *
19235 AAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAATAAAAAGAAAAA
1 AAAAAATAAAAAATGAAAAGACAAAATATAT-AAAAAAAAAT-AAAAGAAAAA
19287 AATTTATAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
55 4 0.09
56 32 0.74
57 7 0.16
ACGTcount: A:0.74, C:0.02, G:0.10, T:0.14
Consensus pattern (56 bp):
AAAAAATAAAAAATGAAAAGACAAAATATATAAAAAAAAATAAAAGAAAAAGAAGA
Found at i:19534 original size:18 final size:19
Alignment explanation
Indices: 19490--19568 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
19480 AAAATTTATG
*
19490 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
19510 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
19527 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
19547 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
19566 AAA
1 AAA
19569 CAAAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:19893 original size:25 final size:23
Alignment explanation
Indices: 19839--19904 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
19829 AAATAAGAAA
* *
19839 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAAAAAAAAC
*
19863 ATAAATAAAGCATGAAAAAAAAAAC
1 AAAAATAAAGCA--AAAAAAAAAAC
19888 AAAAATACAA-CAAAAAA
1 AAAAATA-AAGCAAAAAA
19905 TTATAAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 12 0.34
24 4 0.11
25 17 0.49
26 2 0.06
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.09
Consensus pattern (23 bp):
AAAAATAAAGCAAAAAAAAAAAC
Found at i:20525 original size:23 final size:24
Alignment explanation
Indices: 20482--20534 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
20472 AAGAAAATAA
20482 AAAAAATATAACAAGAGGAAAAAT
1 AAAAAATATAACAAGAGGAAAAAT
* * *
20506 ATAAAATATGA-AAGATGAAAAAT
1 AAAAAATATAACAAGAGGAAAAAT
20529 AAAAAA
1 AAAAAA
20535 AGAAAGTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 16 0.64
24 9 0.36
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (24 bp):
AAAAAATATAACAAGAGGAAAAAT
Found at i:20539 original size:21 final size:23
Alignment explanation
Indices: 20494--20540 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
20484 AAAATATAAC
*
20494 AAGAGGAAAAATATAAAATATGA
1 AAGAGGAAAAATATAAAATAAGA
*
20517 AAGATGAAAAATA-AAAA-AAGA
1 AAGAGGAAAAATATAAAATAAGA
20538 AAG
1 AAG
20541 TGCACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 4 0.18
23 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (23 bp):
AAGAGGAAAAATATAAAATAAGA
Found at i:21696 original size:22 final size:21
Alignment explanation
Indices: 21671--21711 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21661 AGATTTAAGA
21671 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
21693 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
21712 TTGAGAAAGA
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:22486 original size:23 final size:24
Alignment explanation
Indices: 22460--22512 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
22450 TTAGGGAATC
*
22460 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
22483 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
22506 AAAAAAT
1 AAAAAAT
22513 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:22728 original size:19 final size:20
Alignment explanation
Indices: 22695--22734 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
22685 ATATTTGAGA
*
22695 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
22715 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
22734 A
1 A
22735 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:23386 original size:702 final size:689
Alignment explanation
Indices: 22065--23343 Score: 1580
Period size: 702 Copynumber: 1.8 Consensus size: 689
22055 TAAGAAAATG
22065 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
1 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
* *
22130 AGTTTAAAAAATACAAAAAAAAAAAAACATATAAGACCAAACAATCTAAAAAGTCTGAAAAAAAT
66 AGTTTAAAAAATACAAAAAAAAAAAAACATATAAGACCAAACAATATAAAAAGTCAGAAAAAAAT
*
22195 TAAAAAAGAGAAAAGTTAATGCAAAATAAAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAAG
131 TAAAAAAGAAAAAAGTTAATGCAAAAT--AAAAAAAAAGTATGAGAATTTAAAAACGCAAATAAG
22260 AAATGAAAGGAAATTTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAAA
194 AAATGAAAGGAAATTTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAAA
22325 TAAAAATTTTTAAAACAACGAAAAAATTAAAAAAAGTAAAAATGAAAACATATGGAAAAAAAAAA
259 TAAAAATTTTTAAAACAACGAAAAAATT------AG--AAAATG---ACATATGG-AAAAAAAAA
*
22390 GCAAAAAGAAGGAAAATTGCAAAGGGAAAAAGTTATTAAAAATTTACAAAGTAAAAAAAATTAGG
312 GCAAAAAGAAGGAAAATTGCAAAGGGAAAAAGTTATTAAAAAATTACAAAGTAAAAAAAATTAGG
* * * *
22455 GAATCAAAAAATATAAAAGGAAAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGGGAA
