Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009303.1 Hibiscus syriacus cultivar Beakdansim tig00113027_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: 127255
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:404 original size:34 final size:34
Alignment explanation
Indices: 325--432 Score: 155
Period size: 34 Copynumber: 3.1 Consensus size: 34
315 CCATTATCAT
* * *
325 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA
1 TTTTCAAAGAAACATTTACCAAACTTTG--AAACCA
360 TTTTTCAAAGAAACATTTACCAAACTTTGAAACCA
1 -TTTTCAAAGAAACATTTACCAAACTTTGAAACCA
395 TTTTCAAAGAAACATTTACCAAACTTTGAAACCA
1 TTTTCAAAGAAACATTTACCAAACTTTGAAACCA
429 TTTT
1 TTTT
433 TTTCAAAGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
34 38 0.56
35 5 0.07
36 5 0.07
37 20 0.29
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (34 bp):
TTTTCAAAGAAACATTTACCAAACTTTGAAACCA
Found at i:1920 original size:20 final size:21
Alignment explanation
Indices: 1895--1933 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1885 CTTCAATTTT
1895 TTTTATTTAATTTT-TTCTCA
1 TTTTATTTAATTTTATTCTCA
*
1915 TTTTATTTTATTTTATTCT
1 TTTTATTTAATTTTATTCT
1934 ATTATTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTAATTTTATTCTCA
Found at i:5222 original size:65 final size:65
Alignment explanation
Indices: 5119--5243 Score: 200
Period size: 65 Copynumber: 1.9 Consensus size: 65
5109 TGTGACTATA
5119 TGTGTATGCTTGCAATTCTGTGCTAAATTAGAAGAAAGGGAA-AAGGACTACAAGCAAAAAGTAT
1 TGTGTATGCTTGCAATTCTGTGCTAAATTAGAAGAAAGGGAACAA-GACTACAAGCAAAAAGTAT
5183 G
65 G
* *
5184 TGTGTATGCTTTCATTTCTGTGCTAAATTAGGAA-AAAGGGAACAAGACTACAAGCAAAAA
1 TGTGTATGCTTGCAATTCTGTGCTAAATTA-GAAGAAAGGGAACAAGACTACAAGCAAAAA
5244 CAGTTCATTA
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
65 51 0.91
66 5 0.09
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (65 bp):
TGTGTATGCTTGCAATTCTGTGCTAAATTAGAAGAAAGGGAACAAGACTACAAGCAAAAAGTATG
Found at i:5280 original size:21 final size:21
Alignment explanation
Indices: 5254--5299 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
5244 CAGTTCATTA
5254 GCTCTATCTTGAGCTTCCCAT
1 GCTCTATCTTGAGCTTCCCAT
5275 GCTCTATCTTGAGCTTCCCAT
1 GCTCTATCTTGAGCTTCCCAT
5296 GCTC
1 GCTC
5300 AGCCAAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.35, G:0.15, T:0.37
Consensus pattern (21 bp):
GCTCTATCTTGAGCTTCCCAT
Found at i:5727 original size:91 final size:91
Alignment explanation
Indices: 5571--5754 Score: 278
Period size: 91 Copynumber: 2.0 Consensus size: 91
5561 TCTTGAGATG
* * * ** *
5571 ATAACATCTATGGGATAATTCATAGAAACTATTAAGTGTATTTTAAGTATTAAAGATCATATGAC
1 ATAACATATATGGGATAATCCATAGAAACTAATAAGTGTACCTGAAGTATTAAAGATCATATGAC
*
5636 TTTTAATTAAATTTTGATGATTAGTT
66 TATTAATTAAATTTTGATGATTAGTT
* *
5662 ATAACATATATGGGATAATCCATAGAAACTAATAAGTGTACCTGAAGTATTAAAGCTCATCTGAC
1 ATAACATATATGGGATAATCCATAGAAACTAATAAGTGTACCTGAAGTATTAAAGATCATATGAC
*
5727 TATTAATTAAGTTTTGATGATTAGTT
66 TATTAATTAAATTTTGATGATTAGTT
5753 AT
1 AT
5755 TGATACTAGT
Statistics
Matches: 83, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 83 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (91 bp):
ATAACATATATGGGATAATCCATAGAAACTAATAAGTGTACCTGAAGTATTAAAGATCATATGAC
