Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007768.1 Hibiscus syriacus cultivar Beakdansim tig00110044_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: 2539099
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:201085 original size:20 final size:20
Alignment explanation
Indices: 201022--201088 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
201012 CAACAACAAA
*
201022 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
201042 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
201062 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
201082 ATCGCAA
1 ATCGCAA
201089 CGAGAGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:201160 original size:20 final size:20
Alignment explanation
Indices: 201135--201292 Score: 137
Period size: 20 Copynumber: 8.5 Consensus size: 20
201125 GATTCTTTCG
**
201135 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
201155 TTGCGATAGTCATTTTTCGCA
1 TTGCGATAGTCA-TTTTCGCA
201176 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
201196 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
** *
201210 TTGCGATTTTCA-TTTCGTA
1 TTGCGATAGTCATTTTCGCA
*
201229 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
201243 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
201263 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
201283 TTGCGATAGT
1 TTGCGATAGT
201293 AAACTATTCT
Statistics
Matches: 118, Mismatches: 5, Indels: 30
0.77 0.03 0.20
Matches are distributed among these distances:
14 14 0.12
16 12 0.10
17 6 0.05
18 5 0.04
19 7 0.06
20 56 0.47
21 18 0.15
ACGTcount: A:0.18, C:0.18, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:201256 original size:33 final size:33
Alignment explanation
Indices: 201176--201269 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
201166 ATTTTTCGCA
* * *
201176 TTGCGATAGTCATTTTCGCATTGCGATTTTGTTG
1 TTGCGATAGTCA-TTTCGCATTGCGATTCTCTCG
** *
201210 TTGCGATTTTCATTTCGTATTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
*
201243 TTGCGATAGTCATTTTCGCGTTGCGAT
1 TTGCGATAGTCA-TTTCGCATTGCGAT
201270 AGTCATTTTC
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
33 27 0.55
34 22 0.45
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.46
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCATTGCGATTCTCTCG
Found at i:203179 original size:20 final size:20
Alignment explanation
Indices: 203156--203210 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
203146 CTGAAACTTT
203156 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
*
203176 AAATTGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
203196 CTATCGCAACGCGAA
1 AAATCGCAACACGAA
203211 TTTGACTATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.13
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:203216 original size:20 final size:20
Alignment explanation
Indices: 203193--203250 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
203183 AACACGAAAA
203193 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATT
*
203213 TGACTATCGTAACGCGAATT
1 TGACTATCGCAACGCGAATT
203233 TGACTATCGCAACGCGAA
1 TGACTATCGCAACGCGAA
203251 ATGAAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATT
Found at i:203626 original size:22 final size:22
Alignment explanation
Indices: 203601--203688 Score: 140
Period size: 22 Copynumber: 4.0 Consensus size: 22
203591 TGACCGTGAA
* *
203601 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
* *
203623 TGATATCGTCGGCGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
203645 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
203667 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
203689 GGATGTCGCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.19, C:0.16, G:0.40, T:0.25
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:203668 original size:44 final size:44
Alignment explanation
Indices: 203601--203698 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
203591 TGACCGTGAA
*
203601 TGATTTCGCCGGAGATGGAGACTGATATCGTCGGCGATGGGGAC
1 TGATTTCGCCGGAGATGGAGACTGATATCGTCGGAGATGGGGAC
* * *
203645 TGATTTCGTCGGAGATGGGGACTGATTTCGTCGGAGATGGGGAC
1 TGATTTCGCCGGAGATGGAGACTGATATCGTCGGAGATGGGGAC
* *
203689 GGATGTCGCC
1 TGATTTCGCC
203699 TTAGAGAGTG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.18, C:0.17, G:0.40, T:0.24
Consensus pattern (44 bp):
TGATTTCGCCGGAGATGGAGACTGATATCGTCGGAGATGGGGAC
Found at i:203928 original size:21 final size:20
Alignment explanation
Indices: 203884--203955 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
203874 ATAGTCAGAA
203884 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* **
203904 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
203925 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
203945 TCGCATTGCGA
1 TCGCATTGCGA
203956 ATTAGGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
20 28 0.62
21 17 0.38
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:203970 original size:41 final size:41
Alignment explanation
Indices: 203882--203970 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 41
203872 CGATAGTCAG
* *
203882 AATCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
1 AATCGCATTGCGATTTACGTATTCGCATTGCGAATTACCAA
* **
203923 ATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAGGAA
1 AATCGCATTGCGATTTACGTATTCGCATTGCGAATTACCAA
203964 AATCGCA
1 AATCGCA
203971 ACGCGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (41 bp):
AATCGCATTGCGATTTACGTATTCGCATTGCGAATTACCAA
Found at i:203976 original size:21 final size:21
Alignment explanation
Indices: 203945--204019 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
203935 ATTTACGTAT
*
203945 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* * *
203966 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCGAATTAGGAAAA
* *
203987 TCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTAGGAAAA
204007 TCGCAATGCGAAT
1 TCGCAATGCGAAT
204020 CTGGAAACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 17 0.38
21 28 0.62
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:204009 original size:20 final size:20
Alignment explanation
Indices: 203925--204017 Score: 71
Period size: 20 Copynumber: 4.5 Consensus size: 20
203915 TTTTCCAAAT
* *
203925 TCGCATTGCGATTTACGT-AT
1 TCGCAATGCGA-TTACGTAAA
* * *
203945 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCG-ATTACGTAAA
* ** *
203966 TCGCAACGCGAATTTGGGAAA
1 TCGCAATGCG-ATTACGTAAA
203987 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGATTACGTAAA
204007 TCGCAATGCGA
1 TCGCAATGCGA
204018 ATCTGGAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
20 32 0.53
21 28 0.47
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (20 bp):
TCGCAATGCGATTACGTAAA
Found at i:207929 original size:30 final size:30
Alignment explanation
Indices: 207893--207955 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
207883 TGCATTGGCA
207893 ATCATTGATAAGACCCATACAAAGAAGTCT
1 ATCATTGATAAGACCCATACAAAGAAGTCT
* *
207923 ATCATTGATAAGCCCCATACGAAGAAGTCT
1 ATCATTGATAAGACCCATACAAAGAAGTCT
207953 ATC
1 ATC
207956 TTTAGTAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.22, G:0.14, T:0.24
Consensus pattern (30 bp):
ATCATTGATAAGACCCATACAAAGAAGTCT
Found at i:219992 original size:30 final size:30
Alignment explanation
Indices: 219956--220107 Score: 162
Period size: 30 Copynumber: 5.1 Consensus size: 30
219946 GGATTTTAGG
* *
219956 CAGAAGTTGTTGTGTAGTTCTGGCGACTTC
1 CAGAAGTCGCTGTGTAGTTCTGGCGACTTC
* * *
219986 CAGAAGTCGCCGTGTAATTCTGGTGACTTC
1 CAGAAGTCGCTGTGTAGTTCTGGCGACTTC
* ** * *
220016 CATAAGTCGCTGTGTAGGCCTGGCTACTTA
1 CAGAAGTCGCTGTGTAGTTCTGGCGACTTC
220046 CAGAAGTCGCCT-TGTAGTTCTGGCGACTTC
1 CAGAAGTCG-CTGTGTAGTTCTGGCGACTTC
* * **
220076 CAGAAGTTGCCGTGTAGGCCTGGCGACTTC
1 CAGAAGTCGCTGTGTAGTTCTGGCGACTTC
220106 CA
1 CA
220108 CTGTGTATTG
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
29 1 0.01
30 95 0.97
31 2 0.02
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (30 bp):
CAGAAGTCGCTGTGTAGTTCTGGCGACTTC
Found at i:220039 original size:60 final size:60
Alignment explanation
Indices: 219956--220107 Score: 196
Period size: 60 Copynumber: 2.5 Consensus size: 60
219946 GGATTTTAGG
* * ** *
219956 CAGAAGTTGTTGTGTAGTTCTGGCGACTTCCAGAAGTCGCCGTGTAATTCTGGTGACTTC
1 CAGAAGTCGCTGTGTAGGCCTGGCGACTTCCAGAAGTCGCCGTGTAATTCTGGCGACTTC
* * * * *
220016 CATAAGTCGCTGTGTAGGCCTGGCTACTTACAGAAGTCGCCTTGTAGTTCTGGCGACTTC
1 CAGAAGTCGCTGTGTAGGCCTGGCGACTTCCAGAAGTCGCCGTGTAATTCTGGCGACTTC