377 AAATAAAAAAATACAAAAGG-AAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGCGAA
*
22520 TCAAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATATAAAAAGAAAGTGCACAAAAAAA
441 GCAAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATAT---AAGAAAGTGCACAAAAAAA
** * * * * * * ** * * *
22585 GAAGTTTGAGGTTTTAAAATTACAAAGAAGAAATAAAAAAAGGTGTGAACAAAAAGATTTAAGAA
503 GAAGTTTGAGAATGTAAAATGAAAAACAAAAAAAAAAAAAAAATGAGAACAAAAAGATATAAAAA
* * *
22650 AAAATAACAAATGAAATATAAAATATATAAAAAAAATATTTGAGAAAAAAAATGAGAAAAAGAAG
568 AAAATAACAAATAAAATATAAAAAATACAAAAAAAATATTTGAGAAAAAAAATGAGAAAAAGAAG
22715 AAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAACAAAAGAAAAAAATACA
633 AAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAACAAAAGAAAAAAATACA
22772 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATG-AAAAAAAATT
1 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
* * * * *
22836 AGTTTAAAAAATACAAAAAAATTGAAAAACATATAAGTCCTAACAATAT-AAAATTCAGACAAAA
66 AGTTTAAAAAATACAAAAAAA--AAAAAACATATAAGACCAAACAATATAAAAAGTCAGAAAAAA
*
22900 ATT-AAAAAGAAAAAAGTTAATGCAAAAT-AAAAAAAAGTATGAGAA-TTAAAAATGCAAATAAG
129 ATTAAAAAAGAAAAAAGTTAATGCAAAATAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAAG
22962 AAATGAAAGGAAATTTGTGGAAAAAAAAAGAGAAGCAAGAAAAGACAAAAGATTTGGAATAAAAA
194 AAATGAAAGGAAATTTGTGG-----AAAA-A-AA--AAGAAAAGACAAAAGATTTGGAATAAAAA
* *
23027 ATAGAAAAAT-AAAATTTTTAAAACAACGAAAAAA-T-G-AAA-G-CATAT-G-AAAAAAAAGTA
250 AGAGAAAAATAAAAATTTTTAAAACAACGAAAAAATTAGAAAATGACATATGGAAAAAAAAAGCA
**
23084 AAAAGAAGG-AAATTGTGAA-GGAAAAAGTTATTAAAAAATTACAAAGTTGAAAAAAAATAAATT
315 AAAAGAAGGAAAATTGCAAAGGGAAAAAGTTATTAAAAAATTACAAAG-T----AAAAA-AAATT
23147 AAGAGAAAAATTAAATAAAATACCCAGAAAGG-AAAAATAAAAATAAACAAAGTAAGAAAATAAA
374 -AG-G--AAA-TAAA-AAAATA--CA-AAAGGAAAAAATAAAAATAAACAAAGTAAGAAAATAAA
*
23211 AAATTAGCGAAGCAAAAAAATATAAAAAGAC-AAATGAATAAAAATTTCAAATAT-A-AAA-TGG
430 AAATTAGCGAAGC-AAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATATAAGAAAGTGC
**** **
23272 A-AAAAACTTTTAGTTT-AGAATGTAGAAA-GAAAAACAAAAAAAAAAAAACAAAT-AGAGGAAA
494 ACAAAAA-AAGAAGTTTGAGAATGTA-AAATGAAAAACAAAAAAAAAAAAA-AAATGAGAACAAA
23333 AAGATATAAAA
556 AAGATATAAAA
23344 TATGAAAGAT
Statistics
Matches: 503, Mismatches: 39, Indels: 72
0.82 0.06 0.12
Matches are distributed among these distances:
689 26 0.05
690 9 0.02
691 19 0.04
693 1 0.00
694 10 0.02
695 44 0.09
696 15 0.03
697 4 0.01
698 2 0.00
699 5 0.01
700 3 0.01
701 6 0.01
702 103 0.20
703 35 0.07
704 5 0.01
706 55 0.11
707 73 0.15
708 23 0.05
709 3 0.01
710 24 0.05
711 38 0.08
ACGTcount: A:0.65, C:0.05, G:0.13, T:0.18
Consensus pattern (689 bp):
AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
AGTTTAAAAAATACAAAAAAAAAAAAACATATAAGACCAAACAATATAAAAAGTCAGAAAAAAAT
TAAAAAAGAAAAAAGTTAATGCAAAATAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAAGAA
ATGAAAGGAAATTTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAAATA
AAAATTTTTAAAACAACGAAAAAATTAGAAAATGACATATGGAAAAAAAAAGCAAAAAGAAGGAA
AATTGCAAAGGGAAAAAGTTATTAAAAAATTACAAAGTAAAAAAAATTAGGAAATAAAAAAATAC
AAAAGGAAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGCGAAGCAAAAAATATAAAA
AGACAAAATGAATAAAAATTTCAAATATAAGAAAGTGCACAAAAAAAGAAGTTTGAGAATGTAAA
ATGAAAAACAAAAAAAAAAAAAAAATGAGAACAAAAAGATATAAAAAAAAATAACAAATAAAATA
TAAAAAATACAAAAAAAATATTTGAGAAAAAAAATGAGAAAAAGAAGAAAAAAATAAAAAATGAA
GAGGCAAAAATATGAAATAAAACAAAAGAAAAAAATACA
Found at i:23476 original size:22 final size:21
Alignment explanation
Indices: 23451--23491 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
23441 AGATTTAAGA
23451 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
23473 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
23492 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:23525 original size:22 final size:24
Alignment explanation
Indices: 23500--23543 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
23490 ATTTGAGAAA
23500 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
23522 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
23544 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:23556 original size:57 final size:56
Alignment explanation
Indices: 23447--23558 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
23437 AAAAAGATTT
* * ***
23447 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
*
23503 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAATAAAAAGAAAAA
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAAAAAAAT-AAAAGAAAAA
23559 AATTTATAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 37 0.77
57 7 0.15
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (56 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
