Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007808.1 Hibiscus syriacus cultivar Beakdansim tig00110129_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1698870
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:1353 original size:4 final size:4
Alignment explanation
Indices: 1344--1369 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
1334 GATGGTAAAA
1344 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
1370 CTTGCTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:1734 original size:131 final size:130
Alignment explanation
Indices: 1489--1824 Score: 370
Period size: 131 Copynumber: 2.6 Consensus size: 130
1479 GGTGTGAGTG
* *
1489 ATAAATGACTGCTTTAAAGTATGAGAGGTCATTTATTCGCGATTGGAAATAATTTGATATTATCG
1 ATAAATGACTGCTTT-AAGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCG
** * * * * * * * *
1554 TTTTCTTTCAAATTAATATTGATTCTTAGGATGGAATAATGATATCTCTTCATTTCGATTGGAGC
65 TTTTCACTCAAATCAATATTGATTCTTAAGATGAAATAATAATAACTCTTCAATTCAATTGGAGA
1619 A
130 A
* * * *
1620 CTAAATGACAT-CTTTACAGTATGAGAGGTCATTTATTCTTGATTAGAAATCATTAGATATTATC
1 ATAAATGAC-TGCTTTA-AGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATC
* * * *
1684 GTTTTCACTCGAATCAATATTGAATT-TTAAGATGAAATAGTAATAACTCTTTAATTCAATTGGG
64 GTTTTCACTCAAATCAATATTG-ATTCTTAAGATGAAATAATAATAACTCTTCAATTCAATTGGA
1748 GAA
128 GAA
* * * * * * *
1751 ATAAATGATTGTTTTAATGCACGAAAGGTCATTTATTCTCGATTGGAAATAATTAGATGTTATCA
1 ATAAATGACTGCTTTAA-GTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCG
1816 TTTTCACTC
65 TTTTCACTC
1825 TTAAAATTGT
Statistics
Matches: 169, Mismatches: 31, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
130 3 0.02
131 162 0.96
132 4 0.02
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (130 bp):
ATAAATGACTGCTTTAAGTATGAGAGGTCATTTATTCTCGATTGGAAATAATTAGATATTATCGT
TTTCACTCAAATCAATATTGATTCTTAAGATGAAATAATAATAACTCTTCAATTCAATTGGAGAA
Found at i:2390 original size:17 final size:17
Alignment explanation
Indices: 2368--2404 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
2358 TTGTTCGTTA
2368 AAGCATGCATTGCATTT
1 AAGCATGCATTGCATTT
* *
2385 AAGCATGTATTTCATTT
1 AAGCATGCATTGCATTT
2402 AAG
1 AAG
2405 TCTAGTTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (17 bp):
AAGCATGCATTGCATTT
Found at i:2444 original size:17 final size:17
Alignment explanation
Indices: 2424--2564 Score: 76
Period size: 17 Copynumber: 8.5 Consensus size: 17
2414 TTTAGGGAAG
2424 TAGTTCATTTATGCATC
1 TAGTTCATTTATGCATC
* *
2441 TAG-TCATTTAAT-AAAC
1 TAGTTCATTT-ATGCATC
* * *
2457 TATTTCATTCATGCATT
1 TAGTTCATTTATGCATC
*
2474 TAGTTCATTTAAG--TC
1 TAGTTCATTTATGCATC
* * **
2489 TAGTTCATTTAGGGAAG
1 TAGTTCATTTATGCATC
*
2506 TAGTTAATTTATGCATC
1 TAGTTCATTTATGCATC
* * *
2523 TAG-TCATTTAAGAAAC
1 TAGTTCATTTATGCATC
* * *
2539 TATTTCATTCATGCATT
1 TAGTTCATTTATGCATC
*
2556 TCGTTCATT
1 TAGTTCATT
2565 AATAAAGTTA
Statistics
Matches: 87, Mismatches: 31, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
15 13 0.15
16 23 0.26
17 51 0.59
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:2532 original size:82 final size:82
Alignment explanation
Indices: 2395--2583 Score: 308
Period size: 82 Copynumber: 2.3 Consensus size: 82
2385 AAGCATGTAT
* * *
2395 TTCATTTAAGTCTAGTTGATTTAGGGAAGTAGTTCATTTATGCATCTAGTCATTTAATAAACTAT
1 TTCATTTAAGTCTAGTTCATTTAGGGAAGTAGTTAATTTATGCATCTAGTCATTTAAGAAACTAT
2460 TTCATTCATGCATTTAG
66 TTCATTCATGCATTTAG
2477 TTCATTTAAGTCTAGTTCATTTAGGGAAGTAGTTAATTTATGCATCTAGTCATTTAAGAAACTAT
1 TTCATTTAAGTCTAGTTCATTTAGGGAAGTAGTTAATTTATGCATCTAGTCATTTAAGAAACTAT
*
2542 TTCATTCATGCATTTCG
66 TTCATTCATGCATTTAG
2559 TTCATTAATAAAGT-TAGTTCATTTA
1 TTCATT--T-AAGTCTAGTTCATTTA
2584 TTAAACTAGT
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
82 84 0.84
84 12 0.12
85 4 0.04
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.44
Consensus pattern (82 bp):
TTCATTTAAGTCTAGTTCATTTAGGGAAGTAGTTAATTTATGCATCTAGTCATTTAAGAAACTAT
TTCATTCATGCATTTAG
Found at i:3821 original size:28 final size:28
Alignment explanation
Indices: 3764--3823 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
3754 TATATTTCAG
* *
3764 TTTCCTTCTTACAATATTGCCAGGGTAA
1 TTTCCTTCTTACAATATTGCCAGAGCAA
*
3792 TTTCCTTCTTAC-ATCATTGTCAGAGCAA
1 TTTCCTTCTTACAAT-ATTGCCAGAGCAA
3820 TTTC
1 TTTC
3824 AGTGTTCTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTCCTTCTTACAATATTGCCAGAGCAA
Found at i:4197 original size:45 final size:45
Alignment explanation
Indices: 4133--4222 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
4123 GCAGCTGCAC
4133 GATATATGGGACATGCCTTGAGTCGACATCTCATGTTCTAAGGGA
1 GATATATGGGACATGCCTTGAGTCGACATCTCATGTTCTAAGGGA
4178 GATATATGGGACATGCCTTGAGTCGACATCTCATGTTCTAAGGGA
1 GATATATGGGACATGCCTTGAGTCGACATCTCATGTTCTAAGGGA
4223 TTGTCCTGTG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (45 bp):
GATATATGGGACATGCCTTGAGTCGACATCTCATGTTCTAAGGGA
Found at i:5347 original size:42 final size:42
Alignment explanation
Indices: 5300--5430 Score: 165
Period size: 42 Copynumber: 3.1 Consensus size: 42
5290 ATGAAAACAA
5300 TTTGTCACTAGTCTTAGTTGGTGATTTTGTGACGATAATTTT
1 TTTGTCACTAGTCTTAGTTGGTGATTTTGTGACGATAATTTT
* ** *
5342 TTTGTCACTAGTATTAGTTAATGA-TTTGTGTCGATAATTGTT
1 TTTGTCACTAGTCTTAGTTGGTGATTTTGTGACGATAATT-TT
* * *
5384 TTTGTCATTAGTCTTAGTTGGTGATTTGTAATGACAATAATTTT
1 TTTGTCACTAGTCTTAGTTGGTGATTT-T-GTGACGATAATTTT
5428 TTT
1 TTT
5431 CGCTATTGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 14 0.19
42 43 0.58
43 2 0.03
44 6 0.08
45 9 0.12
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.51
Consensus pattern (42 bp):
TTTGTCACTAGTCTTAGTTGGTGATTTTGTGACGATAATTTT
Found at i:7161 original size:71 final size:71
Alignment explanation
Indices: 7084--7229 Score: 267
Period size: 71 Copynumber: 2.1 Consensus size: 71
7074 CAAAAAAACA
*
7084 TGGTAACAAAATATACTTTCAGTGTCAAATAAAATTTATCACAATTT-TCATTGATAATAGTATC
1 TGGTAACAAAATATACTTTCAGTGTCAAATAAAATTTATCACAATTTCT-ATTGATAATAGTATA
7148 AAACATT
65 AAACATT
7155 TGGTAACAAAATATACTTTCAGTGTCAAATAAAATTTATCACAATTTCTATTGATAATAGTATAA
1 TGGTAACAAAATATACTTTCAGTGTCAAATAAAATTTATCACAATTTCTATTGATAATAGTATAA
7220 AACATT
66 AACATT
7226 TGGT
1 TGGT
7230 CACTAAAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 72 0.99
72 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (71 bp):
TGGTAACAAAATATACTTTCAGTGTCAAATAAAATTTATCACAATTTCTATTGATAATAGTATAA
AACATT
Found at i:9541 original size:48 final size:47
Alignment explanation
Indices: 9459--9567 Score: 121
Period size: 48 Copynumber: 2.3 Consensus size: 47
9449 AAACGGAGAT
* * * *
9459 ATCAGAAATCAAAATAGAATTCATATAAGATATCAGAACATAATCCA
1 ATCAGAAATCAGAACAGAATTCAGATAAGATATCAGAACAGAATCCA
* * *
9506 GATCAGAAATCAGAACAGAATTCAGGTAATG-TATCATAACAGAATTCA
1 -ATCAGAAATCAGAACAGAATTCAGATAA-GATATCAGAACAGAATCCA
9554 AGTCAGAAATCAGA
1 A-TCAGAAATCAGA
9568 TAAAATATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 1 0.02
48 50 0.96
49 1 0.02
ACGTcount: A:0.50, C:0.15, G:0.14, T:0.22
Consensus pattern (47 bp):
ATCAGAAATCAGAACAGAATTCAGATAAGATATCAGAACAGAATCCA
Found at i:9565 original size:24 final size:24
Alignment explanation
Indices: 9460--9567 Score: 78
Period size: 24 Copynumber: 4.5 Consensus size: 24
9450 AACGGAGATA
* *
9460 TCAGAAATCAAAATAGAATTCATA-
1 TCAGAAATCAGAACAGAATTCA-AG
* * * *
9484 TAAGATATCAGAACATAA-TCCAG
1 TCAGAAATCAGAACAGAATTCAAG
*
9507 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
* * *
9532 TAATG-TATCATAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
9556 TCAGAAATCAGA
1 TCAGAAATCAGA
9568 TAAAATATTT
Statistics
Matches: 61, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
22 1 0.02
23 3 0.05
24 53 0.87
25 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:12045 original size:13 final size:13
Alignment explanation
Indices: 12027--12051 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12017 TGGTCAACGG
12027 GTCAACGGGTCGA
1 GTCAACGGGTCGA
12040 GTCAACGGGTCG
1 GTCAACGGGTCG
12052 GGTTGGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
GTCAACGGGTCGA
Found at i:12089 original size:18 final size:18
Alignment explanation
Indices: 12063--12108 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
12053 GTTGGGTTAA
*
12063 CGGGCCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
* *
12081 CGGTTCGGGTCAACGGGT
1 CGGGTCGGGTAAACGGGT
12099 CGGGTCGGGT
1 CGGGTCGGGT
12109 TGTGACCGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.11, C:0.22, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:12103 original size:31 final size:32
Alignment explanation
Indices: 12024--12103 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 32
12014 CGCTGGTCAA
* *
12024 CGGGTCAACGGGTCGAGTCAACGGGTCGGGTT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTT
* *
12056 -GGGTTAACGGGCCGGGTAAACGGGTC-GGTT
1 CGGGTCAACGGGTCGGGTAAACGGGTCGGGTT
12086 CGGGTCAACGGGTCGGGT
1 CGGGTCAACGGGTCGGGT
12104 CGGGTTGTGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.10
31 37 0.90
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.19
Consensus pattern (32 bp):
CGGGTCAACGGGTCGGGTAAACGGGTCGGGTT
Found at i:15026 original size:42 final size:42
Alignment explanation
Indices: 14977--15073 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
14967 TATAAATATT
14977 TAAAACAAAATTGTCAAAGTATTTTCCTTATCAAATAACTTG
1 TAAAACAAAATTGTCAAAGTATTTTCCTTATCAAATAACTTG
*
15019 TAAAACAAAATTGTCAAAGTCTTTTCCTTATCAAATAACTTG
1 TAAAACAAAATTGTCAAAGTATTTTCCTTATCAAATAACTTG
15061 TAAAACAACAATT
1 TAAAACAA-AATT
15074 CATATATATC
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 49 0.92
43 4 0.08
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.34
Consensus pattern (42 bp):
TAAAACAAAATTGTCAAAGTATTTTCCTTATCAAATAACTTG
Found at i:23404 original size:23 final size:24
Alignment explanation
Indices: 23347--23411 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
23337 GCACTGTACG
*
23347 AAAGTGCCTTAGCACTGATATACT
1 AAAGTGTCTTAGCACTGATATACT
23371 AAAGT-TCCTTAGCACTGAT-TCAC-
1 AAAGTGT-CTTAGCACTGATAT-ACT
* *
23394 GAAGTGTCTTAACACTGA
1 AAAGTGTCTTAGCACTGA
23412 ACTGAAGTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
23 15 0.43
24 20 0.57
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (24 bp):
AAAGTGTCTTAGCACTGATATACT
Found at i:32064 original size:9 final size:9
Alignment explanation
Indices: 32034--32070 Score: 56