TATTAATTAAATTTTGATGATTAGTT
Found at i:13144 original size:27 final size:28
Alignment explanation
Indices: 13095--13148 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
13085 TGAAATTATG
*
13095 AAAATACTCTTATGAGGTAAAAATGACC
1 AAAATACTCATATGAGGTAAAAATGACC
13123 AAAATAC-CATATGAGAGT-AAAATGAC
1 AAAATACTCATATGAG-GTAAAAATGAC
13149 TATATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (28 bp):
AAAATACTCATATGAGGTAAAAATGACC
Found at i:14243 original size:35 final size:36
Alignment explanation
Indices: 14162--14245 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 36
14152 AGTTATGATT
* ** *
14162 AAACTGGTAATTCCTTATGGTAGGTTCAGCTCGGTC
1 AAACTGGTAATTCCTTATGATAGGTTCAGAACGATC
*
14198 AAACTAGTAATTCCTTAT-ATAGGTTCAGAACGATC
1 AAACTGGTAATTCCTTATGATAGGTTCAGAACGATC
* *
14233 GAGCTGGTAATTC
1 AAACTGGTAATTC
14246 TTTACAGATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 23 0.57
36 17 0.43
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (36 bp):
AAACTGGTAATTCCTTATGATAGGTTCAGAACGATC
Found at i:15403 original size:48 final size:48
Alignment explanation
Indices: 15332--15429 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
15322 ATGCATGTAT
* *
15332 CCTTTAAAAGATCATCGTGTCGTATGGAACCCTGTACGACCTTTTTTC
1 CCTTTAAAAGATCATCGTGTCGTATGGAACCCTATACCACCTTTTTTC
*
15380 CCTTTAAAATATCATCGTGTCGTATGGAACCCTATACCACCTTTTTTC
1 CCTTTAAAAGATCATCGTGTCGTATGGAACCCTATACCACCTTTTTTC
15428 CC
1 CC
15430 CTGCCATTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (48 bp):
CCTTTAAAAGATCATCGTGTCGTATGGAACCCTATACCACCTTTTTTC
Found at i:18738 original size:29 final size:29
Alignment explanation
Indices: 18706--18788 Score: 74
Period size: 22 Copynumber: 3.1 Consensus size: 29
18696 AACTTAAATT
18706 ATAAAGCTTGAACTCTAAATCATAACCTA
1 ATAAAGCTTGAACTCTAAATCATAACCTA
* * * *
18735 AT-AA-C-----CTATAAACCATAA-ATC
1 ATAAAGCTTGAACTCTAAATCATAACCTA
18756 ATAAAGCTTGAACTCTAAATCATAACCTA
1 ATAAAGCTTGAACTCTAAATCATAACCTA
18785 ATAA
1 ATAA
18789 CCTATAAACC
Statistics
Matches: 38, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
21 3 0.08
22 13 0.34
23 1 0.03
27 1 0.03
28 13 0.34
29 7 0.18
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (29 bp):
ATAAAGCTTGAACTCTAAATCATAACCTA
Found at i:18760 original size:50 final size:50
Alignment explanation
Indices: 18700--18810 Score: 213
Period size: 50 Copynumber: 2.2 Consensus size: 50
18690 CTTAAAAACT
*
18700 TAAATTATAAAGCTTGAACTCTAAATCATAACCTAATAACCTATAAACCA
1 TAAATCATAAAGCTTGAACTCTAAATCATAACCTAATAACCTATAAACCA
18750 TAAATCATAAAGCTTGAACTCTAAATCATAACCTAATAACCTATAAACCA
1 TAAATCATAAAGCTTGAACTCTAAATCATAACCTAATAACCTATAAACCA
18800 TAAATCATAAA
1 TAAATCATAAA
18811 TCATAACTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.50, C:0.20, G:0.04, T:0.27
Consensus pattern (50 bp):
TAAATCATAAAGCTTGAACTCTAAATCATAACCTAATAACCTATAAACCA
Found at i:19724 original size:3 final size:3
Alignment explanation
Indices: 19716--19747 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
19706 AATAAAATAG
*
19716 AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19748 AAGTAAGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19902 original size:16 final size:17
Alignment explanation