Found at i:23803 original size:18 final size:19
Alignment explanation
Indices: 23759--23837 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
23749 AAAATTTATG
*
23759 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
23779 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
23796 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
23816 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
23835 AAA
1 AAA
23838 ACAAAAATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:24129 original size:19 final size:17
Alignment explanation
Indices: 24093--24132 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 17
24083 AAAAACGACG
*
24093 AAAAATTAAAATAAGAA
1 AAAAATTAAAAAAAGAA
24110 AAAAATTAAAGCAAAAGAA
1 AAAAATTAAA--AAAAGAA
24129 AAAA
1 AAAA
24133 GATAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
19 10 0.50
ACGTcount: A:0.78, C:0.03, G:0.07, T:0.12
Consensus pattern (17 bp):
AAAAATTAAAAAAAGAA
Found at i:26003 original size:22 final size:22
Alignment explanation
Indices: 25978--26019 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25968 AGATTTAAGA
*
25978 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAATAAAAATAC
* *
26000 AAAATATATAAAATAAAAAT
1 AAAAAATAAAAAATAAAAAT
26020 TGAAGAAAAA
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:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAATAC
Found at i:26739 original size:23 final size:24
Alignment explanation
Indices: 26713--26765 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
26703 TTAGGGAATC
*
26713 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
26736 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
26759 AAAAAAT
1 AAAAAAT
26766 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:26981 original size:18 final size:19
Alignment explanation
Indices: 26945--26987 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26935 AAAATATTTG
* *
26945 AGAAAAAAAAATGAGAAAA
1 AGAAGAAAAAATGAAAAAA
26964 AGAAGAAAAAAT-AAAAAA
1 AGAAGAAAAAATGAAAAAA
*
26982 TGAAGA
1 AGAAGA
26988 GGCAAAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
AGAAGAAAAAATGAAAAAA
Found at i:27648 original size:711 final size:696
Alignment explanation
Indices: 26315--27603 Score: 1634
Period size: 711 Copynumber: 1.8 Consensus size: 696
26305 TAAGAAAATG
26315 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
1 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
* * *
26380 AGTTTAAAAAATACAAAAAATTAAAAAACATATAAGACCAAACAATCTAAAAAGTCTGACAAAAA
66 AGTTTAAAAAATAAAAAAAATTAAAAAACATATAAGACCAAACAATATAAAAAGTCAGACAAAAA
*
26445 ATTAAAAAAGAGAAAAGTTAATGCAAAATAAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAA
131 ATTAAAAAAGAAAAAAGTTAATGC-AAATAAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAA
26510 GAAATGAAAGGAAATTTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAA
195 GAAATGAAAGGAAA-TTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAA
26575 ATAAAAATTTTTAAAACAACGAAAAAATTAAAAAAAGTAAAAATGAAAACATATGGAAAAAAAAA
259 ATAAAAATTTTTAAAACAACGAAAAAATT------AG--AAAATG---ACATATGG-AAAAAAAA
*
26640 AAGCAAAAAGAAGGAAAATTGCAAAGGGAAAAAATTATTAAAAATTTACAAAGTAAAAAAAAATT
312 AAGCAAAAAGAAGGAAAATTGCAAAGGGAAAAAATTATTAAAAAATTACAAAGTAAAAAAAAATT
* * * * *
26705 AGGGAATCAAAAAATATAAAAGGAAAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGG
377 AGAGAATAAAAAAATAAAAAAGAAAAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGC
*
26770 GAATCAAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATATAAAAAGAAAGTGCACAAAA
442 GAAGCAAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATAT---AAGAAAGTGCACAAAA
** * ** * * * * *
26835 AAAGAAGTTTGAGGTTTTAAAATTACAAAGAAGAAATAAAAAAAAGTGTGAACAAAAAGATTTAA
504 AAAGAAGTTTGAGAATGTAAAAAAACAAAGAAAAAAAAAAAAAAAATGAGAACAAAAAGATATAA
* *
26900 GAAAAAAATAACAAATGAAAATAAAATATATAAAAAAAATATTTGAGAAAAAAAAATGAGAAAAA
569 GAAAAAAATAACAAATGAAAATAAAAAATACAAAAAAAATATTTGAGAAAAAAAAATGAGAAAAA
26965 GAAGAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAACAAAAAGAAAAAAAATACAA
634 GAAGAAAAAATAAAAAATGAAGAGGCAAAAATATGAAATAAAACAAAAAGAAAAAAAATACAA
27028 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
1 AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
* * * *
27093 AGTTTAAAAAATAAAAAAAAAATTGAAAAACATATAAGTCCTAACAATATAAAAATTCAGACAAA
66 AGTTTAAAAAAT--AAAAAAAATTAAAAAACATATAAGACCAAACAATATAAAAAGTCAGACAAA
*
27158 AAATT-AAAAAGAAAAAAGTTAATGC-AA-AAAAAAAAAAGTATGAGAATTTAAAAATGCAAATA
129 AAATTAAAAAAGAAAAAAGTTAATGCAAATAAAAAAAAAAGTATGAGAATTTAAAAACGCAAATA
27220 AGAAATGAAAGGAAA-TGTGGAAAAAAAAAGAGAAGCAAGAAAAGACAAAAGATTTGGAAT-AAA
194 AGAAATGAAAGGAAATTGTGG-----AAAA-A-AA--AAGAAAAGACAAAAGATTTGGAATAAAA
*