Period size: 9 Copynumber: 3.9 Consensus size: 9
32024 TAATATGTGC
32034 ATTTTTATT
1 ATTTTTATT
32043 ATTTTCTAGTT
1 ATTTT-TA-TT
32054 ATTTTTATT
1 ATTTTTATT
32063 ATTTTTAT
1 ATTTTTAT
32071 GTTTTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 15 0.58
10 4 0.15
11 7 0.27
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (9 bp):
ATTTTTATT
Found at i:37207 original size:23 final size:23
Alignment explanation
Indices: 37156--37209 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
37146 TTTCTTCAAT
*
37156 TCTTCATCATTTGGAATATAAAC
1 TCTTCCTCATTTGGAATATAAAC
37179 TCTTCCTCATTTGGAATATAAAC
1 TCTTCCTCATTTGGAATATAAAC
37202 TCTTCCTC
1 TCTTCCTC
37210 GATAATATAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (23 bp):
TCTTCCTCATTTGGAATATAAAC
Found at i:45601 original size:50 final size:50
Alignment explanation
Indices: 45526--45648 Score: 176
Period size: 50 Copynumber: 2.5 Consensus size: 50
45516 CTCCAATTTG
*
45526 CCTTTTCATTACGACTAGAAGGGTTGGTTAGAGATATATTATTGTGTTTA
1 CCTTTTCATTACGACTAGAAGGGTTGGTTAGAGATATATTATCGTGTTTA
* * *
45576 CCTTTTCATTGCGACTA-AGAGGGTTGGTTAGAGCTATATTATCGTGTTTG
1 CCTTTTCATTACGACTAGA-AGGGTTGGTTAGAGATATATTATCGTGTTTA
* *
45626 CCTTTTCATTACAACTAGGAGGG
1 CCTTTTCATTACGACTAGAAGGG
45649 CTCGATAGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
49 1 0.02
50 63 0.98
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (50 bp):
CCTTTTCATTACGACTAGAAGGGTTGGTTAGAGATATATTATCGTGTTTA
Found at i:50083 original size:46 final size:46
Alignment explanation
Indices: 50031--50204 Score: 242
Period size: 46 Copynumber: 3.7 Consensus size: 46
50021 GTAACCATGC
* *
50031 AAATAAGATTACAAGCTTATGGGATAAATGGTAAGTATATTGGTAA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGCATATTGGTAA
** *
50077 AAATAAGCTTATTAGCTTATGGGATAAATGGAAAGCATATTGGTAA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGCATATTGGTAA
*
50123 AAATAAGCTTACAAGCTTATGGGATAAAT-TTCAAGCATATTGGTAAAA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGT-AAGCATATTGGT--AA
* *
50171 AAAAAAGCTTACGAGCTTATGGGATAAATGGTAA
1 AAATAAGCTTACAAGCTTATGGGATAAATGGTAA
50205 ATATTTTGGT
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
46 80 0.71
48 31 0.28
49 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (46 bp):
AAATAAGCTTACAAGCTTATGGGATAAATGGTAAGCATATTGGTAA
Found at i:53043 original size:14 final size:13
Alignment explanation
Indices: 53026--53106 Score: 60
Period size: 12 Copynumber: 6.3 Consensus size: 13
53016 ATATATTATA
53026 AAAATAAAAAAAGG
1 AAAATAAAAAAA-G
*
53040 AAAATAAAAGAAG
1 AAAATAAAAAAAG
**
53053 AAAA-AGGAAAAG
1 AAAATAAAAAAAG
*
53065 AAAAGAAAAAAAAG
1 AAAA-TAAAAAAAG
*
53079 AAAA-AGAAAAAG
1 AAAATAAAAAAAG
* *
53091 AAGA-AAAAACAG
1 AAAATAAAAAAAG
53103 AAAA
1 AAAA
53107 AAATTAGGGA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
12 28 0.52
13 5 0.09
14 21 0.39
ACGTcount: A:0.80, C:0.01, G:0.16, T:0.02
Consensus pattern (13 bp):
AAAATAAAAAAAG
Found at i:53046 original size:20 final size:20
Alignment explanation
Indices: 53031--53099 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
53021 TTATAAAAAT
*
53031 AAAAAAAGGAAAATAAAAGA
1 AAAAAAAGGAAAAGAAAAGA
*
53051 AGAAAAAGGAAAAGAAAAGA
1 AAAAAAAGGAAAAGAAAAGA
*
53071 AAAAAAAGAAAAAGAAAAAGA
1 AAAAAAAGGAAAAG-AAAAGA
53092 AGAAAAAA
1 A-AAAAAA
53100 CAGAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
20 30 0.70
21 7 0.16
22 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.01
Consensus pattern (20 bp):
AAAAAAAGGAAAAGAAAAGA
Found at i:53074 original size:26 final size:26
Alignment explanation
Indices: 53045--53109 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
53035 AAAGGAAAAT
*
53045 AAAAGAAGAAAAAGGAAAAGAA-AAGA
1 AAAAGAAGAAAAAGAAAAAGAAGAA-A
*
53071 AAAAAAAGAAAAAGAAAAAGAAGAAA
1 AAAAGAAGAAAAAGAAAAAGAAGAAA
53097 AAACAGAA-AAAAA
1 AAA-AGAAGAAAAA
53110 TTAGGGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
26 29 0.85
27 5 0.15
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (26 bp):
AAAAGAAGAAAAAGAAAAAGAAGAAA
Found at i:53091 original size:6 final size:6
Alignment explanation
Indices: 53050--53107 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
53040 AAAATAAAAG
* *
53050 AAGAAA AAGGAA AAGAAAA GAAAAAA AAGAAA AAGAAA AAGAAGA AA-AAA
1 AAGAAA AAGAAA AAG-AAA -AAGAAA AAGAAA AAGAAA AAGAA-A AAGAAA
*
53100 CAGAAA AA
1 AAGAAA AA
53108 AATTAGGGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 2 0.05
6 30 0.71
7 8 0.19
8 2 0.05
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:53094 original size:9 final size:9
Alignment explanation
Indices: 53045--53109 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
53035 AAAGGAAAAT
53045 AAAAGAAGA
1 AAAAGAAGA
53054 AAAAG--GA
1 AAAAGAAGA
*
53061 AAAGAAAAGA
1 AAA-AGAAGA
*
53071 AAAAAAAGA
1 AAAAGAAGA
53080 AAAAGAA-A
1 AAAAGAAGA
53088 AAGAAGAA-A
1 AA-AAGAAGA
53097 AAACAGAA-A
1 AAA-AGAAGA
53106 AAAA
1 AAAA
53110 TTAGGGATGA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
7 5 0.10
8 6 0.12
9 33 0.67
10 5 0.10
ACGTcount: A:0.82, C:0.02, G:0.17, T:0.00
Consensus pattern (9 bp):
AAAAGAAGA
Found at i:53094 original size:15 final size:15
Alignment explanation
Indices: 53050--53098 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
53040 AAAATAAAAG
*
53050 AAGAAAAAGGAAAAGAA
1 AAGAAAAA-GAAGA-AA
*
53067 AAGAAAAAAAAGAAA
1 AAGAAAAAGAAGAAA
53082 AAGAAAAAGAAGAAA
1 AAGAAAAAGAAGAAA
53097 AA
1 AA
53099 ACAGAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 18 0.62
16 3 0.10
17 8 0.28
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:53108 original size:20 final size:19
Alignment explanation
Indices: 53040--53109 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 19
53030 TAAAAAAAGG
* *
53040 AAAATAAAAGAAGAAAAAGG
1 AAAAAAAAAGAAGAAAAA-A
* *
53060 AAAAGAAAAGAAAAAAAAGA
1 AAAAAAAAAGAAGAAAAA-A
53080 AAAAGAAAAAGAAGAAAAAA
1 AAAA-AAAAAGAAGAAAAAA
*
53100 CAGAAAAAAA
1 -AAAAAAAAA
53110 TTAGGGATGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAGAAGAAAAAA
Found at i:53222 original size:58 final size:58
Alignment explanation
Indices: 53143--53256 Score: 228
Period size: 58 Copynumber: 2.0 Consensus size: 58
53133 TTCACTTGTG
53143 AAAAAAATACGAGACTAAAGACTTTGAAGTCAAGTCTGATGAATGTCTATTTTATCAA
1 AAAAAAATACGAGACTAAAGACTTTGAAGTCAAGTCTGATGAATGTCTATTTTATCAA
53201 AAAAAAATACGAGACTAAAGACTTTGAAGTCAAGTCTGATGAATGTCTATTTTATC
1 AAAAAAATACGAGACTAAAGACTTTGAAGTCAAGTCTGATGAATGTCTATTTTATC
53257 GAGGAAGAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (58 bp):
AAAAAAATACGAGACTAAAGACTTTGAAGTCAAGTCTGATGAATGTCTATTTTATCAA
Found at i:57023 original size:46 final size:46
Alignment explanation
Indices: 56966--57133 Score: 250
Period size: 46 Copynumber: 3.7 Consensus size: 46
56956 GTAACCATGC
* * *
56966 AAATAAACTTACGAGTTTATGGGATAAATGTTAAGTATATTGGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGTCAAGTATATTGGTAA
* *
57012 AAATAAGCTTACTAGCTTATGGGATAAATGGCAAGTATATTGGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGTCAAGTATATTGGTAA
*
57058 AAATAAGCTTACGAGCTTATGGGATAAAT-TGCAA-TCATACTGGTAA
1 AAATAAGCTTACGAGCTTATGGGATAAATGT-CAAGT-ATATTGGTAA
57104 AAATAAGCTTACGAGCTTATGGGATAAATG
1 AAATAAGCTTACGAGCTTATGGGATAAATG
57134 GAAAATAAAT
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 110 0.99
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGTCAAGTATATTGGTAA
Found at i:57086 original size:25 final size:25
Alignment explanation
Indices: 57058--57132 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
57048 ATATTGGTAA
57058 AAATAAGCTTACGAGCTTATGGGAT
1 AAATAAGCTTACGAGCTTATGGGAT
* * * * *
57083 AAAT-TGC--A--ATCATACTGGTAA
1 AAATAAGCTTACGAGCTTA-TGGGAT
57104 AAATAAGCTTACGAGCTTATGGGAT
1 AAATAAGCTTACGAGCTTATGGGAT
57129 AAAT
1 AAAT
57133 GGAAAATAAA
Statistics
Matches: 34, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
20 4 0.12
21 8 0.24
22 3 0.09
24 3 0.09
25 12 0.35
26 4 0.12
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (25 bp):
AAATAAGCTTACGAGCTTATGGGAT
Found at i:62465 original size:21 final size:21
Alignment explanation
Indices: 62439--62478 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
62429 TAACTTAATG
*
62439 AGCTGAAGGAGAGTTGGAATT
1 AGCTGAAAGAGAGTTGGAATT
*
62460 AGCTGAAAGATAGTTGGAA
1 AGCTGAAAGAGAGTTGGAA
62479 ATACAAAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.23
Consensus pattern (21 bp):
AGCTGAAAGAGAGTTGGAATT
Found at i:63035 original size:182 final size:182
Alignment explanation
Indices: 62728--63093 Score: 687
Period size: 182 Copynumber: 2.0 Consensus size: 182
62718 ATTCATACGA
62728 GATTTGCATTAAATCAGGCTAATGTGAACACACTAAGTGGCAGCAACCAAGTGAAGAAAACCATT
1 GATTTGCATTAAATCAGGCTAATGTGAACACACTAAGTGGCAGCAACCAAGTGAAGAAAACCATT
62793 CAGCATGTTTATGACAATGAATCAATTTAATTCAAAGATCCATTCATGAATGGTGCTTGTGCATC
66 CAGCATGTTTATGACAATGAATCAATTTAATTCAAAGATCCATTCATGAATGGTGCTTGTGCATC
62858 CAAGTACACTCATCCAAGGCAACCAAGAGTCTTATTCTCAATCAAGAAGGAT
131 CAAGTACACTCATCCAAGGCAACCAAGAGTCTTATTCTCAATCAAGAAGGAT
*
62910 GATTTGCATTAAATCAGGCTAATGTGAACACACTAAGTGGCAGCAACCAAGTGAAGAAAATCATT
1 GATTTGCATTAAATCAGGCTAATGTGAACACACTAAGTGGCAGCAACCAAGTGAAGAAAACCATT
* * *
62975 CATCTTGTTTATGACAATGAATCCATTTAATTCAAAGATCCATTCATGAATGGTGCTTGTGCATC
66 CAGCATGTTTATGACAATGAATCAATTTAATTCAAAGATCCATTCATGAATGGTGCTTGTGCATC
*
63040 CAAGTACACTCATCCTAGGCAACCAAGAGTCTTATTCTCAATCAAGAAGGAT
131 CAAGTACACTCATCCAAGGCAACCAAGAGTCTTATTCTCAATCAAGAAGGAT
63092 GA
1 GA
63094 ATTCATTTAA
Statistics
Matches: 179, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 179 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (182 bp):
GATTTGCATTAAATCAGGCTAATGTGAACACACTAAGTGGCAGCAACCAAGTGAAGAAAACCATT
CAGCATGTTTATGACAATGAATCAATTTAATTCAAAGATCCATTCATGAATGGTGCTTGTGCATC
CAAGTACACTCATCCAAGGCAACCAAGAGTCTTATTCTCAATCAAGAAGGAT
Found at i:64451 original size:21 final size:20
Alignment explanation
Indices: 64411--64456 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
64401 TATTAAGTGT
* *
64411 TTAAATATTTTTTTGAAATA
1 TTAAATATTATTTTAAAATA
64431 TTAAATATTATTTTAATAATA
1 TTAAATATTATTTTAA-AATA
*
64452 ATAAA
1 TTAAA
64457 ATAAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TTAAATATTATTTTAAAATA
Found at i:72032 original size:21 final size:20
Alignment explanation
Indices: 72007--72053 Score: 85
Period size: 21 Copynumber: 2.3 Consensus size: 20
71997 GGTTCCAATG
72007 TTAAAAGGAATTAATAAGTA