Indices: 19875--19908 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19865 AAAAATGTAT
*
19875 ATATATATATAATAATAC
1 ATATAGATA-AATAATAC
19893 ATATAGATAAATAATA
1 ATATAGATAAATAATA
19909 GAGAGAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATAGATAAATAATAC
Found at i:20472 original size:37 final size:36
Alignment explanation
Indices: 20420--20529 Score: 166
Period size: 36 Copynumber: 3.0 Consensus size: 36
20410 AATGCTTATG
20420 ATCCTATTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
20456 ATCCTATTTTTAGGAGTTTGAATCATGGTAACACTCT
1 ATCCTA-TTTTAGGAGTTTGAATCATAGTAAAACTCT
* * *
20493 ATCATATTTTAGGAGTTTGAATCCTAGTAGAACTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGTAAAACTCT
20529 A
1 A
20530 ACGTTATGTT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 33 0.50
37 33 0.50
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:20510 original size:36 final size:36
Alignment explanation
Indices: 20424--20529 Score: 158
Period size: 37 Copynumber: 2.9 Consensus size: 36
20414 CTTATGATCC
*
20424 TATTTTAGGAGTTTGAATCATAGTAAAACTCTATCC
1 TATTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
20460 TATTTTTAGGAGTTTGAATCATGGTAACACTCTATCA
1 TA-TTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
20497 TATTTTAGGAGTTTGAATCCTAGTAGAACTCTA
1 TATTTTAGGAGTTTGAATCATAGTAAAACTCTA
20530 ACGTTATGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
36 29 0.47
37 33 0.53
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (36 bp):
TATTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:21216 original size:84 final size:83
Alignment explanation
Indices: 21106--21969 Score: 799
Period size: 84 Copynumber: 10.5 Consensus size: 83
21096 AAATTTGGTT
* * * *
21106 TGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT-GGTTGGCAGATAGCCCTTCTCGACTTA
* *
21171 AGCTATGATGCAAATGATG
65 AGTTATGCTGCAAATGATG
* * * * * * * *
21190 TGTCTTGGAGGTGAGTGTAGTTGAACTCGAAGGTCTTCTGG-TGACAGATAACCCTTCTAGCCTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-T-TGGTTGGCAGATAGCCCTTCTCGACTT
* **
21254 GAGTTATGCTTAAAATGATG
64 AAGTTATGCTGCAAATGATG
* * * * **
21274 TGCCTTCGAAGCTGAGTGTAATCGAACTCGAGGGTC-T--TTAACAGATAGCCCTTCTCGACTTA
1 TGCCTT-GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTCGACTTA
*
21336 AGTTATGCTGCAAATGATA
65 AGTTATGCTGCAAATGATG
* * * * * *
21355 CGCCTTGGAGCTAAGCGTAGTCGAATTCGAA-GACATTTGGTTGGAAGATAACCCTTCTCGACTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--TTGGTTGGCAGATAGCCCTTCTCGACTT
* *
21419 AAGTTTTGCTGCAAATGATA
64 AAGTTATGCTGCAAATGATG
* * * * * * *
21439 CGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCGTTTGGTT-ACAGATAACCCTTATAGCCTT
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC--TTGGTTGGCAGATAGCCCTTCTCGACTT
* * *
21503 GAGTTATGTTGTAAATGATG
64 AAGTTATGCTGCAAATGATG
* * * * * *
21523 TGCCCTCGAAGCTGAGTGTAATCGAACTCG-AGAGTC-T--TTGGCAGATAG-CCTTATCAACTT
1 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAG-GTCTTGGTTGGCAGATAGCCCTTCTCGACTT
* *
21583 AAGCTATGCTGTAAATGATG
64 AAGTTATGCTGCAAATGATG
* * * *
21603 TGCCTTGGAGCTGAGTGTAGTCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCATCTCGACTTA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTTGGCAGATAGCCCTTCTCGACTTA