* *
220076 CAGAAGTTGCCGTGTAGGCCTGGCGACTTCCA
1 CAGAAGTCGCTGTGTAGGCCTGGCGACTTCCA
220108 CTGTGTATTG
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 77 1.00
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (60 bp):
CAGAAGTCGCTGTGTAGGCCTGGCGACTTCCAGAAGTCGCCGTGTAATTCTGGCGACTTC
Found at i:226056 original size:29 final size:29
Alignment explanation
Indices: 226023--226117 Score: 113
Period size: 29 Copynumber: 3.3 Consensus size: 29
226013 TCATTTGGTG
226023 ATTGTTTGATGAAGTTAGTTTTTAGGTAT
1 ATTGTTTGATGAAGTTAGTTTTTAGGTAT
** * * *
226052 ATTGTTTGATGCTTCGTT-TTTTTTCGGT-G
1 ATTGTTTGATG--AAGTTAGTTTTTAGGTAT
226081 ATTGTTTGATGAAGTTAGTTTTTAGGTAT
1 ATTGTTTGATGAAGTTAGTTTTTAGGTAT
226110 ATTGTTTG
1 ATTGTTTG
226118 TATTTTTGGA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
27 3 0.06
28 8 0.15
29 30 0.58
30 8 0.15
31 3 0.06
ACGTcount: A:0.18, C:0.03, G:0.24, T:0.55
Consensus pattern (29 bp):
ATTGTTTGATGAAGTTAGTTTTTAGGTAT
Found at i:234904 original size:15 final size:15
Alignment explanation
Indices: 234868--234920 Score: 79
Period size: 15 Copynumber: 3.5 Consensus size: 15
234858 AGAGCCTCTG
**
234868 AATCATTCAACATTT
1 AATCATTCAACGCTT
234883 GAATCATTCAACGCTT
1 -AATCATTCAACGCTT
234899 AATCATTCAACGCTT
1 AATCATTCAACGCTT
234914 AATCATT
1 AATCATT
234921 ATGAAGTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
15 22 0.63
16 13 0.37
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.36
Consensus pattern (15 bp):
AATCATTCAACGCTT
Found at i:239515 original size:7 final size:7
Alignment explanation
Indices: 239503--239536 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
239493 TCAAAGGAAG
239503 TCAACGA
1 TCAACGA
239510 TCAACGA
1 TCAACGA
*
239517 TCAACGG
1 TCAACGA
239524 TCAACGA
1 TCAACGA
239531 TCAACG
1 TCAACG
239537 GTCGAGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.15
Consensus pattern (7 bp):
TCAACGA
Found at i:239537 original size:14 final size:14
Alignment explanation
Indices: 239503--239539 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
239493 TCAAAGGAAG
*
239503 TCAACGATCAACGA
1 TCAACGGTCAACGA
239517 TCAACGGTCAACGA
1 TCAACGGTCAACGA
239531 TCAACGGTC
1 TCAACGGTC
239540 GAGTCAACTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (14 bp):
TCAACGGTCAACGA
Found at i:239568 original size:14 final size:14
Alignment explanation
Indices: 239549--239577 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
239539 CGAGTCAACT
239549 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
239563 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
239577 G
1 G
239578 ACCGGTCAAA
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:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:239584 original size:9 final size:9
Alignment explanation
Indices: 239572--239670 Score: 90
Period size: 9 Copynumber: 10.3 Consensus size: 9
239562 AGTCGGGTCG
*
239572 GGTCAGACC
1 GGTCAAACC
239581 GGTCAAACC
1 GGTCAAACC
*
239590 GGTTCATACC
1 GG-TCAAACC
*
239600 AGTCAAACC
1 GGTCAAACC
*
239609 GGTTCGAACC
1 GG-TCAAACC
239619 GGTCGAAACC
1 GGTC-AAACC
239629 GGTCAAACC
1 GGTCAAACC
*
239638 GGTCAGAATC
1 GGTCA-AACC
*
239648 GGTTGGAAACC
1 GG-T-CAAACC
239659 GGTCAAACC
1 GGTCAAACC
239668 GGT
1 GGT
239671 TTCCAGCCCT
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
9 37 0.51
10 29 0.40
11 6 0.08
12 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:239606 original size:19 final size:19
Alignment explanation
Indices: 239578--239671 Score: 109
Period size: 19 Copynumber: 4.8 Consensus size: 19
239568 GTCGGGTCAG
*
239578 ACCGGTCAAACCGGTTCAT
1 ACCGGTCAAACCGGTTCAA
* *
239597 ACCAGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
239616 ACCGGTCGAAACCGG-TCAA
1 ACCGGTC-AAACCGGTTCAA
* *
239635 ACCGGTCAGAATCGGTTGGAA
1 ACCGGTCA-AACCGGTT-CAA
239656 ACCGGTCAAACCGGTT
1 ACCGGTCAAACCGGTT
239672 TCCAGCCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
18 1 0.02
19 37 0.59
20 15 0.24
21 10 0.16
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:243922 original size:13 final size:13
Alignment explanation
Indices: 243904--243951 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
243894 TCATAACCCG
243904 ACCCGACCCGTTT
1 ACCCGACCCGTTT
* *
243917 ACCCGA-TCATTT
1 ACCCGACCCGTTT
* *
243929 ACCCGACCAGTTG
1 ACCCGACCCGTTT
243942 ACCCGACCCG
1 ACCCGACCCG
243952 ACCCGTTGAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 10 0.37
13 17 0.63
ACGTcount: A:0.21, C:0.44, G:0.17, T:0.19
Consensus pattern (13 bp):
ACCCGACCCGTTT
Found at i:243952 original size:18 final size:18
Alignment explanation
Indices: 243929--243964 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
243919 CCGATCATTT
243929 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
243947 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
243965 TTGACTGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:246325 original size:23 final size:24
Alignment explanation
Indices: 246278--246368 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
246268 TCAAATTTGA
* * *
246278 ATTCTGTTATGATACCTGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
246302 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATCTGATACTTGACCTGG
* *
246325 ATTCGGATCTGATACATGACCTGG
1 ATTCTGATCTGATACTTGACCTGG
*
246349 ATTCTGATATGATACTTGAC
1 ATTCTGATCTGATACTTGAC
246369 TTGAATTATG
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.36
24 36 0.64
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACCTGG
Found at i:246588 original size:2 final size:2
Alignment explanation
Indices: 246581--246606 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
246571 ACGGATGGGG
246581 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
246607 TTTAAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:250189 original size:19 final size:19
Alignment explanation
Indices: 250167--250210 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
250157 GTCGGGTAAG
*
250167 ACCGGTC-AAACCGGTTCGA
1 ACCGGTCAAAACCGG-TCAA
250186 ACCGGTCAAAACCGGTCAA
1 ACCGGTCAAAACCGGTCAA
250205 ACCGGT
1 ACCGGT
250211 TTCCAGCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTCAA
Found at i:250198 original size:10 final size:9
Alignment explanation
Indices: 250167--250210 Score: 61
Period size: 10 Copynumber: 4.7 Consensus size: 9
250157 GTCGGGTAAG
250167 ACCGGTCAA
1 ACCGGTCAA
*
250176 ACCGGTTCGA
1 ACCGG-TCAA
250186 ACCGGTCAAA
1 ACCGGTC-AA
250196 ACCGGTCAA
1 ACCGGTCAA
250205 ACCGGT
1 ACCGGT
250211 TTCCAGCCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.14
Consensus pattern (9 bp):
ACCGGTCAA
Found at i:251144 original size:39 final size:40
Alignment explanation
Indices: 251066--251223 Score: 286
Period size: 40 Copynumber: 4.0 Consensus size: 40
251056 ATATATATAT
251066 ATATATATATTCAATTAGATCCC--TTTTTTTGAATAAAA
1 ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAA
251104 ATATATATATTCAATTAGATCCCTATTTTTTT-AATAAAA
1 ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAA
251143 ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAA
1 ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAA
251183 ATATATATATTCAATTAGATCCCTATTTTTATTGAATAAAA
1 ATATATATATTCAATTAGATCCCTATTTTT-TTGAATAAAA
251224 GTAATATTAT
Statistics
Matches: 116, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
38 23 0.20
39 39 0.34
40 44 0.38
41 10 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (40 bp):
ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAA
Found at i:251148 original size:79 final size:80
Alignment explanation
Indices: 251066--251223 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 80
251056 ATATATATAT
251066 ATATATATATTCAATTAGATCCC-TTTTTTTGAATAAAAATATATATATTCAATTAGATCCCTAT
1 ATATATATATTCAATTAGATCCCATTTTTTTGAATAAAAATATATATATTCAATTAGATCCCTAT
251130 TTTT-TT-AATAAAA
66 TTTTATTGAATAAAA
251143 ATATATATATTCAATTAGATCCCTATTTTTTTGAATAAAAATATATATATTCAATTAGATCCCTA
1 ATATATATATTCAATTAGATCCC-ATTTTTTTGAATAAAAATATATATATTCAATTAGATCCCTA
251208 TTTTTATTGAATAAAA
65 TTTTTATTGAATAAAA
251224 GTAATATTAT
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
77 23 0.30
79 45 0.58
80 2 0.03
81 7 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (80 bp):
ATATATATATTCAATTAGATCCCATTTTTTTGAATAAAAATATATATATTCAATTAGATCCCTAT
TTTTATTGAATAAAA
Found at i:251446 original size:18 final size:19
Alignment explanation
Indices: 251404--251446 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
251394 GATTACAAAC