27283 AATAGAAAAATAAAAATTTTTAAAACAACGAAAAAA-T-G-AAA-G-CATAT-G-AAAAAAAAAG
250 AAGAGAAAAATAAAAATTTTTAAAACAACGAAAAAATTAGAAAATGACATATGGAAAAAAAAAAG
* **
27341 TAAAAAGAAGG-AAATTGTGAA-GGAAAAAAGTTATTAAAAAATTACAAAGTTGAAAAAAAAATA
315 CAAAAAGAAGGAAAATTGCAAAGGGAAAAAA-TTATTAAAAAATTACAAAG-T----AAAAAA-A
27404 AATTAAGAGAA-AAAATTAAATAAAATACCCAGAAAGGAAAAATAAAAATAAACAAAGTAAGAAA
373 AATT-AGAGAATAAAA--AAATAAAA-A---AGAAA--AAAAATAAAAATAAACAAAGTAAGAAA
27468 ATAAAAAATTAGCGAAGCAAAAAATATAAAAAGAC-AAATGAATAAAAATTTCAAATAT-A-AAA
429 ATAAAAAATTAGCGAAGCAAAAAATATAAAAAGACAAAATGAATAAAAATTTCAAATATAAGAAA
* ****
27530 -TGGA-AAAAACTTTTAGTTT-AGAATGTAGAAAGAAACAAA-AAAAAAAAAAAAACAAAT-AGA
494 GTGCACAAAAA-AAGAAGTTTGAGAATGTA-AAA-AAACAAAGAAAAAAAAAAAAA-AAATGAGA
**
27590 GGAAAAAGATATAA
555 ACAAAAAGATATAA
27604 AATATGAAAG
Statistics
Matches: 508, Mismatches: 37, Indels: 71
0.82 0.06 0.12
Matches are distributed among these distances:
696 8 0.02
697 26 0.05
698 21 0.04
700 1 0.00
701 5 0.01
702 6 0.01
703 18 0.04
704 40 0.08
705 19 0.04
706 5 0.01
709 10 0.02
710 23 0.05
711 109 0.21
712 2 0.00
713 77 0.15
714 23 0.05
715 50 0.10
716 3 0.01
717 38 0.07
718 24 0.05
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (696 bp):
AAAAAGGACAAAAATTGAATAAAAATTTCAAAAATGAAATGGAATGACAAAATGAAAAAAAAATT
AGTTTAAAAAATAAAAAAAATTAAAAAACATATAAGACCAAACAATATAAAAAGTCAGACAAAAA
ATTAAAAAAGAAAAAAGTTAATGCAAATAAAAAAAAAAGTATGAGAATTTAAAAACGCAAATAAG
AAATGAAAGGAAATTGTGGAAAAAAAAAGAAAAGACAAAAGATTTGGAATAAAAAAGAGAAAAAT
AAAAATTTTTAAAACAACGAAAAAATTAGAAAATGACATATGGAAAAAAAAAAGCAAAAAGAAGG
AAAATTGCAAAGGGAAAAAATTATTAAAAAATTACAAAGTAAAAAAAAATTAGAGAATAAAAAAA
TAAAAAAGAAAAAAAATAAAAATAAACAAAGTAAGAAAATAAAAAATTAGCGAAGCAAAAAATAT
AAAAAGACAAAATGAATAAAAATTTCAAATATAAGAAAGTGCACAAAAAAAGAAGTTTGAGAATG
TAAAAAAACAAAGAAAAAAAAAAAAAAAATGAGAACAAAAAGATATAAGAAAAAAATAACAAATG
AAAATAAAAAATACAAAAAAAATATTTGAGAAAAAAAAATGAGAAAAAGAAGAAAAAATAAAAAA
TGAAGAGGCAAAAATATGAAATAAAACAAAAAGAAAAAAAATACAA
Found at i:27740 original size:22 final size:21
Alignment explanation
Indices: 27715--27755 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27705 AAGATTTAAG
27715 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
27737 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
27756 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:27868 original size:15 final size:16
Alignment explanation
Indices: 27841--27873 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27831 AAAATTTTAA
*
27841 AACAAAGAAAAAAGTG
1 AACAAAGAAAAAAATG
27857 AACAAA-AAAAAAATG
1 AACAAAGAAAAAAATG
27872 AA
1 AA
27874 AGCACATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.76, C:0.06, G:0.12, T:0.06
Consensus pattern (16 bp):
AACAAAGAAAAAAATG
Found at i:28048 original size:12 final size:12
Alignment explanation
Indices: 28031--28071 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
28021 ATGAAATTAT
28031 AAATAAAGAAAG
1 AAATAAAGAAAG
28043 AAATAAAG-AA-
1 AAATAAAGAAAG
28053 AAATAAA-AAAG
1 AAATAAAGAAAG
28064 ATAATAAA
1 A-AATAAA
28072 CACAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 3 0.12
12 14 0.54
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (12 bp):
AAATAAAGAAAG
Found at i:28302 original size:18 final size:18
Alignment explanation
Indices: 28275--28309 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28265 AGGAAATTTA
28275 TGGAAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAAGAAT
* *
28293 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAAAAGAA
28310 AAATAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
TGGAAAAAAAAAAAGAAT
Found at i:28898 original size:22 final size:22
Alignment explanation
Indices: 28845--28898 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
28835 AGAAAAAATT
28845 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
28868 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
28891 AAATAAAA
1 AAATAAAA
28899 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:29477 original size:17 final size:17
Alignment explanation
Indices: 29455--29487 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
29445 ATTATGAATA
29455 AAGAAAGAAAA-TAAAAT
1 AAGAAA-AAAATTAAAAT
29472 AAGAAAAAAATTAAAA
1 AAGAAAAAAATTAAAA
29488 GCAAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (17 bp):
AAGAAAAAAATTAAAAT
Found at i:29501 original size:21 final size:22
Alignment explanation
Indices: 29472--29522 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
29462 AAAATAAAAT
*
29472 AAGAAAAAAAT-TA-AAAGCAA
1 AAGAAAAAAATAGATAAAGCAA
29492 AAGAAAAAAATAGATAAAGCAA
1 AAGAAAAAAATAGATAAAGCAA
29514 AAGAAAAAA
1 AAGAAAAAA
29523 GAAAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 11 0.39
21 1 0.04
22 16 0.57