1 TTAAAAGGAATTAATAAGTA
72027 TTTAAAAGGAATTAATAAGTA
1 -TTAAAAGGAATTAATAAGTA
72048 TTAAAA
1 TTAAAA
72054 TATTTGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (20 bp):
TTAAAAGGAATTAATAAGTA
Found at i:72775 original size:40 final size:40
Alignment explanation
Indices: 72616--72777 Score: 288
Period size: 40 Copynumber: 4.0 Consensus size: 40
72606 TGCAGGTTTA
*
72616 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTA
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
72656 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
72696 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
72736 TAATACACTTCGGTATACATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
72776 TA
1 TA
72778 GAACTACGGT
Statistics
Matches: 117, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 117 1.00
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:73018 original size:46 final size:46
Alignment explanation
Indices: 72882--73187 Score: 410
Period size: 46 Copynumber: 6.8 Consensus size: 46
72872 GTAAGCATGC
* *
72882 AAATAAGCTTACAAGCTTAT-GAAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
* * *
72926 AAATAATCTTACAAGCTTAT-GAAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
* *
72970 AAATAAGCTTACGAGCTAATGGAAATAAATGGTAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
*
73016 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
* *
73062 AAATAAGCTTACGAGCTTATGG-GATAAATTGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
* * * * *
73107 AAATAAGCTTATGAGCTTATGG-TACAAATGGTAATTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
73152 AAATAAGCTTACGAGCTTAT-GATTAATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGGA--AATAAATGGTAA
73188 AATATAGGAT
Statistics
Matches: 238, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
44 61 0.26
45 83 0.35
46 84 0.35
47 10 0.04
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATTGGTA
Found at i:73019 original size:24 final size:24
Alignment explanation
Indices: 72992--73067 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
72982 GAGCTAATGG
72992 AAATAAATGGTAAGTATATGGGTA
1 AAATAAATGGTAAGTATATGGGTA
*
73016 AAAT-AA-GCTTACGAGCT-TAT-GG--
1 AAATAAATG-GTA--AG-TATATGGGTA
73038 AAATAAATGGTAAGTATATGGGTA
1 AAATAAATGGTAAGTATATGGGTA
73062 AAATAA
1 AAATAA
73068 GCTTACGAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 20
0.65 0.03 0.32
Matches are distributed among these distances:
20 1 0.03
21 5 0.12
22 7 0.17
23 8 0.20
24 13 0.32
25 5 0.12
26 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (24 bp):
AAATAAATGGTAAGTATATGGGTA
Found at i:73062 original size:136 final size:135
Alignment explanation
Indices: 72882--73187 Score: 418
Period size: 136 Copynumber: 2.3 Consensus size: 135
72872 GTAAGCATGC
* * * *
72882 AAATAAGCTTACAAGCTTATGAAAT-AATGGCAAGTATATTGGTAAAATAATCTTACAAGCTTAT
1 AAATAAGCTTACGAGCTTATGAAATAAATGGTAAGTATATGGGTAAAATAAGCTTACAAGCTTAT
*
72946 GAAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTAATGGAAATAAATGGTAAGTATA
66 GAAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTAATGG-AACAAATGGTAAGTATA
73010 TGGGTA
130 TGGGTA
*
73016 AAATAAGCTTACGAGCTTATGGAAATAAATGGTAAGTATATGGGTAAAATAAGCTTACGAGCTTA
1 AAATAAGCTTACGAGCTTAT-GAAATAAATGGTAAGTATATGGGTAAAATAAGCTTACAAGCTTA
** * * * * * * *
73081 TGGGATAAATTGTAAGTATATTGGTAAAATAAGCTTATGAGCTTATGGTACAAATGGTAATTATT
65 TGAAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTAATGGAACAAATGGTAAGTATA
*
73146 TTGGTA
130 TGGGTA
73152 AAATAAGCTTACGAGCTTATGATTAATAAATGGTAA
1 AAATAAGCTTACGAGCTTATGA--AATAAATGGTAA
73188 AATATAGGAT
Statistics
Matches: 151, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
134 19 0.13
135 7 0.05
136 76 0.50
137 49 0.32
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (135 bp):
AAATAAGCTTACGAGCTTATGAAATAAATGGTAAGTATATGGGTAAAATAAGCTTACAAGCTTAT
GAAATAAATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTAATGGAACAAATGGTAAGTATAT
GGGTA
Found at i:73084 original size:25 final size:25
Alignment explanation
Indices: 73008--73089 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
72998 ATGGTAAGTA
73008 TATGGGTAAAATAAGCTTACGAGCT
1 TATGGGTAAAATAAGCTTACGAGCT
*
73033 TAT-GG--AAATAAATG-GTA--AG-T
1 TATGGGTAAAAT-AA-GCTTACGAGCT
73053 ATATGGGTAAAATAAGCTTACGAGCT
1 -TATGGGTAAAATAAGCTTACGAGCT
73079 TATGGGATAAA
1 TATGGG-TAAA
73090 TTGTAAGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 21
0.66 0.03 0.31
Matches are distributed among these distances:
20 1 0.02
21 5 0.11
22 7 0.16
23 8 0.18
24 7 0.16
25 11 0.25
26 5 0.11
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.28
Consensus pattern (25 bp):
TATGGGTAAAATAAGCTTACGAGCT
Found at i:73640 original size:21 final size:21
Alignment explanation
Indices: 73616--73734 Score: 177
Period size: 21 Copynumber: 5.7 Consensus size: 21
73606 ATGCTTAAGG
73616 GGAACCGATTCCCCTGCTACA
1 GGAACCGATTCCCCTGCTACA
*
73637 GGAACCGATTCCCCTGCTATA
1 GGAACCGATTCCCCTGCTACA
*
73658 GGAACCGATTCCCCTGCTATA
1 GGAACCGATTCCCCTGCTACA
* *
73679 AGAACCAATTCCCCTGCTACA
1 GGAACCGATTCCCCTGCTACA
*
73700 GTG-ACCGATTCCCCTACTACA
1 G-GAACCGATTCCCCTGCTACA
73721 GGAACCGATTCCCC
1 GGAACCGATTCCCC
73735 CACTGTTCAT
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
20 1 0.01
21 87 0.98
22 1 0.01
ACGTcount: A:0.25, C:0.37, G:0.17, T:0.21
Consensus pattern (21 bp):
GGAACCGATTCCCCTGCTACA
Found at i:75205 original size:6 final size:6
Alignment explanation
Indices: 75194--75277 Score: 70
Period size: 6 Copynumber: 14.3 Consensus size: 6
75184 AAAAAATATT
* *
75194 AAAAGA AAAAGA AAAA-A TAAAAGA AAAGAAA AAAAGA GAAAG- AAAAGA
1 AAAAGA AAAAGA AAAAGA -AAAAGA AAA-AGA AAAAGA AAAAGA AAAAGA
* *
75242 AAAA-A AGAAAG- AAAA-A AAAAGG AAAAGG AAAAGA AA
1 AAAAGA A-AAAGA AAAAGA AAAAGA AAAAGA AAAAGA AA
75278 TATATATATA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
5 14 0.22
6 44 0.69
7 6 0.09
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (6 bp):
AAAAGA
Found at i:75222 original size:17 final size:17
Alignment explanation
Indices: 75194--75277 Score: 91
Period size: 17 Copynumber: 4.8 Consensus size: 17
75184 AAAAAATATT
*
75194 AAAAGAAAAAGAAAAAAT
1 AAAAG-AAAAGAAAAAAG
75212 AAAAGAAAAGAAAAAAAG
1 AAAAGAAAAG-AAAAAAG
75230 AGAAAGAAAAGAAAAAA-
1 A-AAAGAAAAGAAAAAAG
*
75247 AGAAAGAAAA-AAAAAGG
1 A-AAAGAAAAGAAAAAAG
75264 AAAAGGAAAAGAAA
1 AAAA-GAAAAGAAA
75278 TATATATATA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.14
17 21 0.36
18 21 0.36
19 9 0.15
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (17 bp):
AAAAGAAAAGAAAAAAG
Found at i:75227 original size:19 final size:20
Alignment explanation
Indices: 75193--75249 Score: 75
Period size: 19 Copynumber: 3.0 Consensus size: 20
75183 TAAAAAATAT
*
75193 TAAAAGAAAA-AGAAAAA-A
1 TAAAAGAAAAGAAAAAAAGA
75211 TAAAAGAAAAGAAAAAAAGA
1 TAAAAGAAAAGAAAAAAAGA
*
75231 -GAAAGAAAAGAAAAAAAGA
1 TAAAAGAAAAGAAAAAAAGA
75250 AAGAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 10 0.29
19 24 0.69
20 1 0.03
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (20 bp):
TAAAAGAAAAGAAAAAAAGA
Found at i:75236 original size:31 final size:31
Alignment explanation
Indices: 75194--75277 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 31
75184 AAAAAATATT
*
75194 AAAAGAAAAAGAAAA-AATAAAAGAAAAGAAA
1 AAAAGAAAAAGAAAAGAAAAAAAG-AAAGAAA
*
75225 AAAAGAGAAAGAAAAGAAAAAAAGAAAGAAAAA
1 AAAAGAAAAAGAAAAGAAAAAAAGAAAG--AAA
*
75258 AAAAGGAAAAGGAAAAGAAA
1 AAAA-GAAAAAGAAAAGAAA
75278 TATATATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
31 18 0.40
32 7 0.16
33 7 0.16
34 13 0.29
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.01
Consensus pattern (31 bp):
AAAAGAAAAAGAAAAGAAAAAAAGAAAGAAA
Found at i:79470 original size:17 final size:17
Alignment explanation
Indices: 79448--79482 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
79438 TGGACTGTAG
*
79448 AACATTCGTAGTAGTGC
1 AACATTCATAGTAGTGC
*
79465 AACATTCATATTAGTGC
1 AACATTCATAGTAGTGC
79482 A
1 A
79483 TCGTCTACTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (17 bp):
AACATTCATAGTAGTGC
Found at i:80329 original size:21 final size:21
Alignment explanation
Indices: 80305--80345 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
80295 AGTAGAAGAT
* *
80305 GAGGAAGGATTACCTTGGTAA
1 GAGGAAGAAGTACCTTGGTAA
*
80326 GAGGATGAAGTACCTTGGTA
1 GAGGAAGAAGTACCTTGGTA
80346 TTGTTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.34, T:0.24
Consensus pattern (21 bp):
GAGGAAGAAGTACCTTGGTAA
Found at i:82794 original size:14 final size:14
Alignment explanation
Indices: 82775--82802 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82765 TTTGTCGCTT
82775 ACAAAATTTTCATA
1 ACAAAATTTTCATA
82789 ACAAAATTTTCATA
1 ACAAAATTTTCATA
82803 TAATAACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
ACAAAATTTTCATA
Found at i:84307 original size:20 final size:20
Alignment explanation
Indices: 84260--84311 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
84250 ATCGAGGATC
84260 AGTATCGATACTGATTGAAGGG
1 AGTATCGATACTGA-T-AAGGG
84282 -GTATCGATACTGA-AAGGG
1 AGTATCGATACTGATAAGGG
84300 TAGTATCGATAC
1 -AGTATCGATAC
84312 CAAGAGTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.18
20 10 0.36
21 13 0.46
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.27
Consensus pattern (20 bp):
AGTATCGATACTGATAAGGG
Found at i:91185 original size:18 final size:20
Alignment explanation
Indices: 91162--91200 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
91152 CTGATACTGA
91162 AAGAGT-AG-TATCGATACC
1 AAGAGTAAGATATCGATACC
91180 AAGAGTAAGATATCGATACC
1 AAGAGTAAGATATCGATACC
91200 A
1 A
91201 TTTTTTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (20 bp):
AAGAGTAAGATATCGATACC
Found at i:91272 original size:18 final size:18
Alignment explanation
Indices: 91233--91272 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
91223 ATGTCGAAAT
*
91233 GGTATCGATACCAATGAG
1 GGTATCGATACCAATGAA
91251 GGTATCGATACCATAT-AA
1 GGTATCGATACCA-ATGAA
91269 GGTA
1 GGTA
91273 AGTATCGGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (18 bp):
GGTATCGATACCAATGAA
Found at i:91879 original size:23 final size:24
Alignment explanation
Indices: 91810--91895 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 24
91800 GGGTTCTATA
* * * *
91810 TGGTCATTCGCGACTAAA-TTATA
1 TGGTCCTTCGGGACAAAACTTATG
* *