251404 AAAATATTAAAAATTTATA
1 AAAATATTAAAAATTTATA
*
251423 AGAATA-TAAAAATCTT-TA
1 AAAATATTAAAAAT-TTATA
251441 AAAATA
1 AAAATA
251447 AACAAACGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTAAAAATTTATA
Found at i:259840 original size:42 final size:42
Alignment explanation
Indices: 259763--259843 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
259753 CTATTAAGAT
** * *
259763 TAAGTTCTGAATCTATTCTCTATTAAGTTCTAGTTCTGACGC
1 TAAGTTCTGAATCTAAACTCTATTAAGATCAAGTTCTGACGC
259805 TAAGTTCTGAATCTAAACTCTATTAAGAAT-AAGTTCTGA
1 TAAGTTCTGAATCTAAACTCTATTAAG-ATCAAGTTCTGA
259844 ATCTAACCTC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (42 bp):
TAAGTTCTGAATCTAAACTCTATTAAGATCAAGTTCTGACGC
Found at i:259847 original size:29 final size:29
Alignment explanation
Indices: 259805--259898 Score: 179
Period size: 29 Copynumber: 3.2 Consensus size: 29
259795 GTTCTGACGC
*
259805 TAAGTTCTGAATCTAAACTCTATTAAGAA
1 TAAGTTCTGAATCTAACCTCTATTAAGAA
259834 TAAGTTCTGAATCTAACCTCTATTAAGAA
1 TAAGTTCTGAATCTAACCTCTATTAAGAA
259863 TAAGTTCTGAATCTAACCTCTATTAAGAA
1 TAAGTTCTGAATCTAACCTCTATTAAGAA
259892 TAAGTTC
1 TAAGTTC
259899 GTATTCTGGC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (29 bp):
TAAGTTCTGAATCTAACCTCTATTAAGAA
Found at i:266163 original size:18 final size:18
Alignment explanation
Indices: 266136--266170 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
266126 ATGAGAGAGA
266136 AATTACATTGTATATTAT
1 AATTACATTGTATATTAT
*
266154 AATTATATTGTATATTA
1 AATTACATTGTATATTA
266171 ATAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (18 bp):
AATTACATTGTATATTAT
Found at i:266810 original size:21 final size:21
Alignment explanation
Indices: 266785--266828 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
266775 GAAAATGTTA
* *
266785 AAAAACATTAATATTTTAGGT
1 AAAAACAATAATATTTTAAGT
*
266806 AAAAATAATAATATTTTAAGT
1 AAAAACAATAATATTTTAAGT
266827 AA
1 AA
266829 TTTTTTACCG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAAACAATAATATTTTAAGT
Found at i:272133 original size:53 final size:53
Alignment explanation
Indices: 272065--272171 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
272055 GCGAAAGATC
272065 GTATGCTCGAGGTATGTTAATGTTATGCATATGCCTTATCTCGAAACTATATA
1 GTATGCTCGAGGTATGTTAATGTTATGCATATGCCTTATCTCGAAACTATATA
*
272118 GTATGCTCGAGGTATGTTAATGTTATGCATATGCCTTATCTCGAAGCTATATA
1 GTATGCTCGAGGTATGTTAATGTTATGCATATGCCTTATCTCGAAACTATATA
272171 G
1 G
272172 GATTAAATTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (53 bp):
GTATGCTCGAGGTATGTTAATGTTATGCATATGCCTTATCTCGAAACTATATA
Found at i:273746 original size:14 final size:14
Alignment explanation
Indices: 273727--273754 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
273717 TAGTAATTCA
273727 TTCATTTATATTTG
1 TTCATTTATATTTG
273741 TTCATTTATATTTG
1 TTCATTTATATTTG
273755 GCTAAATCTT
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:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (14 bp):
TTCATTTATATTTG
Found at i:279474 original size:28 final size:27
Alignment explanation
Indices: 279435--279491 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
279425 AAAATTTATT
279435 TTTTAATCAAAATAGATACTTAAAGTA
1 TTTTAATCAAAATAGATACTTAAAGTA
* * *
279462 TTTTATATCAAAATATATATTTAAATTA
1 TTTTA-ATCAAAATAGATACTTAAAGTA
279490 TT
1 TT
279492 CAAACTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTTAATCAAAATAGATACTTAAAGTA
Found at i:279612 original size:29 final size:29
Alignment explanation
Indices: 279574--279630 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
279564 AAAAAATTGA
*
279574 ATACTTTAGGTATCTATTGTAACTAAAAT
1 ATACTTTAGGCATCTATTGTAACTAAAAT
* *
279603 ATACTTTAGGCATCTATTTTAATTAAAA
1 ATACTTTAGGCATCTATTGTAACTAAAA
279631 CGATAACTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.42
Consensus pattern (29 bp):
ATACTTTAGGCATCTATTGTAACTAAAAT
Found at i:280503 original size:59 final size:58
Alignment explanation
Indices: 280383--280526 Score: 173
Period size: 60 Copynumber: 2.4 Consensus size: 58
280373 AACACAATGA
* * * *
280383 ATAGTCAGGTGACCATTTTGTAACTATTAATAGTTGATGGACTCATTAAAGCAATACCCT
1 ATAGTCAGG-GATCATTTTGTAACTTTTAAGAGTTGA-GGACTCAATAAAGCAATACCCT
** * *
280443 ATAGTGGGTGGATCATTTTATAACTTTTAAGAGTTG-GAGACTCAATAAAGTAATACCCT
1 ATAGTCAG-GGATCATTTTGTAACTTTTAAGAGTTGAG-GACTCAATAAAGCAATACCCT
280502 ATAGTCAGGGATCATTTTGTAACTT
1 ATAGTCAGGGATCATTTTGTAACTT
280527 ATAATAATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
58 17 0.24
59 25 0.35
60 28 0.39
61 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.35
Consensus pattern (58 bp):
ATAGTCAGGGATCATTTTGTAACTTTTAAGAGTTGAGGACTCAATAAAGCAATACCCT
Found at i:280543 original size:59 final size:58
Alignment explanation
Indices: 280383--280564 Score: 177
Period size: 59 Copynumber: 3.1 Consensus size: 58
280373 AACACAATGA
* * *
280383 ATAGTCAGGTGACCATTTTGTAAC-TATTAATAGTTGATGGACTCATTAAAGCAATACCCT
1 ATAGTCAGG-GATCATTTTGTAACTTA-TAATAGTT-ATAGACTCAATAAAGCAATACCCT
** * * * ** *
280443 ATAGTGGGTGGATCATTTTATAACTTTTAAGAGTTGGAGACTCAATAAAGTAATACCCT
1 ATAGTCAG-GGATCATTTTGTAACTTATAATAGTTATAGACTCAATAAAGCAATACCCT
* * * *
280502 ATAGTCAGGGATCATTTTGTAACTTATAATAATTATAAGACTTAATAAAACAATACTCT
1 ATAGTCAGGGATCATTTTGTAACTTATAATAGTTAT-AGACTCAATAAAGCAATACCCT
280561 ATAG
1 ATAG
280565 CCGATTGACC
Statistics
Matches: 96, Mismatches: 23, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
58 22 0.23
59 47 0.49
60 25 0.26
61 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (58 bp):
ATAGTCAGGGATCATTTTGTAACTTATAATAGTTATAGACTCAATAAAGCAATACCCT
Found at i:281476 original size:21 final size:20
Alignment explanation
Indices: 281390--281547 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
281380 AAATGACCAA
**
281390 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
281409 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
281429 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
281449 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
281470 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
281491 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
281511 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
281532 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
281548 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:281576 original size:20 final size:20
Alignment explanation
Indices: 281514--281707 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
281504 CGATTTTCCA
* ** *
281514 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
281534 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
281554 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
281574 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
* **
281594 AAATCGCAATGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
281614 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
281634 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
281654 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
281674 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
281695 AAATCGCAACGCG
1 AAATCGCAACGCG
281708 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:281598 original size:60 final size:60
Alignment explanation
Indices: 281514--281707 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
281504 CGATTTTCCA
* ** * *
281514 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * * *** *
281574 AAATCGCAACGTGTATCCGTAAATCGCAATGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
281634 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
281695 AAATCGCAACGCG
1 AAATCGCAACGCG
281708 ATATTTAAAG
Statistics
Matches: 110, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 79 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:282103 original size:31 final size:33
Alignment explanation
Indices: 282068--282136 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 33
282058 TTCACTTAGA
*
282068 TTTCATTTCGCGTTACGA-T-TGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
282099 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
282132 TTTCA
1 TTTCA
282137 AGTTAGTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 16 0.48
32 1 0.03
33 16 0.48
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:282242 original size:21 final size:21
Alignment explanation
Indices: 282216--282288 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
282206 TGCAGAAGAG
282216 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGATAAATGAAAA
* ***
282237 TCGCAACGAGA-GAATGATTG
1 TCGCAACGAGATAAATGAAAA
282257 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGATAAATGAAAA
282278 TCGCAACGAGA
1 TCGCAACGAGA
282289 GAATCGCAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.45, C:0.16, G:0.23, T:0.15
Consensus pattern (21 bp):
TCGCAACGAGATAAATGAAAA
Found at i:282272 original size:41 final size:41
Alignment explanation
Indices: 282215--282292 Score: 156
Period size: 41 Copynumber: 1.9 Consensus size: 41
282205 TTGCAGAAGA
282215 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGATT
1 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGATT
282256 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAAT
282293 CGCAACGCGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (41 bp):
GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGATT
Found at i:282295 original size:14 final size:14
Alignment explanation
Indices: 282276--282332 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
282266 GATAAATGAA
282276 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
282290 AATCGCAACGCGAAATAAA
1 AATCGCAA--CG--A-GAG
282309 AATCGCAACGAGAG
1 AATCGCAACGAGAG
282323 AATCGCAACG
1 AATCGCAACG
282333 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:282314 original size:33 final size:33
Alignment explanation
Indices: 282269--282348 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
282259 GCAACGAGAT
*
282269 AAATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
282302 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
1 AAATAAAAATCGCAACGAGAGAATCGCAACGCG
**
282335 AAACCAAAATCGCA
1 AAATAAAAATCGCA
282349 TTGCGATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.49, C:0.23, G:0.20, T:0.09
Consensus pattern (33 bp):
AAATAAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:282366 original size:19 final size:19
Alignment explanation
Indices: 282344--282411 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
282334 GAAACCAAAA
*
282344 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
282363 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
282377 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
282396 TCGCGTTGCGATTTTC
1 TCGCGTTGCGATTTTC
282412 TCGTTGCGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 25 0.61
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:282385 original size:14 final size:14
Alignment explanation
Indices: 282366--282436 Score: 79
Period size: 14 Copynumber: 4.7 Consensus size: 14
282356 TTTCATTTCG
282366 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
282380 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
282399 CGTTGCGATTTTCT
1 CGTTGCGATTCTCT
282413 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
282427 CGTTGCGATT
1 CGTTGCGATT
282437 TTCATTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
14 33 0.69
16 3 0.06
17 2 0.04
19 10 0.21
ACGTcount: A:0.08, C:0.24, G:0.23, T:0.45
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:282391 original size:33 final size:33
Alignment explanation
Indices: 282349--282422 Score: 139
Period size: 33 Copynumber: 2.2 Consensus size: 33
282339 CAAAATCGCA
282349 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
282382 TTGCGATTTTCATTTCGCGTTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
282415 TTGCGATT
1 TTGCGATT
282423 CTCTCGTTGC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:284301 original size:93 final size:93
Alignment explanation
Indices: 284142--284610 Score: 922
Period size: 93 Copynumber: 5.1 Consensus size: 93
284132 TAGATTGCTT
*
284142 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
284207 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
284235 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
284300 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
284328 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
284393 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
284421 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
284486 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
284514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
284579 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
284606 AGTAA
1 AGTAA
284611 TGCAATCCAT
Statistics
Matches: 375, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
92 6 0.02
93 369 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:284698 original size:19 final size:19
Alignment explanation
Indices: 284658--284786 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
284648 TAGTTTACTT
* *
284658 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
284678 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
284697 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
284716 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
284730 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
284749 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
*
284763 TCACAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
284782 TCGCA
1 TCGCA
284787 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 18 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 45 0.51
20 13 0.15
ACGTcount: A:0.47, C:0.29, G:0.16, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:284737 original size:33 final size:32
Alignment explanation
Indices: 284694--284786 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
284684 CGCGAAACCA
**
284694 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
284726 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
*
284759 AAGATCACAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
284787 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
32 2 0.04
33 54 0.96
ACGTcount: A:0.47, C:0.28, G:0.17, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:284804 original size:19 final size:19
Alignment explanation
Indices: 284782--284914 Score: 124
Period size: 19 Copynumber: 7.5 Consensus size: 19
284772 GAAACCAAAA
*
284782 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
284801 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
284817 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
284834 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
284850 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
284867 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
284886 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
284906 TCGTGTTGC
1 TCGCGTTGC
284915 AAAAGTAAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.49
20 10 0.11
ACGTcount: A:0.11, C:0.20, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:284823 original size:14 final size:14
Alignment explanation
Indices: 284804--284860 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
284794 TTTCATTTCG
284804 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
284818 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
284835 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
284851 CGTTGCGATT
1 CGTTGCGATT
284861 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:284829 original size:33 final size:33
Alignment explanation
Indices: 284787--284879 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
284777 CAAAATCGCA
*
284787 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
284820 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
284853 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
284880 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:286861 original size:14 final size:14
Alignment explanation
Indices: 286842--286877 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
286832 ATTGTTTAAT
286842 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
286856 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
286870 TGATTTGT
1 TGATTTGT
286878 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:287000 original size:19 final size:19
Alignment explanation
Indices: 286984--287081 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
286974 AAAAATGACT
286984 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
287003 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
287022 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
287036 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
287055 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
287075 ATCGCAA
1 ATCGCAA
287082 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:287113 original size:53 final size:53