ACGTcount: A:0.76, C:0.04, G:0.12, T:0.08
Consensus pattern (22 bp):
AAGAAAAAAATAGATAAAGCAA
Found at i:29531 original size:16 final size:16
Alignment explanation
Indices: 29512--29545 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
29502 TAGATAAAGC
* *
29512 AAAAGAAAAAAGAAAA
1 AAAAAAAAAAACAAAA
29528 AAAAAAAAAAACAAAA
1 AAAAAAAAAAACAAAA
29544 AA
1 AA
29546 TATAAAAAGT
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:0.91, C:0.03, G:0.06, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAACAAAA
Found at i:30233 original size:22 final size:21
Alignment explanation
Indices: 30208--30248 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
30198 AGATTTAAGA
30208 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
30230 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
30249 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:31031 original size:62 final size:59
Alignment explanation
Indices: 30975--31103 Score: 163
Period size: 62 Copynumber: 2.1 Consensus size: 59
30965 AAAAAGTTAT
**
30975 TAAAAATTTACAAAGT-AAA-AAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAAA
1 TAAAAATAAACAAAGTAAAATAAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAAA
*
31032 TAAAAATAAACAAAGTAAGAAAATAAAAAATTAGGGAATCAAAAAATATAAAAAGACAAAATGAA
1 TAAAAATAAACAAAGT---AAAATAAAAAATTAGGGAATCAAAAAATATAAAAGGA-AAAA--AA
31097 TAAAAAT
1 TAAAAAT
31104 TTCAAATATA
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
57 14 0.23
61 3 0.05
62 31 0.51
63 4 0.07
65 9 0.15
ACGTcount: A:0.69, C:0.04, G:0.10, T:0.17
Consensus pattern (59 bp):
TAAAAATAAACAAAGTAAAATAAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAAA
Found at i:31036 original size:23 final size:24
Alignment explanation
Indices: 31010--31062 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
31000 TTAGGGAATC
*
31010 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
31033 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
31056 AAAAAAT
1 AAAAAAT
31063 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:31279 original size:19 final size:20
Alignment explanation
Indices: 31246--31285 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31236 ATATTTGAGA
*
31246 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
31266 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
31285 A
1 A
31286 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:32033 original size:22 final size:21
Alignment explanation
Indices: 32008--32048 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31998 AGATTTAAGA
32008 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
32030 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
32049 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:32082 original size:22 final size:24
Alignment explanation
Indices: 32057--32100 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
32047 ATTTGAGAAA
32057 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
32079 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
32101 AAAAAAAAAG
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:32352 original size:17 final size:18
Alignment explanation
Indices: 32327--32360 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32317 ATGAAATTAT
*
32327 AAATAAAGAAAGAAAATA
1 AAATAAAGAAAAAAAATA
32345 AAAT-AAGAAAAAAAAT
1 AAATAAAGAAAAAAAAT
32361 TAAAGCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (18 bp):
AAATAAAGAAAAAAAATA
Found at i:32634 original size:18 final size:18
Alignment explanation
Indices: 32607--32641 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32597 AGGAAATTTA
32607 TGGAAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAAGAAT
* *
32625 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAAAAGAA
32642 AAATAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
TGGAAAAAAAAAAAGAAT
Found at i:32685 original size:18 final size:19
Alignment explanation
Indices: 32664--32705 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
32654 TAAAACGACG
*
32664 AAAAATTAAA-ATAAGAAA
1 AAAAATTAAACAAAAGAAA
32682 AAAAATTAAAGCAAAAGAAA
1 AAAAATTAAA-CAAAAGAAA
32702 AAAA
1 AAAA
32706 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:34558 original size:22 final size:21
Alignment explanation
Indices: 34533--34573 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
34523 AGATTTAAGA
34533 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
34555 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
34574 TTGAGAAAAG
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:34825 original size:13 final size:12
Alignment explanation
Indices: 34807--34867 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