* *
21668 AGTTATACTGCAAATGATA
65 AGTTATGCTGCAAATGATG
* ** * * * *
21687 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGTTCTTGG-TGATAGATAGCCCATCTGGCCTTGA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTCGACTTAA
*
21751 -TCTATACTGCAAATGATG
66 GT-TATGCTGCAAATGATG
* * *
21769 TGTCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-T--TTGGCAGATAGCCCTTCTCAACTTAA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTCGACTTAA
* *
21831 GTTATGCTACAAATGATA
66 GTTATGCTGCAAATGATG
* * * * * *
21849 TGTCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCATGG-TGGCAGATAGCCCTTCTGGCCTTGA
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTCGACTTAA
* *
21913 GCTATGCTGCAAATTATG
66 GTTATGCTGCAAATGATG
*
21931 TGACTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGG
1 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGG
21970 CTGATAGACA
Statistics
Matches: 639, Mismatches: 116, Indels: 52
0.79 0.14 0.06
Matches are distributed among these distances:
79 28 0.04
80 117 0.18
81 51 0.08
82 140 0.22
83 14 0.02
84 227 0.36
85 61 0.10
86 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (83 bp):
TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTGGTTGGCAGATAGCCCTTCTCGACTTAA
GTTATGCTGCAAATGATG
Found at i:21858 original size:162 final size:161
Alignment explanation
Indices: 21061--21976 Score: 811
Period size: 162 Copynumber: 5.6 Consensus size: 161
21051 ACCAATTTAT
* ** * * * * * * * *
21061 TGACAGATAGCCCTTCTTGCCTTGGGCTATTCTGTAAATTTGGTTTGCCTTTGAGTTGAGTGTAA
1 TGACAGATAGCCCTTCTGGCCTTGATCTATGCTGCAAA--TGATGTGCCTTGGAGCTGAGCGTAG
* * *
21126 TCGAACTCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGATGCAAATGATGT
64 TCGAACTCGAAGGTC-T---TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
* * * *
21191 GTCTTGGAGGTGAGTGTAGTTGAACTCGAAGGTCTTCTGG
125 GCCTTGGAGCTGAGCGTAGTCGAACTCGAA-GTC-T-TGG
* * ** * * *
21231 TGACAGATAACCCTTCTAGCCTTGAGT-TATGCTTAAAATGATGTGCCTTCGAAGCTGAGTGTAA
1 TGACAGATAGCCCTTCTGGCCTTGA-TCTATGCTGCAAATGATGTGCCTT-GGAGCTGAGCGTAG
* ** *
21295 TCGAACTCGAGGGTCTTTAACAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATACGCCT
64 TCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCT
* * *
21360 TGGAGCTAAGCGTAGTCGAATTCGAAGACATTTGG
129 TGGAGCTGAGCGTAGTCGAACTCGAAGTC--TTGG
* * * * * ** *
21395 TTGGA-AGATAACCCTTCTCGACTTAAGT-TTTGCTGCAAATGATACGTCTTGGAGCTGAGCGTA
1 -T-GACAGATAGCCCTTCTGGCCTTGA-TCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTA
* * * * * * * *
21458 GTCGAACTCGAAGGTCGTTTGGTTACAGATAACCCTTATAGCCTTGAGTTATGTTGTAAATGATG
63 GTCGAACTCGAAGGTC-TTTGG---CAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* * * *
21523 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTT--
124 TG-CCTTGGAGCTGAGCGTAGTCGAACTCGA-AGTCTTGG
* * *** * * * *
21561 TGGCAGATAG-CCTTATCAACTTAAGCTATGCTGTAAATGATGTGCCTTGGAGCTGAGTGTAGTC
1 TGACAGATAGCCCTTCTGGCCTTGATCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * *
21625 GAACTTGAAGGTCTTTGGTTGGCAGATAACCCATCTCGACTTAAGTTATACTGCAAATGATATGC
66 GAACTCGAAGGTC--T--TTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGC
21690 CTTGGAGCTGAGCGTAGTCGAACTCGAAGTTCTTGG