Alignment explanation
Indices: 286984--287100 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
286974 AAAAATGACT
286984 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
287036 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
287089 ATCGCAATGCGA
1 ATCGCAATGCGA
287101 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:287118 original size:19 final size:19
Alignment explanation
Indices: 287090--287292 Score: 203
Period size: 19 Copynumber: 11.7 Consensus size: 19
287080 AACGAGAGAA
*
287090 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
287109 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
287125 TCG--TTGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
287142 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
287161 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
287177 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
287194 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
287213 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
287229 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
287246 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
287264 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
287280 TCGCATTGCGATT
1 TCGCATTGCGATT
287293 CTCTCGTTGC
Statistics
Matches: 152, Mismatches: 11, Indels: 42
0.74 0.05 0.20
Matches are distributed among these distances:
14 29 0.19
16 22 0.14
17 20 0.13
18 3 0.02
19 66 0.43
20 12 0.08
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:287153 original size:52 final size:52
Alignment explanation
Indices: 287090--287264 Score: 323
Period size: 52 Copynumber: 3.3 Consensus size: 52
287080 AACGAGAGAA
* *
287090 TCGCAATGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTAATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
287142 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
287194 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
287246 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
287265 GTTGGGATTT
Statistics
Matches: 120, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
52 103 0.86
53 17 0.14
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:287314 original size:33 final size:33
Alignment explanation
Indices: 287096--287306 Score: 223
Period size: 33 Copynumber: 6.2 Consensus size: 33
287086 AGAATCGCAA
287096 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
* *
287129 TGCGATTTTAATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
287167 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
287200 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
287233 TGCGATTTTCATTTCCGCATTGCGATTTTCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
287267 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
287300 TGCGATT
1 TGCGATT
287307 GTAATTTCCG
Statistics
Matches: 146, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 71 0.49
34 29 0.20
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 8 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:289605 original size:12 final size:12
Alignment explanation
Indices: 289588--289612 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
289578 TCTTCGGGGA
289588 CTTTTTCTTCTT
1 CTTTTTCTTCTT
289600 CTTTTTCTTCTT
1 CTTTTTCTTCTT
289612 C
1 C
289613 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:289821 original size:24 final size:24
Alignment explanation
Indices: 289787--289833 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
289777 CTGAAACATC
289787 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
289811 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
289834 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:290544 original size:20 final size:20
Alignment explanation
Indices: 290516--290785 Score: 272
Period size: 20 Copynumber: 13.5 Consensus size: 20
290506 AAATTTCAGT
* * *
290516 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
290536 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
**
290556 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
**
290576 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
290596 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
290616 ATTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
290636 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
290656 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
290676 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
290696 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
290716 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
290736 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
290756 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
290776 GTTGCGATTT
1 GTTGCGATTT
290786 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:290802 original size:21 final size:21
Alignment explanation
Indices: 290772--290854 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
290762 ATTTTCATAT
*
290772 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
290793 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
290814 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
290835 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
290855 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:290845 original size:42 final size:43
Alignment explanation
Indices: 290752--290850 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
290742 ATTTATGTGT
* *
290752 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
290793 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
290835 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
290851 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:297987 original size:2 final size:2
Alignment explanation
Indices: 297980--298005 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
297970 ATGAACGTGT
297980 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
298006 AGAACAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:298325 original size:14 final size:14
Alignment explanation
Indices: 298280--298331 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
298270 TCATAAACAC
* * *
298280 TAAACTTTAAACCT
1 TAAACTCTAAATCA
* *
298294 TAAATTCTAAATCT
1 TAAACTCTAAATCA
*
298308 TAAACTCTAATTCA
1 TAAACTCTAAATCA
298322 TAAACTCTAA
1 TAAACTCTAA
298332 CCCTAATAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAACTCTAAATCA
Found at i:301880 original size:26 final size:26
Alignment explanation
Indices: 301844--301895 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
301834 GTTCAAGTGA
301844 GAAGGTAACTATATAGGGAATTTTTT
1 GAAGGTAACTATATAGGGAATTTTTT
*
301870 GAAGGTAACTATATGGGGAATTTTTT
1 GAAGGTAACTATATAGGGAATTTTTT
301896 TTCTTTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
GAAGGTAACTATATAGGGAATTTTTT
Found at i:307609 original size:19 final size:20
Alignment explanation
Indices: 307577--307616 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
307567 AAATTTAAAG
307577 TTTTATACGCATCTATAATT
1 TTTTATACGCATCTATAATT
* *
307597 TTTTATATG-ATCTTTAATT
1 TTTTATACGCATCTATAATT
307616 T
1 T
307617 ATAGAAAGGA
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:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTATACGCATCTATAATT
Found at i:317220 original size:20 final size:21
Alignment explanation
Indices: 317195--317234 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
317185 CATGATTATG
317195 TCACTAAAACAAA-ATAAATA
1 TCACTAAAACAAAGATAAATA
*
317215 TCACTAAGACAAAGATAAAT
1 TCACTAAAACAAAGATAAAT
317235 GTGTCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.15, G:0.05, T:0.20
Consensus pattern (21 bp):
TCACTAAAACAAAGATAAATA
Found at i:322542 original size:23 final size:24
Alignment explanation
Indices: 322516--322561 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
322506 ATAATATTAT
322516 TTCGTACCT-TAAAGTTTTATATG
1 TTCGTACCTCTAAAGTTTTATATG
* *
322539 TTCGTTCCTCCTAAATTTTTATA
1 TTCGTACCT-CTAAAGTTTTATA
322562 AACTTTCCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
25 11 0.58
ACGTcount: A:0.24, C:0.17, G:0.09, T:0.50
Consensus pattern (24 bp):
TTCGTACCTCTAAAGTTTTATATG
Found at i:329981 original size:3 final size:3
Alignment explanation
Indices: 329973--330015 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
329963 ACTAAGAAGG
329973 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
330016 ATTTAAAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:330610 original size:32 final size:32