34797 ATGAAATTAT
34807 AAATAAAGAAAGA
1 AAATAAA-AAAGA
34820 AAATAAAATAAGA
1 AAATAAAA-AAGA
*
34833 AAAAAAATTAAAGCA
1 AAATAAA--AAAG-A
*
34848 AAAGAAAAAAGA
1 AAATAAAAAAGA
34860 TAAATAAA
1 -AAATAAA
34868 GCACGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 2 0.05
13 27 0.68
14 3 0.08
15 8 0.20
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (12 bp):
AAATAAAAAAGA
Found at i:34832 original size:17 final size:18
Alignment explanation
Indices: 34807--34868 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
34797 ATGAAATTAT
*
34807 AAATAAAGAAAGAAAATA
1 AAATAAAGAAAAAAAATA
34825 AAAT-AAGAAAAAAAATTA
1 AAATAAAGAAAAAAAA-TA
*
34843 AAGCA-AAAGAAAAAAGAT-
1 AA--ATAAAGAAAAAAAATA
34861 AAATAAAG
1 AAATAAAG
34869 CACGAAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
16 1 0.03
17 14 0.38
18 10 0.27
19 1 0.03
20 11 0.30
ACGTcount: A:0.76, C:0.02, G:0.11, T:0.11
Consensus pattern (18 bp):
AAATAAAGAAAAAAAATA
Found at i:35347 original size:23 final size:24
Alignment explanation
Indices: 35321--35373 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
35311 TTAGGGAATC
*
35321 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
35344 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
35367 AAAAAAT
1 AAAAAAT
35374 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:35591 original size:19 final size:20
Alignment explanation
Indices: 35558--35597 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
35548 ATATTTGAGA
*
35558 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
35578 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
35597 A
1 A
35598 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:36346 original size:22 final size:21
Alignment explanation
Indices: 36321--36361 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
36311 AGATTTAAGA
36321 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
36343 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
36362 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:36426 original size:55 final size:55
Alignment explanation
Indices: 36321--36425 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
36311 AGATTTAAGA
* * ***
36321 AAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAGAAG
1 AAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAAAAAGAGAAAAAGAAG
*
36376 AAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAAAAA-AGAAAAA
1 AAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAAAAAAAAAAGAGAAAAA
36426 AATTTATAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 11 0.26
55 32 0.74
ACGTcount: A:0.73, C:0.02, G:0.11, T:0.13
Consensus pattern (55 bp):
AAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAAAAAGAGAAAAAGAAG
Found at i:36670 original size:18 final size:19
Alignment explanation
Indices: 36626--36704 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
36616 AAAATTTATG
*
36626 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
36646 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
36663 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
36683 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
36702 AAA
1 AAA
36705 CAAAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:37027 original size:24 final size:23
Alignment explanation
Indices: 36974--37036 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
36964 AAATAAGAAA
*
36974 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAGAAAAAAC
*
36998 ATAAATAAAGCATGAAA-AAAAAAC
1 AAAAATAAAGCA--AAAGAAAAAAC
37022 AAAAATACAA-CAAAA
1 AAAAATA-AAGCAAAA
37037 AATTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 3 0.09
23 7 0.21
24 18 0.55
25 5 0.15
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.10
Consensus pattern (23 bp):
AAAAATAAAGCAAAAGAAAAAAC
Found at i:38255 original size:21 final size:22
Alignment explanation
Indices: 38196--38257 Score: 56
Period size: 24 Copynumber: 2.8 Consensus size: 22
38186 TTTAAAAAAT
*
38196 ACAAAAAATTAAAAAAATATAAG
1 ACAAAAAATTAAAAAAGTAT-AG
* *
38219 ACCAAACAATCT-AAAAAGTCT-G
1 A-CAAAAAAT-TAAAAAAGTATAG
38241 ACAAAAAATTAAAAAAG
1 ACAAAAAATTAAAAAAG
38258 AGAAAAGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 2 0.06
23 1 0.03
24 14 0.44
25 1 0.03
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.16
Consensus pattern (22 bp):
ACAAAAAATTAAAAAAGTATAG
Found at i:38383 original size:27 final size:26
Alignment explanation
Indices: 38330--38383 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
38320 AGGAAATTTG
*
38330 TGGAAAAAAAGAAAAGACAAAAGATT
1 TGGAAAAAAAGAAAAAACAAAAGATT
*
38356 TGGAATAAAAAGAGAAAAATAAAA-ATT
1 TGGAA-AAAAAGA-AAAAACAAAAGATT