91833 TGGTCCTTCAGGACAAAACCTATG
1 TGGTCCTTCGGGACAAAACTTATG
91857 TGGTCCTTCGGGA-AAAACTTATG
1 TGGTCCTTCGGGACAAAACTTATG
*
91880 TGGTCATTCGGGACAA
1 TGGTCCTTCGGGACAA
91896 TTATATTTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 35 0.67
24 17 0.33
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
TGGTCCTTCGGGACAAAACTTATG
Found at i:96709 original size:59 final size:59
Alignment explanation
Indices: 96617--96737 Score: 172
Period size: 59 Copynumber: 2.1 Consensus size: 59
96607 GGAGGGTTGG
* * *
96617 TTAGAGCCATATTATCAAGTTTGCATTTTCATTGCGACTAGGAGGATTCGATAGGACAC
1 TTAGAACCATATTATCAAGTTTGCATTTTCATTGCGACTAAGAGGACTCGATAGGACAC
* * *
96676 TTAGAACCATATTATCGAGTTTGTC-TTTTCATTGTGACTAAGAGGGCTCGATAGGACAC
1 TTAGAACCATATTATCAAGTTTG-CATTTTCATTGCGACTAAGAGGACTCGATAGGACAC
96735 TTA
1 TTA
96738 CCCATCTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 54 0.98
60 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (59 bp):
TTAGAACCATATTATCAAGTTTGCATTTTCATTGCGACTAAGAGGACTCGATAGGACAC
Found at i:100085 original size:20 final size:19
Alignment explanation
Indices: 100060--100117 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 19
100050 GAGTACAAAA
100060 AGAAAGAAAAGACAAA-AAGT
1 AGAAAGAAAAGA-AAAGAA-T
100080 AGAAAGAAAAGAAAAGAAT
1 AGAAAGAAAAGAAAAGAAT
*
100099 A-AAAGAAAAAGAATAGAAT
1 AGAAAG-AAAAGAAAAGAAT
100118 TTCAAAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 4 0.11
19 17 0.49
20 14 0.40
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.07
Consensus pattern (19 bp):
AGAAAGAAAAGAAAAGAAT
Found at i:104070 original size:16 final size:18
Alignment explanation
Indices: 104044--104087 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
104034 CGTAATCATA
* *
104044 AAAATATAAAATTTA-TT
1 AAAATAAAAAATTAATTT
104061 -AAATAAAAAATTAATTT
1 AAAATAAAAAATTAATTT
104078 AAAATAAAAA
1 AAAATAAAAA
104088 TGAATTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.52
17 2 0.09
18 9 0.39
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATAAAAAATTAATTT
Found at i:104086 original size:17 final size:17
Alignment explanation
Indices: 104044--104095 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
104034 CGTAATCATA
*
104044 AAAATATAAAATTTA-TT
1 AAAATA-AAAATTAATTT
104061 -AAATAAAAAATTAATTT
1 AAAAT-AAAAATTAATTT
*
104078 AAAATAAAAATGAATTT
1 AAAATAAAAATTAATTT
104095 A
1 A
104096 TGTTACATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 11 0.37
17 15 0.50
18 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATAAAAATTAATTT
Found at i:106040 original size:29 final size:30
Alignment explanation
Indices: 106007--106086 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
105997 CAAAATATAT
*
106007 AACTTTTGAAAATTATATTTTTGTCC-CTA
1 AACTTTTGAAAATTATATTTTTGGCCTCTA
*
106036 AACTTTT-ATAAA-TATATACTTTGGCCTCTA
1 AACTTTTGA-AAATTATAT-TTTTGGCCTCTA
*
106066 AACTTTCGAAAATTAT-TTTTT
1 AACTTTTGAAAATTATATTTTT
106087 AGTAACTAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
28 6 0.14
29 19 0.45
30 13 0.31
31 4 0.10
ACGTcount: A:0.33, C:0.14, G:0.06, T:0.47
Consensus pattern (30 bp):
AACTTTTGAAAATTATATTTTTGGCCTCTA
Found at i:108946 original size:21 final size:21
Alignment explanation
Indices: 108918--108971 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
108908 TCTATTTATG
108918 AAGGTACTTCATCTACATACC
1 AAGGTACTTCATCTACATACC
* * *
108939 AAGTTACTTCAACTACTTACC
1 AAGGTACTTCATCTACATACC
*
108960 AAGGTAATTCAT
1 AAGGTACTTCAT
108972 ATACTTTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.24, G:0.09, T:0.31
Consensus pattern (21 bp):
AAGGTACTTCATCTACATACC
Found at i:111327 original size:22 final size:22
Alignment explanation
Indices: 111302--111343 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
111292 CAATTCATTT
111302 ATCTT-TTCTTTATCTTGTTTTA
1 ATCTTATT-TTTATCTTGTTTTA
111324 ATCTTATTTTTATCTTGTTT
1 ATCTTATTTTTATCTTGTTT
111344 CCAACACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.14, C:0.12, G:0.05, T:0.69
Consensus pattern (22 bp):
ATCTTATTTTTATCTTGTTTTA
Found at i:111693 original size:22 final size:23
Alignment explanation
Indices: 111658--111706 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
111648 TTGCTATTTA
*
111658 AAAAAAAGACAAATAAAAAAGGC
1 AAAAAAAGACAAATAAAAAAGCC
*
111681 AAAAAAATA-AAATAAAAAAGCC
1 AAAAAAAGACAAATAAAAAAGCC
111703 AAAA
1 AAAA
111707 TTTCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (23 bp):
AAAAAAAGACAAATAAAAAAGCC
Found at i:116533 original size:14 final size:14
Alignment explanation
Indices: 116514--116541 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
116504 TTAATGCGAC
116514 ATTTTTTAAATATT
1 ATTTTTTAAATATT
116528 ATTTTTTAAATATT
1 ATTTTTTAAATATT
116542 TTTATTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTTTTAAATATT
Found at i:116853 original size:15 final size:17
Alignment explanation
Indices: 116823--116855 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
116813 TTGCATTGTG
116823 CCTTTGAAGCTTCTTTT
1 CCTTTGAAGCTTCTTTT
116840 CCTTTG-AG-TTCTTTT
1 CCTTTGAAGCTTCTTTT
116855 C
1 C
116856 AAGTTCTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.09, C:0.24, G:0.12, T:0.55
Consensus pattern (17 bp):
CCTTTGAAGCTTCTTTT
Found at i:120107 original size:58 final size:58
Alignment explanation
Indices: 119974--120089 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
119964 TAGCCATTCA
119974 CCTATGTAAAGTGTGAAAAAAACAATAAGTTAGCCAACATGACACAATGCATGACTAG
1 CCTATGTAAAGTGTGAAAAAAACAATAAGTTAGCCAACATGACACAATGCATGACTAG
120032 CCTATGTAAAGTGTGAAAAAAACAATAAGTTAGCCAACATGACACAATGCATGACTAG
1 CCTATGTAAAGTGTGAAAAAAACAATAAGTTAGCCAACATGACACAATGCATGACTAG
120090 ATAAGCATGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (58 bp):
CCTATGTAAAGTGTGAAAAAAACAATAAGTTAGCCAACATGACACAATGCATGACTAG
Found at i:128370 original size:53 final size:53
Alignment explanation
Indices: 128298--128413 Score: 169
Period size: 53 Copynumber: 2.2 Consensus size: 53
128288 GTTGCACCTA
* *
128298 AGTGCCGAAATGATAATTCACAAACTCATTATGAATTCCATGTATGCACACAT
1 AGTGCCGAAATGATAATTCACAAACTCATTATGAATACCATGGATGCACACAT
* * * * *
128351 AGTGCTGAAATGGTCATTCATAAACTCATTATGAATACCATGGGTGCACACAT
1 AGTGCCGAAATGATAATTCACAAACTCATTATGAATACCATGGATGCACACAT
128404 AGTGCCGAAA
1 AGTGCCGAAA
128414 GTTCATATAG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (53 bp):
AGTGCCGAAATGATAATTCACAAACTCATTATGAATACCATGGATGCACACAT
Found at i:128509 original size:48 final size:48
Alignment explanation
Indices: 128449--128574 Score: 234
Period size: 48 Copynumber: 2.6 Consensus size: 48
128439 AGGACATACA
128449 CATTAAACAAAATCGATCGATAACCATCATATGAAAATGCAACTTATG
1 CATTAAACAAAATCGATCGATAACCATCATATGAAAATGCAACTTATG
* *
128497 CATTGAACAAAATCGATCGATAATCATCATATGAAAATGCAACTTATG
1 CATTAAACAAAATCGATCGATAACCATCATATGAAAATGCAACTTATG
128545 CATTAAACAAAATCGATCGATAACCATCAT
1 CATTAAACAAAATCGATCGATAACCATCAT
128575 GCACAAAGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.25
Consensus pattern (48 bp):
CATTAAACAAAATCGATCGATAACCATCATATGAAAATGCAACTTATG
Found at i:137207 original size:12 final size:12
Alignment explanation
Indices: 137190--137222 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
137180 TAAAAAAGGA
137190 AAAATAATAAAT
1 AAAATAATAAAT
137202 AAAATAATAAAT
1 AAAATAATAAAT
137214 AAAGATAAT
1 AAA-ATAAT
137223 GCTAAAGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (12 bp):
AAAATAATAAAT
Found at i:137279 original size:23 final size:23
Alignment explanation
Indices: 137253--137296 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
137243 TTTTAATTGT
137253 TTAAAGAAATAAAAAAATAAAGA
1 TTAAAGAAATAAAAAAATAAAGA
* **
137276 TTAAATAAATAATTAAATAAA
1 TTAAAGAAATAAAAAAATAAA
137297 TAAAATAGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (23 bp):
TTAAAGAAATAAAAAAATAAAGA
Found at i:137292 original size:12 final size:12
Alignment explanation
Indices: 137253--137299 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
137243 TTTTAATTGT
*
137253 TTAAAGAAATAA
1 TTAAATAAATAA
** *
137265 AAAAATAAA-GA
1 TTAAATAAATAA
137276 TTAAATAAATAA
1 TTAAATAAATAA
137288 TTAAATAAATAA
1 TTAAATAAATAA
137300 AATAGATTAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
11 8 0.30
12 19 0.70
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (12 bp):
TTAAATAAATAA
Found at i:139131 original size:24 final size:24
Alignment explanation
Indices: 139086--139132 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
139076 TCCTCTGTTG
*
139086 TTCGAAACAGTGAACATCTTTTTT
1 TTCGAAACAGTGAACATATTTTTT
* **
139110 TTCGGAACAGTGAATTTATTTTT
1 TTCGAAACAGTGAACATATTTTT
139133 CATTTCTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.45
Consensus pattern (24 bp):
TTCGAAACAGTGAACATATTTTTT
Found at i:148786 original size:36 final size:36
Alignment explanation
Indices: 148746--148823 Score: 156
Period size: 36 Copynumber: 2.2 Consensus size: 36
148736 CAAAATGCTT
148746 GATGGACTAGGATGAAAAGCATTTTACTGGTTCCTC
1 GATGGACTAGGATGAAAAGCATTTTACTGGTTCCTC
148782 GATGGACTAGGATGAAAAGCATTTTACTGGTTCCTC
1 GATGGACTAGGATGAAAAGCATTTTACTGGTTCCTC
148818 GATGGA
1 GATGGA
148824 TATTCAGGGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (36 bp):
GATGGACTAGGATGAAAAGCATTTTACTGGTTCCTC
Found at i:160304 original size:44 final size:44
Alignment explanation
Indices: 160205--160305 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
160195 TATGATTGAC
* * *
160205 TCAAATGAAAT-ATATTTATCTCAAGCTTCTTATATATTGGTGAA
1 TCAAAT-AAATAATATATATCTCAAGCTTCTTACATATGGGTGAA
160249 TCAAATAAATAATATATATCTCAAG-TT-TTCCACATATGGGTGAA
1 TCAAATAAATAATATATATCTCAAGCTTCTT--ACATATGGGTGAA
160293 TCAAATAAATAAT
1 TCAAATAAATAAT
160306 GCATTTTTGG
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
42 2 0.04
43 6 0.12
44 43 0.84
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.37
Consensus pattern (44 bp):
TCAAATAAATAATATATATCTCAAGCTTCTTACATATGGGTGAA
Found at i:160513 original size:16 final size:16
Alignment explanation
Indices: 160492--160524 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
160482 TAATAAATAG
160492 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
160508 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
160524 A
1 A
160525 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:160605 original size:10 final size:10
Alignment explanation