Alignment explanation
Indices: 330574--330646 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
330564 CACTAGAATG
330574 TTTTAATTTACTTCATATCTTTAGCTTTAATA
1 TTTTAATTTACTTCATATCTTTAGCTTTAATA
330606 TTTTAATTTACTTCATATCTTTAGCTTTAATA
1 TTTTAATTTACTTCATATCTTTAGCTTTAATA
330638 TTTTAATTT
1 TTTTAATTT
330647 TGTAAGAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.59
Consensus pattern (32 bp):
TTTTAATTTACTTCATATCTTTAGCTTTAATA
Found at i:330784 original size:21 final size:20
Alignment explanation
Indices: 330737--330785 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
330727 CATTTAAATT
*
330737 TATATAAAATCTATATTAAA
1 TATATGAAATCTATATTAAA
* * *
330757 AAAATGAAATCATATTTTAAA
1 TATATGAAATC-TATATTAAA
330778 TATATGAA
1 TATATGAA
330786 TTTACATAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (20 bp):
TATATGAAATCTATATTAAA
Found at i:332694 original size:21 final size:20
Alignment explanation
Indices: 332670--332709 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
332660 CTAAAAGTTT
*
332670 AGTTATTCGATTTACTATTTG
1 AGTTATTCGAGTT-CTATTTG
332691 AGTTATTCGAGTTCTATTT
1 AGTTATTCGAGTTCTATTT
332710 TATAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.53
Consensus pattern (20 bp):
AGTTATTCGAGTTCTATTTG
Found at i:332747 original size:27 final size:27
Alignment explanation
Indices: 332709--332762 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
332699 GAGTTCTATT
332709 TTATAAATTGTGCCAAATTTTAAAAAA
1 TTATAAATTGTGCCAAATTTTAAAAAA
332736 TTATAAATTGTGCCAAATTTTAAAAAA
1 TTATAAATTGTGCCAAATTTTAAAAAA
332763 ATTTGAGTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (27 bp):
TTATAAATTGTGCCAAATTTTAAAAAA
Found at i:338563 original size:38 final size:38
Alignment explanation
Indices: 338515--338590 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
338505 ACCCATACAT
* * * *
338515 AATTATAATTATAATCAATCAATGCAATATATAAATAA
1 AATTACAATTAAAATCAATCAATACAATACATAAATAA
*
338553 AATTACAATTAAAATCAATCATTACAATACATAAATAA
1 AATTACAATTAAAATCAATCAATACAATACATAAATAA
338591 GTAAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.32
Consensus pattern (38 bp):
AATTACAATTAAAATCAATCAATACAATACATAAATAA
Found at i:338640 original size:28 final size:28
Alignment explanation
Indices: 338585--338645 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
338575 TACAATACAT
**
338585 AAATAAGTAAATATATCTTGTACCAAAA
1 AAATAAGTAAATATATCTAATACCAAAA
*
338613 AAATAAGTAAATATATCTAA-ATCTAAAA
1 AAATAAGTAAATATATCTAATA-CCAAAA
338641 AAATA
1 AAATA
338646 TTTTATTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (28 bp):
AAATAAGTAAATATATCTAATACCAAAA
Found at i:347448 original size:31 final size:31
Alignment explanation
Indices: 347410--347508 Score: 180
Period size: 31 Copynumber: 3.2 Consensus size: 31
347400 TTAAAATACG
347410 TAAGATATAGTCACTTTCGTTTTTATTTAAT
1 TAAGATATAGTCACTTTCGTTTTTATTTAAT
347441 TAAGATATAGTCACTTTCGTTTTTATTTAAT
1 TAAGATATAGTCACTTTCGTTTTTATTTAAT
* *
347472 TAAGATATAGTCACTTTTGTTTTTATTCAAT
1 TAAGATATAGTCACTTTCGTTTTTATTTAAT
347503 TAAGAT
1 TAAGAT
347509 GTGGTCATTG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 66 1.00
ACGTcount: A:0.30, C:0.09, G:0.10, T:0.51
Consensus pattern (31 bp):
TAAGATATAGTCACTTTCGTTTTTATTTAAT
Found at i:347744 original size:23 final size:24
Alignment explanation
Indices: 347699--347744 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
347689 TAAGCTACTA
*
347699 ATAAAATATATTTAATAATTTAAT
1 ATAAAATATATTTAATAAGTTAAT
**
347723 ATAAAA-ATATTTTTTAAGTTAA
1 ATAAAATATATTTAATAAGTTAA
347745 AATATATAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
ATAAAATATATTTAATAAGTTAAT
Found at i:348866 original size:3 final size:3
Alignment explanation
Indices: 348858--348886 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
348848 CTTCCTTTCG
348858 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
348887 GCTTGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:350093 original size:16 final size:16
Alignment explanation
Indices: 350047--350093 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
350037 AATTTGACCA
* *
350047 GAATCGAAAACAATCC
1 GAATCGAAATCAACCC
*
350063 AAATCGAAAGT-AACCC
1 GAATCGAAA-TCAACCC
350079 GAATCGAAATCAACC
1 GAATCGAAATCAACC
350094 AGAACTGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 1 0.04
16 24 0.96
ACGTcount: A:0.49, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
GAATCGAAATCAACCC
Found at i:350501 original size:16 final size:17
Alignment explanation
Indices: 350472--350511 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
350462 TCCGATAGTC
350472 ACCCGACCCAAAAATTG
1 ACCCGACCCAAAAATTG
*
350489 ACCC-ACCCGAAAATTG
1 ACCCGACCCAAAAATTG
350505 ACCCGAC
1 ACCCGAC
350512 TCAATTTCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (17 bp):
ACCCGACCCAAAAATTG
Found at i:351289 original size:19 final size:19
Alignment explanation
Indices: 351249--351294 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
351239 TTCTTAAATT
*
351249 AATAAATACTAATTTTATA
1 AATAAATACTAATTTGATA
*
351268 AATGAATAC-AATTTGATAA
1 AATAAATACTAATTTGAT-A
351287 AATAAATA
1 AATAAATA
351295 ATAAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (19 bp):
AATAAATACTAATTTGATA
Found at i:353942 original size:25 final size:25
Alignment explanation
Indices: 353902--353951 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
353892 GAAATTATAT
* *
353902 TAAAATTTTAAAAGATTTGAAATTA
1 TAAAATTTCAAAAGATGTGAAATTA
*
353927 TAAAATTTCAAGAGATGTGAAATTA
1 TAAAATTTCAAAAGATGTGAAATTA
353952 GATTATCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (25 bp):
TAAAATTTCAAAAGATGTGAAATTA
Found at i:362256 original size:11 final size:11
Alignment explanation
Indices: 362237--362270 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
362227 TAGTTTAAAC
362237 ACAATTCAAAA
1 ACAATTCAAAA
*
362248 ACAACTCAAAA
1 ACAATTCAAAA
*
362259 ACTATTCAAAA
1 ACAATTCAAAA
362270 A
1 A
362271 GTTTTCTCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.62, C:0.21, G:0.00, T:0.18
Consensus pattern (11 bp):
ACAATTCAAAA
Found at i:369930 original size:17 final size:17
Alignment explanation
Indices: 369894--369926 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
369884 ACAACGCGTA
369894 ATTTATATTTAAAATTT
1 ATTTATATTTAAAATTT
*
369911 ATTTA-ATTTAATATTT
1 ATTTATATTTAAAATTT
369927 TATTATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTATATTTAAAATTT
Found at i:383597 original size:17 final size:16
Alignment explanation
Indices: 383576--383623 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
383566 TTTTACATAT
383576 TATTAATTTTATAATA
1 TATTAATTTTATAATA
*
383592 TAATT-A-TTTATATTA
1 T-ATTAATTTTATAATA
*
383607 TATTAATTTTAAAATA
1 TATTAATTTTATAATA
383623 T
1 T
383624 TTACTTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
14 3 0.12
15 10 0.38
16 10 0.38
17 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTAATTTTATAATA
Found at i:384305 original size:17 final size:17
Alignment explanation
Indices: 384283--384315 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
384273 TGAAGATCAT
384283 TTAATATATTAAGTATA
1 TTAATATATTAAGTATA
*
384300 TTAATATGTTAAGTAT
1 TTAATATATTAAGTAT
384316 GATTTTTTAT
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:0.42, C:0.00, G:0.09, T:0.48
Consensus pattern (17 bp):
TTAATATATTAAGTATA
Found at i:386110 original size:2 final size:2
Alignment explanation
Indices: 386103--386139 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
386093 GTATCTGATT
386103 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
386140 TAGTTTAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:392346 original size:209 final size:211
Alignment explanation
Indices: 392021--392547 Score: 878
Period size: 210 Copynumber: 2.5 Consensus size: 211
392011 ATTTGATAAT
*
392021 TAAATTGAACAAATATGAAATTACAAATTAAAATTTAAATAAATTAAACAACACACATTGATGAG
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAA-ACACA---A--AG
* * *
392086 GGATCAAATTGAAATAATTTTAAATTGTGAGGTTGAAATTAATACAAAAAAA-TACTAAATTATA
60 GGATCAAATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAAAGTACTAAATAATA
* * *
392150 CCCATTTAAAAAGTCATGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGGGTCAATTTCAG
125 CACATTTAAAAAGTCACGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAG
392215 ATGCAAATATAATTTGGAGGAC
190 ATGCAAATATAATTTGGAGGAC
392237 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAAC-AACACAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAAACACAAAGGGATCA
392301 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAAAGTACTAAATAATACACATT
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAAAGTACTAAATAATACACATT
* *
392366 TAAAAAGTTACGTGCCAATTAAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGATGCAA
131 TAAAAAGTCACGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGATGCAA
392431 ATATAATTTGGAGGAC
196 ATATAATTTGGAGGAC
* *
392447 TAAATTGAAAAAATATGAAATTACAAATAAAATTTTAAATAAATTAAACAAACACAAAGGGATCA
1 TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAAACACAAAGGGATCA
*
392512 AATCTAAATAATTTTAAATTGTGAGGTTGAAATTAA
66 AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAA
392548 CACATTGATG
Statistics
Matches: 297, Mismatches: 12, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
209 52 0.18
210 140 0.47
211 51 0.17
214 5 0.02
215 1 0.00
216 48 0.16
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (211 bp):
TAAATTGAACAAATATGAAATTACAAATAAAAATTTAAATAAATTAAACAAACACAAAGGGATCA
AATCGAAATAATTTTAAATTGTGAGGTTGAAATTAATAAAAAAAAAGTACTAAATAATACACATT
TAAAAAGTCACGGGCCAATTAAAAAATATAAATAAGTAATAAGTATGAGTCAATTTCAGATGCAA
ATATAATTTGGAGGAC
Found at i:392868 original size:2 final size:2
Alignment explanation
Indices: 392857--393065 Score: 110
Period size: 2 Copynumber: 103.0 Consensus size: 2
392847 TTAAAACAAC
392857 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
392897 TA AA CTA TA AA GTT TA TA TA TA AA GTA TA TG TA T- TA TA TA CA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
392939 TA AA CTA TA TA GTT TA TA TA TA AA GTA TA TG TA T- TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * * *
392981 TA AA CTA TA TA GTT TA TA TT TA TA T- TA T- TA TA TA CTA TG TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * *
393022 TA AA CTA TA TA TA T- TA TA TA TA TA T- TA TG TA TA AA CTA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
393064 TA
1 TA
393066 CCATGTATAA
Statistics
Matches: 154, Mismatches: 34, Indels: 38
0.68 0.15 0.17
Matches are distributed among these distances:
1 8 0.05
2 135 0.88
3 11 0.07
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:392967 original size:11 final size:10
Alignment explanation
Indices: 392865--393065 Score: 52
Period size: 11 Copynumber: 18.9 Consensus size: 10
392855 ACTATAATAT
*
392865 ATATATATAT
1 ATATATATAA
*
392875 ATATATATAT
1 ATATATATAA
392885 ATATATATAA
1 ATATATATAA
*
392895 TATAAACTATAA
1 -ATATA-TATAA
392907 AGTTTATATATAA
1 A---TATATATAA
* *
392920 AGTATATGTATT
1 A-TATATATA-A
*
392932 ATATACATAA
1 ATATATATAA
392942 ACTATATAGT--
1 A-TATATA-TAA
*
392952 TTATATATAA
1 ATATATATAA
* *
392962 AGTATATGTATT
1 A-TATATATA-A
392974 ATATATATAA
1 ATATATATAA
**
392984 ACTATATAGTTT
1 A-TATATA-TAA
*
392996 ATATTTAT-A
1 ATATATATAA
*
393005 TTAT-TATATA
1 ATATATATA-A
* *
393015 CTATGTATAA
1 ATATATATAA
393025 ACTATATAT-A
1 A-TATATATAA
*
393035 TTATATATATA
1 ATATATATA-A
* *
393046 TTATGTATAA
1 ATATATATAA
393056 ACTATATATA
1 A-TATATATA
393066 CCATGTATAA
Statistics
Matches: 142, Mismatches: 28, Indels: 41
0.67 0.13 0.19
Matches are distributed among these distances:
8 4 0.03
9 16 0.11
10 29 0.20
11 74 0.52
12 10 0.07
13 6 0.04
14 3 0.02
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (10 bp):
ATATATATAA
Found at i:393039 original size:41 final size:42
Alignment explanation
Indices: 392868--393188 Score: 215
Period size: 42 Copynumber: 7.5 Consensus size: 42
392858 ATAATATATA
* * *
392868 TATATATATATATATATATATA-TATAATATAAACTATAAAGTT
1 TATATATATAT-TATGTATAAACTAT-ATATAAACTATATAGTT
* * *
392911 TATATATAAAGTATATGTAT-TA-TATACATAAACTATATAGTT
1 TATATATATA-T-TATGTATAAACTATATATAAACTATATAGTT
* *
392953 TATATATAAAGTATATGTAT-TA-TATATATAAACTATATAGTT
1 TATATATATA-T-TATGTATAAACTATATATAAACTATATAGTT
* * *
392995 TATATTTATATTAT-TATATACTATGTATAAACTATATA-TAT
1 TATATATATATTATGTATAAACTATATATAAACTATATAGT-T
** * *
393036 TATATATATATTATGTATAAACTATATATACCATGTATAAACTAT
1 TATATATATATTATGTATAAACTATATATA--AACTATATAGT-T
* * * * *
393081 AATACTATATAGTTTATATATGAACTATATAGAAACTACATAGTT
1 TATA-TATATA--TTATGTATAAACTATATATAAACTATATAGTT
* * ** * * *
393126 TATATATAAATTATATATGCATTATATATAAACTATACAATT
1 TATATATATATTATGTATAAACTATATATAAACTATATAGTT
393168 TATATTGATATATTATGTATA
1 TATA-T-ATATATTATGTATA
393189 GTTATAAATA
Statistics
Matches: 231, Mismatches: 34, Indels: 25
0.80 0.12 0.09
Matches are distributed among these distances:
39 3 0.01
40 6 0.03
41 31 0.13
42 107 0.46
43 15 0.06
44 30 0.13
45 10 0.04
46 12 0.05
48 17 0.07
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.44
Consensus pattern (42 bp):
TATATATATATTATGTATAAACTATATATAAACTATATAGTT
Found at i:393051 original size:31 final size:30
Alignment explanation
Indices: 393001--393065 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 30
392991 AGTTTATATT
393001 TATATTATTATATACTATGTATAAACTATA
1 TATATTATTATATACTATGTATAAACTATA
*
393031 TATATTATATATATATTATGTATAAACTATA
1 TATATTAT-TATATACTATGTATAAACTATA
393062 TATA
1 TATA
393066 CCATGTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 8 0.24
31 25 0.76
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (30 bp):
TATATTATTATATACTATGTATAAACTATA
Found at i:393071 original size:20 final size:20
Alignment explanation
Indices: 393038--393085 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
393028 ATATATATTA
**
393038 TATATATATTATGTATAAAC
1 TATATATACCATGTATAAAC
393058 TATATATACCATGTATAAAC
1 TATATATACCATGTATAAAC
393078 TATA-ATAC
1 TATATATAC
393086 TATATAGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (20 bp):
TATATATACCATGTATAAAC
Found at i:393126 original size:31 final size:31
Alignment explanation
Indices: 393084--393142 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
393074 AAACTATAAT
* *
393084 ACTATATAGTTTATATATGAACTATATAGAA
1 ACTACATAGTTTATATATAAACTATATAGAA
*
393115 ACTACATAGTTTATATATAAATTATATA
1 ACTACATAGTTTATATATAAACTATATA
393143 TGCATTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (31 bp):
ACTACATAGTTTATATATAAACTATATAGAA
Found at i:393255 original size:22 final size:22
Alignment explanation
Indices: 393209--393264 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
393199 ATATATATTG
* *
393209 TATAAATTATATAGTTTTTTAA
1 TATAAACTATATAGTTTTATAA
393231 TATAAACTATATAG-TTTAT-A
1 TATAAACTATATAGTTTTATAA
*
393251 TATATA-TATATAGT
1 TATAAACTATATAGT
393265 ATATATGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 4 0.13
22 13 0.43
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (22 bp):
TATAAACTATATAGTTTTATAA
Found at i:393820 original size:14 final size:14
Alignment explanation
Indices: 393801--393828 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
393791 TTCCAGGCAT
393801 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
393815 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
393829 GAGCATCCGA
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:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:393953 original size:31 final size:33
Alignment explanation
Indices: 393915--393987 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
393905 GCGACCTACC
*
393915 CTCGCTCGGTAG-CC-CGGATTCCCTCGCATAG
1 CTCGCTCGGTAGCCCTCGGATGCCCTCGCATAG
*
393946 CTCGCTCGGTTGCCCTCGGATGCCCTCGCATAG
1 CTCGCTCGGTAGCCCTCGGATGCCCTCGCATAG
*
393979 CTCGTTCGG
1 CTCGCTCGG
393988 ATGGCCTCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 11 0.30
32 2 0.05
33 24 0.65
ACGTcount: A:0.10, C:0.38, G:0.27, T:0.25
Consensus pattern (33 bp):
CTCGCTCGGTAGCCCTCGGATGCCCTCGCATAG
Found at i:401050 original size:21 final size:21
Alignment explanation
Indices: 401024--401083 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
401014 CGAGGGTTAT
*
401024 AGTGGTTCTTCGGGACAATAC
1 AGTGGTCCTTCGGGACAATAC
*
401045 AGTGGTCCTTCAGGACAATAC
1 AGTGGTCCTTCGGGACAATAC
401066 AGTGGTCCTTCGGGACAA
1 AGTGGTCCTTCGGGACAA
401084 ATTTCATATG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (21 bp):
AGTGGTCCTTCGGGACAATAC
Found at i:404500 original size:25 final size:26
Alignment explanation
Indices: 404472--404523 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
404462 TATTGAAAAT
* *
404472 TTATTTTTTCT-TTCTTAAAATTTTA
1 TTATTTTATCTCTCCTTAAAATTTTA
404497 TTATTTTATCTCTCCTTAAAATTTTA
1 TTATTTTATCTCTCCTTAAAATTTTA
404523 T
1 T
404524 AAATACGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTTATCTCTCCTTAAAATTTTA
Found at i:404792 original size:16 final size:13