38383 T
1 T
38384 TTAAAACAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 11 0.46
28 8 0.33
ACGTcount: A:0.65, C:0.02, G:0.17, T:0.17
Consensus pattern (26 bp):
TGGAAAAAAAGAAAAAACAAAAGATT
Found at i:38779 original size:22 final size:21
Alignment explanation
Indices: 38754--38794 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
38744 AGATTTAAGA
38754 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
38776 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
38795 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:39561 original size:60 final size:58
Alignment explanation
Indices: 39520--39636 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 58
39510 GAAAAATTAT
**
39520 TAAAAATTTACAAAGT-AAAA-AAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAA
1 TAAAAATAAACAAAGTAAAAATAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAA
* *
39576 TAAAAATAAACAAAGTAAGAAAATAAAAATTAGGGAATCAAAAAATATAAAAAGACAAAA
1 TAAAAATAAACAAAGT-A-AAAATAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAA
39636 T
1 T
39637 GAATAAAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
56 14 0.26
59 4 0.08
60 35 0.66
ACGTcount: A:0.68, C:0.04, G:0.10, T:0.17
Consensus pattern (58 bp):
TAAAAATAAACAAAGTAAAAATAAAAATTAGGGAATCAAAAAATATAAAAGGAAAAAA
Found at i:39598 original size:23 final size:21
Alignment explanation
Indices: 39556--39605 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 21
39546 TAGGGAATCA
*
39556 AAAAATATAAAAGGAAAAAAT
1 AAAAATAAAAAAGGAAAAAAT
*
39577 AAAAATAAACAAAGTAAGAAAAT
1 AAAAATAAA-AAAGGAA-AAAAT
39600 AAAAAT
1 AAAAAT
39606 TAGGGAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 6 0.24
23 11 0.44
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (21 bp):
AAAAATAAAAAAGGAAAAAAT
Found at i:39823 original size:19 final size:20
Alignment explanation
Indices: 39790--39829 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
39780 ATATTTGAGA
*
39790 AAAAAAATGAGAAAAAGAAG
1 AAAAAAATGAAAAAAAGAAG
*
39810 AAAAAAAT-AAAAAATGAAG
1 AAAAAAATGAAAAAAAGAAG
39829 A
1 A
39830 GGCAAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAAAATGAAAAAAAGAAG
Found at i:40565 original size:22 final size:21
Alignment explanation
Indices: 40540--40580 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
40530 AGATTTAAGA
40540 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
40562 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
40581 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:40614 original size:22 final size:24
Alignment explanation
Indices: 40589--40632 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
40579 ATTTGAGAAA
40589 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
40611 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
40633 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:40645 original size:57 final size:56
Alignment explanation
Indices: 40536--40647 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
40526 AAAAAGATTT
* * ***
40536 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
*
40592 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAATAAAAAGAAAAA
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAAAAAAAT-AAAAGAAAAA
40648 AATTTATAGA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 37 0.77
57 7 0.15
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (56 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
Found at i:40893 original size:18 final size:19
Alignment explanation
Indices: 40849--40927 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 19
40839 AAAATTTATG
*
40849 AAATTATAAATAAAGAAAGA
1 AAATTA-AAATAAAGAAAAA
*
40869 AAA-TAAAAT-ACGAAAAA
1 AAATTAAAATAAAGAAAAA
40886 AAATTAAAGCA-AAAGAAAAA
1 AAATTAAA--ATAAAGAAAAA
*
40906 AGA-T-AAATAAAGCACAAAA
1 AAATTAAAATAAAG-A-AAAA
40925 AAA
1 AAA
40928 CAAAAATACT
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
16 1 0.02
17 13 0.28
18 11 0.23
19 9 0.19
20 13 0.28
ACGTcount: A:0.73, C:0.05, G:0.09, T:0.13
Consensus pattern (19 bp):
AAATTAAAATAAAGAAAAA
Found at i:41152 original size:18 final size:18
Alignment explanation
Indices: 41125--41159 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
41115 AGGAAATTTA
41125 TGGAAAAAAAAAAAGAAT
1 TGGAAAAAAAAAAAGAAT
* *
41143 TGGAATAAAAAATAGAA
1 TGGAAAAAAAAAAAGAA
41160 AAATAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (18 bp):
TGGAAAAAAAAAAAGAAT
Found at i:41254 original size:25 final size:23
Alignment explanation
Indices: 41200--41255 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
41190 AAATAAGAAA
* *
41200 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAAAAAAAAC
*
41224 ATAAATAAAGCATGAAAAAAAAAAC
1 AAAAATAAAGCA--AAAAAAAAAAC
41249 AAAAATA
1 AAAAATA
41256 CAAAAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.27
24 4 0.15
25 15 0.58
ACGTcount: A:0.75, C:0.05, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAATAAAGCAAAAAAAAAAAC
Found at i:41747 original size:22 final size:22
Alignment explanation
Indices: 41694--41747 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
41684 GAGAAAAATT
41694 AAATAAAATACCAAAAAAGGAAA
1 AAATAAAATA-CAAAAAAGGAAA
* *
41717 AAATAAAAATA-AACAAAGTAAGA
1 AAAT-AAAATACAAAAAAGGAA-A
41740 AAATAAAA
1 AAATAAAA
41748 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:43067 original size:22 final size:21
Alignment explanation
Indices: 43042--43082 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
43032 AGATTTAAGA
43042 AAAAAATAAAAAATGAAAATAC
1 AAAAAATAAAAAAT-AAAATAC
* *
43064 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
43083 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:43347 original size:13 final size:12
Alignment explanation
Indices: 43329--43388 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
43319 ATGAAATTAT
43329 AAATAAAGAAAGA
1 AAATAAA-AAAGA
43342 AAATAAAATAAGA
1 AAATAAAA-AAGA
43355 AAA-AAATTAAAGCA
1 AAATAAA--AAAG-A
*
43369 AAAGAAAAAAGA
1 AAATAAAAAAGA
43381 TAAATAAA
1 -AAATAAA
43389 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:43354 original size:17 final size:17
Alignment explanation
Indices: 43329--43389 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
43319 ATGAAATTAT
43329 AAATAAAGAAAGAAAATA
1 AAATAAAGAAA-AAAATA
43347 AAAT-AAGAAAAAAATTA
1 AAATAAAGAAAAAAA-TA
43364 AAGCA-AAAGAAAAAAGAT-
1 AA--ATAAAGAAAAAA-ATA
43382 AAATAAAG
1 AAATAAAG
43390 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:43867 original size:23 final size:24
Alignment explanation
Indices: 43841--43893 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
43831 TTAGGGAATC
*
43841 AAAAAATATA-AAAGGAAAAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
* *
43864 -AAAAATAAACAAAGTAAGAAAAT
1 AAAAAATAAACAAAGGAAAAAAAT
43887 AAAAAAT
1 AAAAAAT
43894 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:44857 original size:22 final size:21
Alignment explanation
Indices: 44832--44872 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
44822 AGATTTAAGA
44832 AAAAAATAAAAAATGAAAATGC
1 AAAAAATAAAAAAT-AAAATGC
* *
44854 AAAATATATAAAATAAAAT
1 AAAAAATAAAAAATAAAAT
44873 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:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAAATAAAAAATAAAATGC
Found at i:44906 original size:22 final size:24
Alignment explanation
Indices: 44881--44924 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
44871 ATTTGAGAAA
44881 AAGAAG-AAAAAAAT-AAAAAATG
1 AAGAAGCAAAAAAATGAAAAAATG
* *
44903 AAGAGGCAAAAATATGAAAAAA
1 AAGAAGCAAAAAAATGAAAAAA
44925 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:44937 original size:57 final size:56
Alignment explanation
Indices: 44828--44939 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
44818 AAAAAGATTT
* * ***
44828 AAGAAAAAAATAAAAAATGAAAATGCAAAATATATAAAATAAAATTTGAGAAAAAG
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
*
44884 AAGAAAAAAATAAAAAATGAAGAGGCAAAA-ATATGAAAAAAAAATAAAAAGAAAAA
1 AAGAAAAAAATAAAAAATGAAAAGGCAAAATATAT-AAAAAAAAAT-AAAAGAAAAA
44940 ATTTATAGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 4 0.08
56 37 0.77
57 7 0.15
ACGTcount: A:0.73, C:0.02, G:0.12, T:0.13
Consensus pattern (56 bp):
AAGAAAAAAATAAAAAATGAAAAGGCAAAATATATAAAAAAAAATAAAAGAAAAAG
Found at i:45257 original size:25 final size:23
Alignment explanation
Indices: 45203--45268 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 23
45193 AAATAAGAAA
* *
45203 AAAAATTAAAGCAAAAGAAAAAAG
1 AAAAA-TAAAGCAAAAAAAAAAAC
*
45227 ATAAATAAAGCATGAAAAAAAAAAC
1 AAAAATAAAGCA--AAAAAAAAAAC
45252 AAAAATACAA-CAAAAAA
1 AAAAATA-AAGCAAAAAA
45269 TTATAAAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 12 0.34
24 4 0.11
25 17 0.49
26 2 0.06
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.09
Consensus pattern (23 bp):
AAAAATAAAGCAAAAAAAAAAAC
Found at i:47744 original size:28 final size:26
Alignment explanation
Indices: 47690--47744 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
47680 AGGAAATTTG
* *
47690 TGGAAAAAAAAGAAAAGACAAAGATT
1 TGGAAAAAAAAGAAAAAACAAAAATT
*
47716 TGGAATAAAAAAGAGAAAAATAAAAATT
1 TGGAA-AAAAAAGA-AAAAACAAAAATT
47744 T
1 T
47745 TTAAAACAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.21
27 8 0.33
28 11 0.46
ACGTcount: A:0.65, C:0.02, G:0.16, T:0.16
Consensus pattern (26 bp):
TGGAAAAAAAAGAAAAAACAAAAATT
Done.