Indices: 160590--160664 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
160580 CATTTAATAA
160590 ATAAACGAAC
1 ATAAACGAAC
160600 ATAAACGAAC
1 ATAAACGAAC
160610 ----ACGAAC
1 ATAAACGAAC
160616 ATAAACGAAC
1 ATAAACGAAC
** *
160626 ACGAAC-ATAA
1 ATAAACGA-AC
160636 ATGAACACGAAC
1 AT-AA-ACGAAC
160648 ATAAACGAAC
1 ATAAACGAAC
160658 ATAAACG
1 ATAAACG
160665 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:160615 original size:16 final size:16
Alignment explanation
Indices: 160594--160658 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
160584 TAATAAATAA
160594 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
160610 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
160626 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
160642 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
160658 A
1 A
160659 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:171184 original size:20 final size:19
Alignment explanation
Indices: 171141--171196 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
171131 CGTTGAATAG
* * *
171141 TGGGGGAATGGGTACGCCC
1 TGGGGGAATCGGTTCCCCC
171160 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGGTTCCCCC
*
171179 TGGGGGGAATCGATTCCC
1 T-GGGGGAATCGGTTCCC
171197 TCTGAGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.14, C:0.25, G:0.41, T:0.20
Consensus pattern (19 bp):
TGGGGGAATCGGTTCCCCC
Found at i:173178 original size:26 final size:26
Alignment explanation
Indices: 173148--173202 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
173138 TTTGTAAAAA
173148 AAATGGCGATCATAACTAACAAAACT
1 AAATGGCGATCATAACTAACAAAACT
173174 AAATGGCGATCATAACTAACAAAACT
1 AAATGGCGATCATAACTAACAAAACT
173200 AAA
1 AAA
173203 AGATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (26 bp):
AAATGGCGATCATAACTAACAAAACT
Found at i:174345 original size:18 final size:18
Alignment explanation
Indices: 174318--174362 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
174308 ATTGAAATCT
*
174318 CAACTTAAAGAAAATAAA
1 CAACTCAAAGAAAATAAA
* * *
174336 TAACTCAAAGTAGATAAA
1 CAACTCAAAGAAAATAAA
174354 CAACTCAAA
1 CAACTCAAA
174363 AAAGATGAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.60, C:0.16, G:0.07, T:0.18
Consensus pattern (18 bp):
CAACTCAAAGAAAATAAA
Found at i:174368 original size:18 final size:18
Alignment explanation
Indices: 174318--174368 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
174308 ATTGAAATCT
*
174318 CAACTTAAAGAAA-ATAAA
1 CAACTCAAA-AAAGATAAA
* **
174336 TAACTCAAAGTAGATAAA
1 CAACTCAAAAAAGATAAA
174354 CAACTCAAAAAAGAT
1 CAACTCAAAAAAGAT
174369 GAAGCAATCA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.61, C:0.14, G:0.08, T:0.18
Consensus pattern (18 bp):
CAACTCAAAAAAGATAAA
Found at i:174503 original size:11 final size:11
Alignment explanation
Indices: 174487--174513 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
174477 CTCTTTTTAA
174487 TAAATGATTTT
1 TAAATGATTTT
174498 TAAATGATTTT
1 TAAATGATTTT
174509 TAAAT
1 TAAAT
174514 TAATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (11 bp):
TAAATGATTTT
Found at i:176858 original size:26 final size:27
Alignment explanation
Indices: 176809--176870 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
176799 TACTTTTGTT
* *
176809 TGATGCACAATATTCCATCTTTCGAG-
1 TGATGCATAATATTCCATCATTCGAGA
**
176835 TGATGCATAATATTTTATCATTCGAGA
1 TGATGCATAATATTCCATCATTCGAGA
*
176862 TTATGCATA
1 TGATGCATA
176871 TGGACAACTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (27 bp):
TGATGCATAATATTCCATCATTCGAGA
Found at i:183133 original size:33 final size:34
Alignment explanation
Indices: 183094--183188 Score: 120
Period size: 34 Copynumber: 2.8 Consensus size: 34
183084 TCTTCGTTGT
* * *
183094 AAATGTCAATCCACTTCCTTATGTGATGAA-TTA
1 AAATGTCGATCCACCTCCTTCTGTGATGAATTTA
* * * *
183127 AGATGTCGATCCACCTCTTTCGGTAATGAATTTA
1 AAATGTCGATCCACCTCCTTCTGTGATGAATTTA
183161 AAATGTCGATCCACCTCCTTCTGTGATG
1 AAATGTCGATCCACCTCCTTCTGTGATG
183189 GAATCGAACG
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
33 23 0.46
34 27 0.54
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (34 bp):
AAATGTCGATCCACCTCCTTCTGTGATGAATTTA
Found at i:183398 original size:133 final size:133
Alignment explanation
Indices: 183160--183537 Score: 630
Period size: 133 Copynumber: 2.8 Consensus size: 133
183150 TAATGAATTT
*
183160 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* * *
183225 CTGTGATAGAATCGAGCAAAAAGTTGACGCTTATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAA
183290 ATA
131 ATA
* *
183293 AAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTAGATGTTGATCTACCTCCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* *
183358 CTGTGATAGAATCGAGCTAAAAGTTGAAGCTGGTCCAACTCCTTCTGCGATGGATTTGAGCAAAA
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAA
183423 ATA
131 ATA
* * * *
183426 AAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACGAGATGTCGATGTTTATCTACATCCTT
1 AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
* *
183491 CTGTGGTAGAATCGAGCTAAAAGTTTACGCTGATCCAACTCCTTCTG
66 CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTG
183538 TGATAGAATC
Statistics
Matches: 227, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
133 227 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (133 bp):
AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTT
CTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAA
ATA
Found at i:183505 original size:177 final size:177
Alignment explanation
Indices: 183309--183714 Score: 580
Period size: 177 Copynumber: 2.3 Consensus size: 177
183299 TCGATCCACC
* * * * * * * *
183309 TCCTTTTGTGATGGAATCGAACGAGATGTAGATGTTGATCTACCTCCTTCTGTGATAGAATCGAG
1 TCCTTCTGTGATAGAATCGAACGAAAAGTAGACGCTGATCCAACTCCTTCTGTGATAGAATCGAG
*
183374 CTAAAAGTTGAAGCTGGTCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTTGATCC
66 CTAAAAGTTGAAGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTTGATCC
* * *
183439 ACCTCCTTCTATGATGGAATCGAACGAGATGTCGATGTTTATCTACA
131 ACCTCCTTCTATGATAGAATCGAACGAGATGTCGATGCTGATCTACA
* * * **
183486 TCCTTCTGTGGTAGAATCGAGCTAAAAGTTTACGCTGATCCAACTCCTTCTGTGATAGAATCGAG
1 TCCTTCTGTGATAGAATCGAACGAAAAGTAGACGCTGATCCAACTCCTTCTGTGATAGAATCGAG
* * *
183551 CTAAAAGTTGACGCTGATCCAACTCCTTTTGCGATGGATTTGAGCGAAAATAAAAATGTTGATCC
66 CTAAAAGTTGAAGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTTGATCC
* *
183616 ACCTCCTTCTGTGATAGAATCGAATGAGATGTCGATGCTGATCTACA
131 ACCTCCTTCTATGATAGAATCGAACGAGATGTCGATGCTGATCTACA
* *
183663 TCCTTCTGTGATAGAATCGAGCAAAAAGTTA-ACGCTGATCCAACTCCTTCTG
1 TCCTTCTGTGATAGAATCGAACGAAAAG-TAGACGCTGATCCAACTCCTTCTG
183715 CGATGGATTT
Statistics
Matches: 203, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
177 202 1.00
178 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (177 bp):
TCCTTCTGTGATAGAATCGAACGAAAAGTAGACGCTGATCCAACTCCTTCTGTGATAGAATCGAG
CTAAAAGTTGAAGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATGTTGATCC
ACCTCCTTCTATGATAGAATCGAACGAGATGTCGATGCTGATCTACA
Found at i:183610 original size:133 final size:133
Alignment explanation
Indices: 183486--184092 Score: 792
Period size: 133 Copynumber: 4.6 Consensus size: 133
183476 TTTATCTACA
* * * * ** *
183486 TCCTTCTGTGGTAGAATCGAGCTAAAAGTTTACGCTGATCCAACTCCTTCTGTGATAGAATCGAG
1 TCCTTCTGTGATGGAATCGAACTAAATGTCGATGCTGATCCAACTCCTTCTGTGATAGAATCGAG
* *
183551 CTAAAAGTTGACGCTGATCCAACTCCTTTTGCGATGGATTTGAGCGAAAATAAAAATGTTGATCC
66 CTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
183616 ACC
131 ACC
* * *
183619 TCCTTCTGTGATAGAATCGAA-TGAGATGTCGATGCTGAT-CTACATCCTTCTGTGATAGAATCG
1 TCCTTCTGTGATGGAATCGAACT-AAATGTCGATGCTGATCCAAC-TCCTTCTGTGATAGAATCG
* *
183682 AGCAAAAAGTTAACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGAT
64 AGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGAT
183747 CCACC
129 CCACC
* * * *
183752 TCCTTCTGTGATGGAATCGAAC-AAGATGGCGATGCTGATCTACCTCCTTCTGTGATAAAATCGA
1 TCCTTCTGTGATGGAATCGAACTAA-ATGTCGATGCTGATCCAACTCCTTCTGTGATAGAATCGA
*
183816 GCTAAAAGTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT-AAAATGTCGATC
65 GCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATC
183880 CACC
130 CACC
* * * * * * * * *
183884 TCCTTCTGTGATGGAATCGAACGAGATGTCAATGTTGATCTACCTCCTACTGTGGTAGAATTGAG
1 TCCTTCTGTGATGGAATCGAACTAAATGTCGATGCTGATCCAACTCCTTCTGTGATAGAATCGAG
* * *
183949 TTAAAAGTTGACGCTGATCCAACTCATTATGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
66 CTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
184014 ACC
131 ACC
* * * * * * * *
184017 TCCTTCTGTGATGGAATCGAACGAGATGTCGATGTTGATCTACCTCCTTCCGTGGTAAAATCGAG
1 TCCTTCTGTGATGGAATCGAACTAAATGTCGATGCTGATCCAACTCCTTCTGTGATAGAATCGAG
184082 -TAAAAAGTTGA
66 CT-AAAAGTTGA
184093 ACAATCTCTT
Statistics
Matches: 427, Mismatches: 39, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
132 124 0.29
133 302 0.71
134 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.29
Consensus pattern (133 bp):
TCCTTCTGTGATGGAATCGAACTAAATGTCGATGCTGATCCAACTCCTTCTGTGATAGAATCGAG
CTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCC
ACC
Found at i:183738 original size:310 final size:310
Alignment explanation
Indices: 183209--183847 Score: 1028
Period size: 310 Copynumber: 2.1 Consensus size: 310
183199 AGATGTCGAT
* * *
183209 GCTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTTATCCAACTCCTTCTGCG
1 GCTGATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCG
* *
183274 ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTTTGTGATGGAATCGAACGAGATGTA
66 ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTA
* * * *
183339 GATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGAAGCTGGTCCAACTCCTTCT
131 GATGCTGATCTACATCCTTCTGTGATAGAATCGAGCAAAAAGTTGAAGCTGATCCAACTCCTTCT
* *
183404 GCGATGGATTTGAGCAAAAATAAAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACGAGAT
196 GCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCCTTCTATGATGGAATCGAACAAGAT
* * * * * *
183469 GTCGATGTTTATCTACATCCTTCTGTGGTAGAATCGAGCTAAAAGTTTAC
261 GGCGATGCTGATCTACATCCTTCTGTGATAAAATCGAGCTAAAAGTTGAC
* *
183519 GCTGATCCAACTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTTTGCG
1 GCTGATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCG
* * *
183584 ATGGATTTGAGCGAAAATAAAAATGTTGATCCACCTCCTTCTGTGATAGAATCGAATGAGATGTC
66 ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTA
183649 GATGCTGATCTACATCCTTCTGTGATAGAATCGAGCAAAAAGTT-AACGCTGATCCAACTCCTTC
131 GATGCTGATCTACATCCTTCTGTGATAGAATCGAGCAAAAAGTTGAA-GCTGATCCAACTCCTTC
* *
183713 TGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGA
195 TGCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCCTTCTATGATGGAATCGAACAAGA
*
183778 TGGCGATGCTGATCTACCTCCTTCTGTGATAAAATCGAGCTAAAAGTTGAC
260 TGGCGATGCTGATCTACATCCTTCTGTGATAAAATCGAGCTAAAAGTTGAC
*
183829 GTTGATCCAACTCCTTCTG
1 GCTGATCCAACTCCTTCTG
183848 CGATGGATTT
Statistics
Matches: 302, Mismatches: 26, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
309 2 0.01
310 300 0.99
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (310 bp):
GCTGATCCAACTCCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCG
ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTA
GATGCTGATCTACATCCTTCTGTGATAGAATCGAGCAAAAAGTTGAAGCTGATCCAACTCCTTCT
GCGATGGATTTGAGCAAAAATAAAAATGTCGATCCACCTCCTTCTATGATGGAATCGAACAAGAT
GGCGATGCTGATCTACATCCTTCTGTGATAAAATCGAGCTAAAAGTTGAC
Found at i:183799 original size:177 final size:177
Alignment explanation
Indices: 183352--183815 Score: 513
Period size: 177 Copynumber: 2.6 Consensus size: 177
183342 GTTGATCTAC
* * * * * *
183352 CTCCTTCTGTGATAGAATCGAGCTAAAAGTTGAA-GCTGGTCCAACTCCTTCTGCGATGGATTTG
1 CTCCTTCTGCGATAGAATCGAGCGAAAAG-TAAACGCTGATCCAACTCCTTCTGCGATGGAATCG
* * * * * * *
183416 AGCAAAAATAAAAATGTTGATCCACCTCCTTCTATGATGGAATCGAACGAGATGTCGATGTTTAT
65 AACGAAAATAAAAATGCTGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTCGATGCTGAT
* * *
183481 CTACATCCTTCTGTGGTAGAATCGAGCTAAAAGTTTACGCTGATCCAA
130 CTACATCCTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAA
* * ** * * *
183529 CTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTTTGCGATGGATTTGA
1 CTCCTTCTGCGATAGAATCGAGCGAAAAGTAAACGCTGATCCAACTCCTTCTGCGATGGAATCGA
* * *
183594 GCGAAAATAAAAATGTTGATCCACCTCCTTCTGTGATAGAATCGAATGAGATGTCGATGCTGATC
66 ACGAAAATAAAAATGCTGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTCGATGCTGATC
183659 TACATCCTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAA
131 TACATCCTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAA
* * * * * *
183706 CTCCTTCTGCGATGGATTTGAGCGAAAA-TAAAAATG-TCGATCCACCTCCTTCTGTGATGGAAT
1 CTCCTTCTGCGATAGAATCGAGCGAAAAGT--AAACGCT-GATCCAACTCCTTCTGCGATGGAAT
* **** * *
183769 CGAAC-AAGATGGCGATGCTGATCTACCTCCTTCTGTGATAAAATCGA
63 CGAACGAAAATAAAAATGCTGATCCACCTCCTTCTGTGATAGAATCGA
183816 GCTAAAAGTT
Statistics
Matches: 248, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
176 3 0.01
177 219 0.88
178 26 0.10
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (177 bp):
CTCCTTCTGCGATAGAATCGAGCGAAAAGTAAACGCTGATCCAACTCCTTCTGCGATGGAATCGA
ACGAAAATAAAAATGCTGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTCGATGCTGATC
TACATCCTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAA
Found at i:183968 original size:265 final size:266
Alignment explanation
Indices: 183519--184092 Score: 909
Period size: 265 Copynumber: 2.2 Consensus size: 266
183509 AAAAGTTTAC
* * * *
183519 GCTGATCCAACTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTTTGCG
1 GCTGATCTACCTCCTTCTGTGATAAAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCG
* *
183584 ATGGATTTGAGCGAAAATAAAAATGTTGATCCACCTCCTTCTGTGATAGAATCGAATGAGATGTC
66 ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTC
* * * *
183649 GATGCTGATCTACATCCTTCTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAACTCCTTCT
131 AATGCTGATCTACATCCTACTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAACTCATTAT
183714 GCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGAT
196 GCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGAT
183779 GGCGAT
261 GGCGAT
*
183785 GCTGATCTACCTCCTTCTGTGATAAAATCGAGCTAAAAGTTGACGTTGATCCAACTCCTTCTGCG
1 GCTGATCTACCTCCTTCTGTGATAAAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCG
*
183850 ATGGATTTGAGCGAAAAT-AAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTC
66 ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTC
* * * * ** *
183914 AATGTTGATCTACCTCCTACTGTGGTAGAATTGAGTTAAAAGTTGACGCTGATCCAACTCATTAT
131 AATGCTGATCTACATCCTACTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAACTCATTAT
*
183979 GCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGAT
196 GCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGAT
*
184044 GTCGAT
261 GGCGAT
* * *
184050 GTTGATCTACCTCCTTCCGTGGTAAAATCGAG-TAAAAAGTTGA
1 GCTGATCTACCTCCTTCTGTGATAAAATCGAGCT-AAAAGTTGA
184093 ACAATCTCTT
Statistics
Matches: 283, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
264 1 0.00
265 204 0.72
266 78 0.28
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (266 bp):
GCTGATCTACCTCCTTCTGTGATAAAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCG
ATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATAGAATCGAACGAGATGTC
AATGCTGATCTACATCCTACTGTGATAGAATCGAGCAAAAAGTTAACGCTGATCCAACTCATTAT
GCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACAAGAT
GGCGAT
Found at i:188534 original size:16 final size:16
Alignment explanation
Indices: 188513--188543 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
188503 TGATACTAAA
188513 TCTTTTCAACACTTTT
1 TCTTTTCAACACTTTT
*
188529 TCTTTTCAATACTTT
1 TCTTTTCAACACTTT
188544 GTCTATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (16 bp):
TCTTTTCAACACTTTT
Found at i:198954 original size:146 final size:146
Alignment explanation
Indices: 198690--198982 Score: 586
Period size: 146 Copynumber: 2.0 Consensus size: 146
198680 TCATTTCTTG
198690 TAGCATTGTTTAACTTCCTATAGTCCATACAAACATGTTAGCCTGTAGTAGTGTGTGTTGAAGCC
1 TAGCATTGTTTAACTTCCTATAGTCCATACAAACATGTTAGCCTGTAGTAGTGTGTGTTGAAGCC
198755 AATTTATTCTTTTCATTAAGCACTAAAATGATGCCACCTTTTTTTGGGAGCATATTGAATAGGGT
66 AATTTATTCTTTTCATTAAGCACTAAAATGATGCCACCTTTTTTTGGGAGCATATTGAATAGGGT
198820 TTACCCACTAGCTATC
131 TTACCCACTAGCTATC
198836 TAGCATTGTTTAACTTCCTATAGTCCATACAAACATGTTAGCCTGTAGTAGTGTGTGTTGAAGCC
1 TAGCATTGTTTAACTTCCTATAGTCCATACAAACATGTTAGCCTGTAGTAGTGTGTGTTGAAGCC
198901 AATTTATTCTTTTCATTAAGCACTAAAATGATGCCACCTTTTTTTGGGAGCATATTGAATAGGGT
66 AATTTATTCTTTTCATTAAGCACTAAAATGATGCCACCTTTTTTTGGGAGCATATTGAATAGGGT
198966 TTACCCACTAGCTATC
131 TTACCCACTAGCTATC
198982 T
1 T
198983 GAAATAAGGA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (146 bp):
TAGCATTGTTTAACTTCCTATAGTCCATACAAACATGTTAGCCTGTAGTAGTGTGTGTTGAAGCC
AATTTATTCTTTTCATTAAGCACTAAAATGATGCCACCTTTTTTTGGGAGCATATTGAATAGGGT
TTACCCACTAGCTATC
Found at i:200548 original size:8 final size:8
Alignment explanation
Indices: 200535--200559 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
200525 ATCAAAAAGG
200535 AAAATAAA
1 AAAATAAA
200543 AAAATAAA
1 AAAATAAA
200551 AAAATAAA
1 AAAATAAA
200559 A
1 A
200560 GGAACAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAATAAA
Found at i:218871 original size:20 final size:20
Alignment explanation
Indices: 218846--218885 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
218836 ACCTATGAAG
218846 GCAAGAAGGATCATTTACAA
1 GCAAGAAGGATCATTTACAA
218866 GCAAGAAGGATCATTTACAA
1 GCAAGAAGGATCATTTACAA
218886 TCTAAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.20
Consensus pattern (20 bp):
GCAAGAAGGATCATTTACAA
Found at i:229109 original size:40 final size:40
Alignment explanation
Indices: 229001--229093 Score: 186
Period size: 40 Copynumber: 2.3 Consensus size: 40
228991 ATTGCATCAA
229001 AGTGCTGAGGTCGAGCATTACTCACCTAATAATGCACCAT
1 AGTGCTGAGGTCGAGCATTACTCACCTAATAATGCACCAT
229041 AGTGCTGAGGTCGAGCATTACTCACCTAATAATGCACCAT
1 AGTGCTGAGGTCGAGCATTACTCACCTAATAATGCACCAT
229081 AGTGCTGAGGTCG
1 AGTGCTGAGGTCG
229094 GGTTTTACCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (40 bp):
AGTGCTGAGGTCGAGCATTACTCACCTAATAATGCACCAT
Found at i:235212 original size:13 final size:13
Alignment explanation
Indices: 235194--235218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
235184 ACCAATAAAC
235194 CATAAATCATAAT
1 CATAAATCATAAT
235207 CATAAATCATAA
1 CATAAATCATAA
235219 CCCATAGTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
CATAAATCATAAT
Found at i:245875 original size:14 final size:14
Alignment explanation
Indices: 245858--245886 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
245848 TATAGTTGGA
245858 GTCTTAAATGTTGT
1 GTCTTAAATGTTGT
245872 GTCTTAAATGTTGT
1 GTCTTAAATGTTGT
245886 G
1 G
245887 CGATAGGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (14 bp):
GTCTTAAATGTTGT
Found at i:256769 original size:25 final size:25
Alignment explanation
Indices: 256739--256795 Score: 105
Period size: 25 Copynumber: 2.3 Consensus size: 25
256729 AAATATTCAT
*
256739 TTAATGAGAAATATTCATTTTGCCA
1 TTAATGAGAAATATTCATTTTGCAA
256764 TTAATGAGAAATATTCATTTTGCAA
1 TTAATGAGAAATATTCATTTTGCAA
256789 TTAATGA
1 TTAATGA
256796 AACTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (25 bp):
TTAATGAGAAATATTCATTTTGCAA
Found at i:258175 original size:39 final size:39
Alignment explanation
Indices: 258132--258221 Score: 173
Period size: 39 Copynumber: 2.3 Consensus size: 39
258122 TTTTCCAATG
258132 TCTTTGGAGATCATAACTTTCTCATTGCGATAATCTGGA
1 TCTTTGGAGATCATAACTTTCTCATTGCGATAATCTGGA
258171 TCTTTGGAGATCATAACTTTCTCATTGCGATAATCTGGA
1 TCTTTGGAGATCATAACTTTCTCATTGCGATAATCTGGA
258210 TCTTTGGA-ATCA
1 TCTTTGGAGATCA
258222 ACTTTAGTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 4 0.08
39 47 0.92
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (39 bp):
TCTTTGGAGATCATAACTTTCTCATTGCGATAATCTGGA
Found at i:260564 original size:18 final size:18
Alignment explanation
Indices: 260531--260565 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
260521 TTAGTTATGA
* *
260531 AAAATAATATTTAAAATT
1 AAAATAATACTCAAAATT
260549 AAAATAATACTCAAAAT
1 AAAATAATACTCAAAAT
260566 AATAATTCCT
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:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAATAATACTCAAAATT
Found at i:269426 original size:65 final size:65
Alignment explanation
Indices: 269331--269470 Score: 183
Period size: 65 Copynumber: 2.2 Consensus size: 65
269321 TCCTGTACAA
* * *
269331 AGAATAAATTCTCACGATGACATAAGGTATAAGAACCCCA-AAGGTTACTTTCTAGGCCTGTATG
1 AGAATAAATCCTCACGAAGACATAAGGTATAAGAA-CCCATAAGGTTACTTGCTAGGCCTGTATG
269395 G
65 G
* * * * * *
269396 TGAATAAATCCTCATGAAGGCATAAGGTATAATAACCTATAAGGTTACTTGCTAGGTCTGTATGG
1 AGAATAAATCCTCACGAAGACATAAGGTATAAGAACCCATAAGGTTACTTGCTAGGCCTGTATGG