Alignment explanation
Indices: 404757--404798 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
404747 TACAAGGCCC
404757 AATTATTTTTAAT
1 AATTATTTTTAAT
404770 AATTATTTTTAAT
1 AATTATTTTTAAT
* *
404783 ACTTATTATTAA-
1 AATTATTTTTAAT
404795 AATT
1 AATT
404799 TAATTTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 3 0.12
13 23 0.88
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (13 bp):
AATTATTTTTAAT
Found at i:404848 original size:31 final size:30
Alignment explanation
Indices: 404773--404853 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
404763 TTTTAATAAT
* * *
404773 TATTTT-TAATACTTATTATTAAAATTTAA
1 TATTTTCTAATATTTATTATTAAAACTCAA
*
404802 T-TTTTACT-ATATTTATTATTATGAACTCAA
1 TATTTT-CTAATATTTATTATTA-AAACTCAA
404832 TATTTTCTAATATTTATTATTA
1 TATTTTCTAATATTTATTATTA
404854 GGGTCTACTC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 4 0.09
29 13 0.30
30 9 0.21
31 17 0.40
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (30 bp):
TATTTTCTAATATTTATTATTAAAACTCAA
Found at i:414238 original size:16 final size:16
Alignment explanation
Indices: 414217--414277 Score: 95
Period size: 16 Copynumber: 3.8 Consensus size: 16
414207 TAATAAATAA
*
414217 ACGAACATAAACGAAT
1 ACGAACATAAACGAAC
414233 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
414249 ACGAACATAAATGTAC
1 ACGAACATAAACGAAC
414265 ACGAACATAAACG
1 ACGAACATAAACG
414278 TTGGAGACCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.54, C:0.21, G:0.13, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:414525 original size:23 final size:23
Alignment explanation
Indices: 414496--414583 Score: 131
Period size: 23 Copynumber: 3.8 Consensus size: 23
414486 CTCGAGACTC
* *
414496 GAGCTCGATTGAAGTTTGATTCT
1 GAGCTCGATTGAAGCTCGATTCT
*
414519 GAGCTCGATTGAAGCTCAATTCT
1 GAGCTCGATTGAAGCTCGATTCT
414542 GAGCTCGATTGAAGCTCGATTCT
1 GAGCTCGATTGAAGCTCGATTCT
* *
414565 GAGCTCAATTCAAGCTCGA
1 GAGCTCGATTGAAGCTCGA
414584 CATTGCCCCA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (23 bp):
GAGCTCGATTGAAGCTCGATTCT
Found at i:414546 original size:12 final size:12
Alignment explanation
Indices: 414513--414575 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
414503 ATTGAAGTTT
414513 GATTCTGAGCTC
1 GATTCTGAGCTC
414525 GA-T-TGAAGCTC
1 GATTCTG-AGCTC
*
414536 AATTCTGAGCTC
1 GATTCTGAGCTC
414548 GA-T-TGAAGCTC
1 GATTCTG-AGCTC
414559 GATTCTGAGCTC
1 GATTCTGAGCTC
*
414571 AATTC
1 GATTC
414576 AAGCTCGACA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
10 4 0.10
11 15 0.36
12 19 0.45
13 4 0.10
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (12 bp):
GATTCTGAGCTC
Found at i:414580 original size:11 final size:11
Alignment explanation
Indices: 414497--414583 Score: 57
Period size: 11 Copynumber: 7.6 Consensus size: 11
414487 TCGAGACTCG
*
414497 AGCTCGATTGA
1 AGCTCGATTCA
* * *
414508 AGTTTGATTCTG
1 AGCTCGATTC-A
*
414520 AGCTCGATTGA
1 AGCTCGATTCA
* *
414531 AGCTCAATTCTG
1 AGCTCGATTC-A
*
414543 AGCTCGATTGA
1 AGCTCGATTCA
*
414554 AGCTCGATTCTG
1 AGCTCGATTC-A
*
414566 AGCTCAATTCA
1 AGCTCGATTCA
414577 AGCTCGA
1 AGCTCGA
414584 CATTGCCCCA
Statistics
Matches: 54, Mismatches: 19, Indels: 6
0.68 0.24 0.08
Matches are distributed among these distances:
11 30 0.56
12 24 0.44
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (11 bp):
AGCTCGATTCA
Found at i:420965 original size:25 final size:26
Alignment explanation
Indices: 420919--420972 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
420909 AGTTGTCACG
420919 AAAATAATAATAATAGCTTATT-TTT
1 AAAATAATAATAATAGCTTATTATTT
* *
420944 AAAATAAT-ATAGTATCTATATTATTT
1 AAAATAATAATAATAGCT-TATTATTT
420970 AAA
1 AAA
420973 TTCTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 12 0.48
26 6 0.24
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (26 bp):
AAAATAATAATAATAGCTTATTATTT
Found at i:422854 original size:12 final size:12
Alignment explanation
Indices: 422839--422869 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
422829 AATAATAATA
*
422839 ATTATTACTTTT
1 ATTATTACTTAT
422851 ATTATTACTTAT
1 ATTATTACTTAT
422863 ATTATTA
1 ATTATTA
422870 ATAACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTATTACTTAT
Found at i:423778 original size:30 final size:30
Alignment explanation
Indices: 423744--423910 Score: 158
Period size: 30 Copynumber: 5.5 Consensus size: 30
423734 TTATTAGTGG
*
423744 TTTAGTCCTTTAAGTTTATATTTTTGCTAT
1 TTTAGTCCTTTAAGTTTATATTTTTACTAT
* *
423774 TTTAGTCCTTTAAATATATATTTTTACTAT
1 TTTAGTCCTTTAAGTTTATATTTTTACTAT
* * *
423804 TTTAGTCCCTTAAGTTTCTATTTTTTCTAT
1 TTTAGTCCTTTAAGTTTATATTTTTACTAT
* * *
423834 TTTGGACCTTTAA-ATTAT-TGTTTGTACTAT
1 TTTAGTCCTTTAAGTTTATAT-TTT-TACTAT
* * * * *
423864 TTTGGTCCTCTAAGTTTCTATTTTCACCAT
1 TTTAGTCCTTTAAGTTTATATTTTTACTAT
*
423894 TTTGGTCCTTGTAAGTT
1 TTTAGTCCTT-TAAGTT
423911 AAAATACTTA
Statistics
Matches: 111, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 6 0.05
30 91 0.82
31 12 0.11
32 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.56
Consensus pattern (30 bp):
TTTAGTCCTTTAAGTTTATATTTTTACTAT
Found at i:423896 original size:60 final size:60
Alignment explanation
Indices: 423744--423903 Score: 191
Period size: 60 Copynumber: 2.7 Consensus size: 60
423734 TTATTAGTGG
* * * *
423744 TTTAGTCCTTTAAGTTTATATTTTTGCTATTTTAGTCCTTTAAATATATATTTTTACTAT
1 TTTAGTCCTCTAAGTTTCTATTTTTACTATTTTGGTCCTTTAAATATATATTTTTACTAT
* *
423804 TTTAGTCC-CTTAAGTTTCTATTTTTTCTATTTTGGACCTTTAAAT-TAT-TGTTTGTACTAT
1 TTTAGTCCTC-TAAGTTTCTATTTTTACTATTTTGGTCCTTTAAATATATAT-TTT-TACTAT
* * *
423864 TTTGGTCCTCTAAGTTTCTATTTTCACCATTTTGGTCCTT
1 TTTAGTCCTCTAAGTTTCTATTTTTACTATTTTGGTCCTT
423904 GTAAGTTAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
58 1 0.01
59 6 0.07
60 78 0.91
61 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.09, T:0.56
Consensus pattern (60 bp):
TTTAGTCCTCTAAGTTTCTATTTTTACTATTTTGGTCCTTTAAATATATATTTTTACTAT
Found at i:433221 original size:29 final size:29
Alignment explanation
Indices: 433164--433221 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
433154 GTGTTGGCCG
* *
433164 TAGGTCGCCATGCCTTCCGGGTGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
433193 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
433222 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.14, C:0.34, G:0.28, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:433307 original size:23 final size:21
Alignment explanation
Indices: 433258--433310 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
433248 CCAACACGCT
433258 GGGCATCCG-AGAGCATCCGA
1 GGGCATCCGAAGAGCATCCGA
* *
433278 GGCCATCCGAACGAGCTATGCGA
1 GGGCATCCGAA-GAGC-ATCCGA
433301 GGGCATCCGA
1 GGGCATCCGA
433311 GGGCAACCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 4 0.15
23 14 0.52
ACGTcount: A:0.25, C:0.30, G:0.34, T:0.11
Consensus pattern (21 bp):
GGGCATCCGAAGAGCATCCGA
Found at i:433312 original size:33 final size:33
Alignment explanation
Indices: 433265--433345 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
433255 GCTGGGCATC
* *
433265 CGAGAGCATCCGAGGCCATCCGAACGAGCTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
* *
433298 CGAGGGCATCCGAGGGCAACCGAGCGAGCTATG
1 CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
* *
433331 CGAGGGAATCAGAGG
1 CGAGGGCATCCGAGG
433346 GAAGTCGAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.27, C:0.26, G:0.37, T:0.10
Consensus pattern (33 bp):
CGAGGGCATCCGAGGCCAACCGAACGAGCTATG
Found at i:433395 original size:29 final size:29
Alignment explanation
Indices: 433362--433417 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
433352 GAGCGAGGGT
433362 AGGTCACCCGGAGTG-CATGGCGACCTACA
1 AGGTCACCCGGAG-GACATGGCGACCTACA
*
433391 AGGTCGCCCGGAGGACATGGCGACCTA
1 AGGTCACCCGGAGGACATGGCGACCTA
433418 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.12
Consensus pattern (29 bp):
AGGTCACCCGGAGGACATGGCGACCTACA
Found at i:434834 original size:33 final size:33
Alignment explanation
Indices: 434797--434865 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 33
434787 AGGGTTGGAC
* *
434797 TTTTT-AAAAAATATGAGTTCAGATTGAGTCAAA
1 TTTTTGAAAAAA-ATCAGATCAGATTGAGTCAAA
** *
434830 TTTTTGTGAAAAATCAGATCGGATTGAGTCAAA
1 TTTTTGAAAAAAATCAGATCAGATTGAGTCAAA
434863 TTT
1 TTT
434866 CAAATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 26 0.87
34 4 0.13
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.38
Consensus pattern (33 bp):
TTTTTGAAAAAAATCAGATCAGATTGAGTCAAA
Done.