127 CTTGGAGCTGAGCGTAGTCGAACTCGAAG-TCTTGG
* * * *
21726 TGATAGATAGCCCATCTGGCCTTGATCTATACTGCAAATGATGTGTCTTGGAGCTGAGCGTAGTC
1 TGACAGATAGCCCTTCTGGCCTTGATCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
* * * *
21791 AAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCAACTTAAGTTATGCTACAAATGATATGTCTTG
66 GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
* *
21856 GAGCTGAGCGTAGTCAAACTCGAAGGTCATGG
131 GAGCTGAGCGTAGTCGAACTCGAA-GTCTTGG
* * * *
21888 TGGCAGATAGCCCTTCTGGCCTTGAGCTATGCTGCAAATTATGTGACTTGGAGCTGAGCGTAGTC
1 TGACAGATAGCCCTTCTGGCCTTGATCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
*
21953 GAACTCGAAGGTC-TTGGCTGATAG
66 GAACTCGAAGGTCTTTGGCAGATAG
21977 ACAACCCTTG
Statistics
Matches: 610, Mismatches: 115, Indels: 51
0.79 0.15 0.07
Matches are distributed among these distances:
161 10 0.02
162 145 0.24
163 29 0.05
164 121 0.20
165 120 0.20
166 56 0.09
167 4 0.01
168 45 0.07
169 47 0.08
170 33 0.05
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (161 bp):
TGACAGATAGCCCTTCTGGCCTTGATCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTC
GAACTCGAAGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGTCTTGG
Found at i:23367 original size:95 final size:94
Alignment explanation
Indices: 23204--23376 Score: 267
Period size: 95 Copynumber: 1.8 Consensus size: 94
23194 CCTTTATTGT
* * * *
23204 TAGCTGAATCTTATCCATAAAGTCGGGGCGTTTAACCAATTGCCTTAGAGGGATAGCTCAAACTT
1 TAGCTGAATATTATCCATAAAGTCGGGGCATTTAACCAATTGCCTTAGAGGGACAACTCAAACTT
23269 TATTGTATAGTATAATCACCTTTATCTGGC
66 TATTGTATA-TATAATCACCTTTATCTGGC
* *
23299 TAGCTGAATATTATCCATAAAGTCGGGGCATTTAACCAATTG-CTCTAGAGTGACAACTCAAGCT
1 TAGCTGAATATTATCCATAAAGTCGGGGCATTTAACCAATTGCCT-TAGAGGGACAACTCAAACT
23363 TTATTGTATATATA
65 TTATTGTATATATA
23377 TAATATTATA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
94 6 0.08
95 65 0.92
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (94 bp):
TAGCTGAATATTATCCATAAAGTCGGGGCATTTAACCAATTGCCTTAGAGGGACAACTCAAACTT
TATTGTATATATAATCACCTTTATCTGGC
Found at i:26172 original size:16 final size:17
Alignment explanation
Indices: 26148--26179 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
26138 AAATAAATAG
26148 AATAGAATAATAATAAT
1 AATAGAATAATAATAAT
26165 AATA-AATAATAATAA
1 AATAGAATAATAATAA
26180 AAACAGTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AATAGAATAATAATAAT
Found at i:26201 original size:33 final size:33
Alignment explanation
Indices: 26157--26245 Score: 92
Period size: 34 Copynumber: 2.6 Consensus size: 33
26147 GAATAGAATA
*
26157 ATAATAATAATAAATAATAATAAAAACAGTAA-GT
1 ATAAGAATAATAAATAA-AATAAAAACAG-AAGGT
* * *
26191 A-AAGAGTAATAAAAGAAAATAAAAATAGAAGGGT
1 ATAAGAATAAT-AAATAAAATAAAAACAGAA-GGT
26225 ATAAGAATAATAAATAAAATA
1 ATAAGAATAATAAATAAAATA
26246 TATGTATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
32 2 0.04
33 17 0.38
34 18 0.40
35 8 0.18
ACGTcount: A:0.66, C:0.01, G:0.11, T:0.21
Consensus pattern (33 bp):
ATAAGAATAATAAATAAAATAAAAACAGAAGGT
Found at i:26366 original size:19 final size:19
Alignment explanation
Indices: 26342--26408 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 19
26332 ATATAGATAA
26342 ATAATAGAGAGAAAAAAAT
1 ATAATAGAGAGAAAAAAAT