269461 AGAATAAATC
1 AGAATAAATC
269471 TTTAAGAAGG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 3 0.05
65 61 0.95
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (65 bp):
AGAATAAATCCTCACGAAGACATAAGGTATAAGAACCCATAAGGTTACTTGCTAGGCCTGTATGG
Found at i:270419 original size:37 final size:38
Alignment explanation
Indices: 270345--270421 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
270335 GTTAAAATTA
*
270345 ATACGCAAATTAAAAAAGGAATAAAAATGTGACAAAAC
1 ATACGAAAATTAAAAAAGGAATAAAAATGTGACAAAAC
*
270383 ATACGAAAATT-AAAAAGGAATAAATAAT-TGATAAAAC
1 ATACGAAAATTAAAAAAGGAATAAA-AATGTGACAAAAC
270420 AT
1 AT
270422 TTTTCTAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
37 23 0.64
38 13 0.36
ACGTcount: A:0.61, C:0.08, G:0.12, T:0.19
Consensus pattern (38 bp):
ATACGAAAATTAAAAAAGGAATAAAAATGTGACAAAAC
Found at i:273170 original size:17 final size:17
Alignment explanation
Indices: 273143--273201 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
273133 TTAAATTCAA
*
273143 TAAAGCTAGTTCTTTAAT
1 TAAA-CTAGTTCATTAAT
*
273161 TAAACTAGTTCATTCAT
1 TAAACTAGTTCATTAAT
* *
273178 TTAACTAGTTCAATAAT
1 TAAACTAGTTCATTAAT
273195 TAAACTA
1 TAAACTA
273202 ACTCTTTGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
17 31 0.89
18 4 0.11
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (17 bp):
TAAACTAGTTCATTAAT
Found at i:280686 original size:29 final size:29
Alignment explanation
Indices: 280654--280711 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
280644 AACATACTAG
*
280654 ATCATCCTAGACATAGAATAATTTCTCGT
1 ATCATCCTAGACATAGAATAATGTCTCGT
*
280683 ATCATCCTAGACATATAATAATGTCTCGT
1 ATCATCCTAGACATAGAATAATGTCTCGT
280712 CCTCGAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (29 bp):
ATCATCCTAGACATAGAATAATGTCTCGT
Found at i:282574 original size:21 final size:21
Alignment explanation
Indices: 282544--282585 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
282534 TTCGCTGCAA
*
282544 GATTTTATGGCCTCGACAAAT
1 GATTTCATGGCCTCGACAAAT
* *
282565 GATTTCATGGCTTTGACAAAT
1 GATTTCATGGCCTCGACAAAT
282586 ACCCTAATAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (21 bp):
GATTTCATGGCCTCGACAAAT
Found at i:302224 original size:19 final size:19
Alignment explanation
Indices: 302186--302224 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
302176 ATAGCCGTAA
* **
302186 AAAGAAAAAGAGGGGCAAG
1 AAAGAAAAAGAGAGAAAAG
302205 AAAGAAAAAGAGAGAAAAG
1 AAAGAAAAAGAGAGAAAAG
302224 A
1 A
302225 TTTACCTAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.03, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAGAAAAAGAGAGAAAAG
Found at i:308374 original size:17 final size:17
Alignment explanation
Indices: 308352--308384 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
308342 TAAGAGTTAA
308352 TTTAATAAATGAACTAG
1 TTTAATAAATGAACTAG
*
308369 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
308385 CTTCCCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.39
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:312395 original size:17 final size:17
Alignment explanation
Indices: 312361--312406 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
312351 AGTTATTTCT
* *
312361 TTAATTAAATTGGTTCA
1 TTAATTAAACTAGTTCA
* *
312378 TTCATTTAACTAGTTCA
1 TTAATTAAACTAGTTCA
312395 TTAATTAAACTA
1 TTAATTAAACTA
312407 ACTCTTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.37, C:0.11, G:0.07, T:0.46
Consensus pattern (17 bp):
TTAATTAAACTAGTTCA
Found at i:313285 original size:62 final size:62
Alignment explanation
Indices: 313212--313337 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 62
313202 CCGTACCGCG
313212 GGCTACGCCCCCGCACCCCCAACCCACATAATTTGTAACCCCAC-ACGAGACTTTCTTTGTAA
1 GGCTACGCCCCCGCACCCCCAACCCACATAATTTGTAACCCCACAACGAGAC-TTCTTTGTAA
313274 GGCTACGCCCCCGCACCCCCAACCCACATAATTTGTAACCCCACAACGAGACTTCTTTGTAA
1 GGCTACGCCCCCGCACCCCCAACCCACATAATTTGTAACCCCACAACGAGACTTCTTTGTAA
313336 GG
1 GG
313338 ACAGTTGTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 56 0.89
63 7 0.11
ACGTcount: A:0.26, C:0.40, G:0.14, T:0.20
Consensus pattern (62 bp):
GGCTACGCCCCCGCACCCCCAACCCACATAATTTGTAACCCCACAACGAGACTTCTTTGTAA
Found at i:318172 original size:17 final size:18
Alignment explanation
Indices: 318141--318175 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
318131 CATGAGATAA
318141 AAAAAATACCAATTTTGG
1 AAAAAATACCAATTTTGG
318159 AAAAAATACC-ATTTTGG
1 AAAAAATACCAATTTTGG
318176 TCTCTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
AAAAAATACCAATTTTGG
Found at i:323177 original size:158 final size:158
Alignment explanation
Indices: 322889--323204 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
322879 CAATCTAGAG
322889 ACGAAACGTTGGGCGCGTGTAATACACTCGCCGGTGATGGTCGATCTAGCTTCTGTGTTGATTGT
1 ACGAAACGTTGGGCGCGTGTAATACACTCGCCGGTGATGGTCGATCTAGCTTCTGTGTTGATTGT
322954 GGTAGTGGTTAAATGATACATTTAGCGTTCAAAAACCATAAGATGGGGTATCCTAAACCGTTGGA
66 GGTAGTGGTTAAATGATACATTTAGCGTTCAAAAACCATAAGATGGGGTATCCTAAACCGTTGGA
323019 TCAAATTTGATCTAACGGTTGTTAGTGA
131 TCAAATTTGATCTAACGGTTGTTAGTGA
323047 ACGAAACGTTGGGCGCGTGTAATACACTCGCCGGTGATGGTCGATCTAGCTTCTGTGTTGATTGT
1 ACGAAACGTTGGGCGCGTGTAATACACTCGCCGGTGATGGTCGATCTAGCTTCTGTGTTGATTGT
323112 GGTAGTGGTTAAATGATACATTTAGCGTTCAAAAACCATAAGATGGGGTATCCTAAACCGTTGGA
66 GGTAGTGGTTAAATGATACATTTAGCGTTCAAAAACCATAAGATGGGGTATCCTAAACCGTTGGA
323177 TCAAATTTGATCTAACGGTTGTTAGTGA
131 TCAAATTTGATCTAACGGTTGTTAGTGA
323205 GGTGGCGTTG
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (158 bp):
ACGAAACGTTGGGCGCGTGTAATACACTCGCCGGTGATGGTCGATCTAGCTTCTGTGTTGATTGT
GGTAGTGGTTAAATGATACATTTAGCGTTCAAAAACCATAAGATGGGGTATCCTAAACCGTTGGA
TCAAATTTGATCTAACGGTTGTTAGTGA
Found at i:323460 original size:3 final size:3
Alignment explanation
Indices: 323448--323500 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
323438 TAATTTGTAT
* * *
323448 TAA TAA -AA TAA T-A TAA TAA TAA TAA TAA CAA TAA CAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
323494 AAA TAA T
1 TAA TAA T
323501 TAAAAGTAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 38 0.90
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (3 bp):
TAA
Found at i:324421 original size:164 final size:165
Alignment explanation
Indices: 324172--324506 Score: 510
Period size: 164 Copynumber: 2.0 Consensus size: 165
324162 TATATGGTAG
**
324172 TTCATCAACTCATGATGAATTCTTTAGTTTTGCACACATAGTGCATGTACGGTTATTAATCAACT
1 TTCATCAACTCATGATGAATTCCGTAGTTTTGCACACATAGTGCATGTACGGTTATTAATCAACT
* * *
324237 AATGATGAATTTCGTGGTTTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
66 AATGATAAATTCCATGGTTTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
*
324302 TATGTGG-CTTGCACACATAGTGCCTGTACGATTA
131 TACGTGGTCTTGCACACATAGTGCCTGTACGATTA
* *
324336 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCCGTAGTTTTGCACACATAGTGCATGTACGGTTATTAATCAACT
** * *
324401 CTTGATAAATTCCATGGTTTTGTACATATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
66 AATGATAAATTCCATGGTTTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
* * * * *
324466 TCCGTGGTTTTGTACACATAGTGTCTGTACGGTTA
131 TACGTGGTCTTGCACACATAGTGCCTGTACGATTA
324501 TTCATC
1 TTCATC
324507 CACGTAGGAT
Statistics
Matches: 153, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
164 124 0.81
165 29 0.19
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (165 bp):
TTCATCAACTCATGATGAATTCCGTAGTTTTGCACACATAGTGCATGTACGGTTATTAATCAACT
AATGATAAATTCCATGGTTTTGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAAT
TACGTGGTCTTGCACACATAGTGCCTGTACGATTA
Found at i:324522 original size:55 final size:55
Alignment explanation
Indices: 324172--324506 Score: 494
Period size: 55 Copynumber: 6.1 Consensus size: 55
324162 TATATGGTAG
** *
324172 TTCATCAACTCATGATGAATTCTTTAGTTTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
* * *
324227 TTAATCAACTAATGATGAATTTCGTGGTTTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
** * * *
324282 TTCATCAACTCATGATGAATTATGTGG-CTTGCACACATAGTGCCTGTACGATTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
324336 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
* * * * *
324391 TTCATCAACTCTTGATAAATTCCATGGTTTTGTACATATAGTGCATGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
*
324446 TTCATCAACTCATGATGAATTCCGTGGTTTTGTACACATAGTGTC-TGTACGGTTA
1 TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTG-CATGTACGGTTA
324501 TTCATC
1 TTCATC
324507 CACGTAGGAT
Statistics
Matches: 251, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
54 49 0.20
55 201 0.80
56 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (55 bp):
TTCATCAACTCATGATGAATTCCGTGGTTTTGCACACATAGTGCATGTACGGTTA
Found at i:328757 original size:29 final size:29
Alignment explanation
Indices: 328720--328775 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
328710 CCATTATTCC
* * * *
328720 TTTATTCAACAGTGTTTAACCTTTCATAT
1 TTTACTCAACAATATTTAACCGTTCATAT
328749 TTTACTCAACAATATTTAACCGTTCAT
1 TTTACTCAACAATATTTAACCGTTCAT
328776 CTAACTGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (29 bp):
TTTACTCAACAATATTTAACCGTTCATAT
Found at i:329038 original size:55 final size:55
Alignment explanation
Indices: 328971--329331 Score: 393
Period size: 55 Copynumber: 6.6 Consensus size: 55
328961 TTTATTAAGA
* * *
328971 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTATATGATTT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTATATGGTTT
* * *
329026 TGCACACATAGTGCATATACGGTTATTCATCAACTCATGATGAATT-TCGTGGTTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTAT-ATGGTTT
* * * * ** * * *
329081 TACACATATAGTGTCGGTACATTTATTCATCAACTCATGGTGAATTCTATGATTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATATGGTTT
* * * * *
329136 TGTACACATAGTGTCTGTACGGTTATTCATCAACTCATGCTTAATTATGTGGTTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATATGGTTT
* * * * *
329191 TGTACACCTTGTGCTTGTACGGTTATTCATCAACTCATGATGAATTACATGGTTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATATGGTTT
* * * * ** *
329246 TGCATACATAGTGCTTGTATGGTTATTCATCAACTCTTGATGAATTCCATGGTAT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATATGGTTT
*
329301 TGCACACATAGTGCATGTACGGTTATTCATC
1 TGCACACATAGTGCCTGTACGGTTATTCATC
329332 TACATGGACG
Statistics
Matches: 258, Mismatches: 45, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
54 1 0.00
55 254 0.98
56 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTATATGGTTT
Found at i:330445 original size:267 final size:268
Alignment explanation
Indices: 330134--330631 Score: 689
Period size: 267 Copynumber: 1.9 Consensus size: 268
330124 TGAGGATGAT
* * *
330134 TGGTTATCTAAAGTTGATGCTGCTCTTACATGATGAGGAGATCTGATCGGTGGATAACATTATTC
1 TGGTTATCTAAAGTTGATGCGGCTCCTACATGATGAGGAGATCTGATCGGTGGATAACATGATTC
* * * *
330199 ATACGTGATGGGGA-TGA-ATGACCATCTTTAGAGATGATGATAACAC-GATTCCTATGTGATGA
66 ATACGTGACGAGGACAGATA-G-CCATCTTTAGAGATGATGATAACACTG-TTCCTACGTGATGA
*
330261 GGACAACTGGTTATCTAAGGTTGACGTGGCTCCTACGTG-TAAGGAGATCTGGTCGGTAGATGAC
128 GGACAACTGGTTATCTAAGGGTGACGTGGCTCCTACGTGATAAGGAGATCTGGTCGGTAGATGAC
* *
330325 ACAGTTCCTACACGATGAGGACGGCTGGCCATCTTTAGGAATGATGATAATATGGTTCATGCGTG
193 ACAGTTCCTACACGATGAGGACGACTGACCATCTTTAGGAATGATGATAATATGGTTCATGCGTG
330390 ATGTGGACGGC
258 ATGTGGACGGC
* * * * *
330401 TGGTTATCTAAGGTTGGTGCGGCTCCTACATGATGAGGAGATCTGGTCGGTGGATTACATGGTTC
1 TGGTTATCTAAAGTTGATGCGGCTCCTACATGATGAGGAGATCTGATCGGTGGATAACATGATTC
* * * *
330466 CTATGTGACGAGGACAGCTAGCCATCTTTAGGGATGATGATAACACTGTTCCTACGTGATGAGGA
66 ATACGTGACGAGGACAGATAGCCATCTTTAGAGATGATGATAACACTGTTCCTACGTGATGAGGA
** * * * * *
330531 CGGCTGGTTATCTAAGGGTGATGTGGCTCCTACGTGATGAGGAGATCTGGTTGGTGGATGACACG
131 CAACTGGTTATCTAAGGGTGACGTGGCTCCTACGTGATAAGGAGATCTGGTCGGTAGATGACACA
**
330596 GTTCCTAGGCGATGAGGACGACTGACCATCTTTAGG
196 GTTCCTACACGATGAGGACGACTGACCATCTTTAGG
330632 GATAATTTGT
Statistics
Matches: 199, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
267 139 0.70
268 59 0.30
269 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (268 bp):
TGGTTATCTAAAGTTGATGCGGCTCCTACATGATGAGGAGATCTGATCGGTGGATAACATGATTC
ATACGTGACGAGGACAGATAGCCATCTTTAGAGATGATGATAACACTGTTCCTACGTGATGAGGA
CAACTGGTTATCTAAGGGTGACGTGGCTCCTACGTGATAAGGAGATCTGGTCGGTAGATGACACA
GTTCCTACACGATGAGGACGACTGACCATCTTTAGGAATGATGATAATATGGTTCATGCGTGATG
TGGACGGC
Found at i:330632 original size:134 final size:134
Alignment explanation
Indices: 329969--330634 Score: 671
Period size: 134 Copynumber: 5.0 Consensus size: 134
329959 AAATTTTGGA
* * * * * * *
329969 GATAACACGGTTCCTACGTGATGAGGAAGTCTGGCTATTTATAGGTGGCA--CGGATCCTACGTG
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTA-AGGTTG-ATGTGGCTCCTACGTG
** * * * * * *
330032 ATGAGGAGATCTGGTTAGTGGATGACATGGTTCTTAAGTGATGAGGATGATTGGCCATATTTAAG
64 ATGAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGACTGACCATCTTT-AG
330097 GG-TGAT
128 GGATGAT
* * * * * *
330103 GATAACACGGTTCCTACATGATGAGGATGATTGGTTATCTAAAGTTGATGCT-GCTCTTACATGA
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGATG-TGGCTCCTACGTGA
* * ** * * * * *
330167 TGAGGAGATCTGATCGGTGGATAACATTATTCATACGTGATGGGGATGAATGACCATCTTTAGAG
65 TGAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGACTGACCATCTTTAGGG
330232 ATGAT
130 ATGAT
* * * *
330237 GATAACACGATTCCTATGTGATGAGGACAACTGGTTATCTAAGGTTGACGTGGCTCCTACGTG-T
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGATGTGGCTCCTACGTGAT
* * ** ** * * *
330301 AAGGAGATCTGGTCGGTAGATGACACAGTTCCTACACGATGAGGACGGCTGGCCATCTTTAGGAA
66 GAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGACTGACCATCTTTAGGGA
330366 TGAT
131 TGAT
* * * * * * * * *
330370 GATAATATGGTTCATGCGTGATGTGGACGGCTGGTTATCTAAGGTTGGTGCGGCTCCTACATGAT
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGATGTGGCTCCTACGTGAT
* * *
330435 GAGGAGATCTGGTCGGTGGATTACATGGTTCCTATGTGACGAGGAC-AGCT-AGCCATCTTTAGG
66 GAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGA-CTGA-CCATCTTTAGG
330498 GATGAT
129 GATGAT
* * *
330504 GATAACACTGTTCCTACGTGATGAGGACGGCTGGTTATCTAAGGGTGATGTGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGATGTGGCTCCTACGTGAT
* * * *
330569 GAGGAGATCTGGTTGGTGGATGACACGGTTCCTAGGCGATGAGGACGACTGACCATCTTTAGGGA
66 GAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGACTGACCATCTTTAGGGA
330634 T
131 T
330635 AATTTGTTTC
Statistics
Matches: 429, Mismatches: 93, Indels: 20
0.79 0.17 0.04
Matches are distributed among these distances:
132 1 0.00
133 111 0.26
134 315 0.73
135 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.29
Consensus pattern (134 bp):
GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGATGTGGCTCCTACGTGAT
GAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGACGACTGACCATCTTTAGGGA
TGAT
Found at i:330765 original size:66 final size:67
Alignment explanation
Indices: 330637--331024 Score: 525
Period size: 67 Copynumber: 5.8 Consensus size: 67
330627 TTAGGGATAA
* * * *
330637 TTTGTTTCAAGAGAAA-TGATCTGAAGCGAGATAAAACTTTGTTTCAAGGGAAACAGACTCAAAG
1 TTTGTTTCAAGAGAAACT-ATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAG
330701 ATT
65 ATT
* * *
330704 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTATTTCAAGAGAAATAGACTCAAATA
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAGA
330768 TT
66 TT
* * * *
330770 TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACATACTTAAAGT
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAGA
330835 TT
66 TT
* * *
330837 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACA-ACTCAAAGA
1 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAGA
330901 TT
66 TT
* * **
330903 TTTGTTTCAAGATAAAC-AGTCTCAACAGAGACAAAACTTTGTTTCAAGAGAAACACTCTCAAAG
1 TTTGTTTCAAGAGAAACTA-TCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAG
330967 -TT
65 ATT
* * *
330969 TTATGTTTCAAGAGAAAATGTTTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACA
1 TT-TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACA
331025 ATCTCAATGG
Statistics
Matches: 286, Mismatches: 29, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
66 123 0.43
67 162 0.57
68 1 0.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (67 bp):
TTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAGACTCAAAGA
TT
Found at i:330820 original size:37 final size:37
Alignment explanation
Indices: 330770--330889 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 37
330760 CTCAAATATT
330770 TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAAC
* * ***
330807 TTTGTTTCAAGAGAAA-CATACT-TA-A-AG----TTT
1 TTTGTTTCAAGAGAAATTAT-CTCAAGAGAGACAAAAC
*
330837 TTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAAC
1 TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAAC
*
330874 TTTGTTTCAAGGGAAA
1 TTTGTTTCAAGAGAAA
330890 CAACTCAAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
30 18 0.29
31 2 0.03
32 1 0.02
33 2 0.03
34 2 0.03
35 1 0.02
36 3 0.05
37 33 0.53
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (37 bp):
TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAAC
Found at i:330896 original size:133 final size:133
Alignment explanation
Indices: 330637--331031 Score: 553
Period size: 133 Copynumber: 3.0 Consensus size: 133
330627 TTAGGGATAA
* * * * * * *
330637 TTTGTTTCAAGAGAAATGATCTGAAGCGAGATAAAACTTTGTTTCAAGGGAAACAGACTCAAAGA
1 TTTGTTTCAAGAGAAATCATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACATACTCAAAGT
* * * *
330702 TTTTTGTTTCAAGAGAAACTATCTCAAGAGAGACAAAA-TTTATTTCAAGAGAAATAGACTCAAA
66 TTTTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACA-ACTCAAA
*
330766 TATT
130 GATT
* *
330770 TTTGTTTCAAGAGAAATTATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACATACTTAAAGT
1 TTTGTTTCAAGAGAAATCATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACATACTCAAAGT
* *
330835 TTTTTGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGGAAACAACTCAAAG
66 TTTTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAACTCAAAG
330900 ATT
131 ATT
* *
330903 TTTGTTTCAAGATAAA-CAGTCTCAACAGAGACAAAACTTTGTTTCAAGAGAAACACT-CTCAAA
1 TTTGTTTCAAGAGAAATCA-TCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACA-TACTCAAA
* *
330966 GTTTTATGTTTCAAGAGAAAATGTTTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAATCTCA
64 GTTTTTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAA-CTCA
331031 A
128 A
331032 TGGTTTATCA
Statistics
Matches: 236, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
132 1 0.00
133 214 0.91
134 21 0.09
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (133 bp):
TTTGTTTCAAGAGAAATCATCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACATACTCAAAGT
TTTTTGTTTCAAGAGAAAATGTCTCAAGAGAGACAAAACTTTGTTTCAAGAGAAACAACTCAAAG
ATT
Found at i:330957 original size:37 final size:36
Alignment explanation
Indices: 330903--331031 Score: 112
Period size: 37 Copynumber: 3.7 Consensus size: 36
330893 CTCAAAGATT
*
330903 TTTGTTTCAAGATAAACAGTCTCAACAGAGACAAAAC
1 TTTGTTTCAAGAGAAACAGTCTCAA-AGAGACAAAAC
* **
330940 TTTGTTTCAAGAGAAACACTCTC-AA-AG-----TT
1 TTTGTTTCAAGAGAAACAGTCTCAAAGAGACAAAAC
*
330969 TTATGTTTCAAGAGAAA-ATGTTTCAAGAGAGACAAAAC
1 TT-TGTTTCAAGAGAAACA-GTCTCAA-AGAGACAAAAC
*
331007 TTTGTTTCAAGAGAAACAATCTCAA
1 TTTGTTTCAAGAGAAACAGTCTCAA
331032 TGGTTTATCA
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
29 3 0.04
30 17 0.24
31 1 0.01
32 1 0.01
33 2 0.03
34 2 0.03
35 1 0.01
36 1 0.01
37 40 0.56
38 3 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.29
Consensus pattern (36 bp):
TTTGTTTCAAGAGAAACAGTCTCAAAGAGACAAAAC
Found at i:331260 original size:38 final size:39
Alignment explanation
Indices: 331217--331302 Score: 113
Period size: 37 Copynumber: 2.2 Consensus size: 39
331207 AATTGGTTTC
*
331217 GAGAAAAATTGTCGCAAGTGAGACAA-AATTTGTTTTTA
1 GAGAAAAATTGTCGCAAGTGAGACAACAATTTGTTTTAA
* * *
331255 GAG-AAAATTGTCTCTAGTGAGACAACACTTTGTTTTAA
1 GAGAAAAATTGTCGCAAGTGAGACAACAATTTGTTTTAA
331293 GAGAACAAAT
1 GAGAA-AAAT
331303 CTCAATGGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 20 0.49
38 16 0.39
39 1 0.02
40 4 0.10
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (39 bp):
GAGAAAAATTGTCGCAAGTGAGACAACAATTTGTTTTAA
Found at i:333894 original size:38 final size:39
Alignment explanation
Indices: 333852--333939 Score: 94
Period size: 38 Copynumber: 2.3 Consensus size: 39
333842 TCGTCCCCTA
*
333852 TATATATAT-TTTTTAATTAT-TATT-TTTTATTTATTTAC
1 TATATATATCTTTTTAATTATATATTATATTA-TT-TTTAC
* * *
333890 TATAT-TCTCTTTTTATTTATATATTATATTATTTTTAT
1 TATATATATCTTTTTAATTATATATTATATTATTTTTAC
333928 TATATATATCTT
1 TATATATATCTT
333940 ATATCATTGT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
37 2 0.05
38 24 0.59
39 11 0.27
40 4 0.10
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (39 bp):
TATATATATCTTTTTAATTATATATTATATTATTTTTAC
Done.