*
26361 ATAATAGTGGTAGGAAAATAAAAT
1 ATAATAG-AG-A-G-AAA-AAAAT
* *
26385 AAAATA-AGATAAAAAAAT
1 ATAATAGAGAGAAAAAAAT
26403 ATAATA
1 ATAATA
26409 AATATGCATA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
18 10 0.26
19 10 0.26
20 1 0.03
21 2 0.05
22 2 0.05
23 3 0.08
24 10 0.26
ACGTcount: A:0.66, C:0.00, G:0.13, T:0.21
Consensus pattern (19 bp):
ATAATAGAGAGAAAAAAAT
Found at i:26458 original size:19 final size:19
Alignment explanation
Indices: 26436--26479 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
26426 AATGTTTTAA
26436 AAAATAAAAAAAAAAAGAT
1 AAAATAAAAAAAAAAAGAT
* * * *
26455 AAAACAAAATAAAACATAT
1 AAAATAAAAAAAAAAAGAT
26474 AAAATA
1 AAAATA
26480 TAATAATAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.05, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAATAAAAAAAAAAAGAT
Found at i:26928 original size:37 final size:37
Alignment explanation
Indices: 26881--26985 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
26871 ATGGATCCTA
*
26881 TTTTAGGAGTTTGAATCATAGTAAAATTCTATCATAT
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAT
* *
26918 TTTTAGGAGTTTAAATCATAGTAAAACTCTATCCTAT
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAT
* * *
26955 TTTTAGGAGTTTGAATCCTAATAGAACTCTA
1 TTTTAGGAGTTTGAATCATAGTAAAACTCTA
26986 ATGTTATGTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTTAGGAGTTTGAATCATAGTAAAACTCTATCATAT
Found at i:27128 original size:16 final size:17
Alignment explanation
Indices: 27100--27137 Score: 69
Period size: 16 Copynumber: 2.3 Consensus size: 17
27090 TTTAATAGAA
27100 TTTGAGCTTTGAGAGGG
1 TTTGAGCTTTGAGAGGG
27117 TTTGAG-TTTGAGAGGG
1 TTTGAGCTTTGAGAGGG
27133 TTTGA
1 TTTGA
27138 ATGTTTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.18, C:0.03, G:0.39, T:0.39
Consensus pattern (17 bp):
TTTGAGCTTTGAGAGGG
Found at i:35582 original size:15 final size:15
Alignment explanation
Indices: 35564--35629 Score: 96
Period size: 15 Copynumber: 4.4 Consensus size: 15
35554 TTCCGGAAAA
35564 TGAATTACTGGAATT
1 TGAATTACTGGAATT
* *
35579 TGAATTATTAGAATT
1 TGAATTACTGGAATT
**
35594 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
35609 TGAATTACTGGAATT
1 TGAATTACTGGAATT
35624 TGAATT
1 TGAATT
35630 CTGAAAAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.39
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:35598 original size:30 final size:30
Alignment explanation
Indices: 35564--35646 Score: 105
Period size: 30 Copynumber: 2.8 Consensus size: 30
35554 TTCCGGAAAA
** *
35564 TGAATTACTGGAATTTGAATTATTAGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
*
35594 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTAGAATT
*
35624 TGAATT-CTGAAAAAATGAATTAC
1 TGAATTACTG-GAAAATGAATTAC
35647 ATTTCTGGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 3 0.06
30 44 0.94
ACGTcount: A:0.41, C:0.06, G:0.17, T:0.36
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTAGAATT
Found at i:35643 original size:45 final size:45
Alignment explanation
Indices: 35558--35646 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
35548 TTGGTTTTCC
* * **
35558 GGAAAATGAATTACTGGAATTTGAATTATTAGAATTTGAATTACT
1 GGAAAATGAATTACTGGAATTTGAATTATGAAAAAATGAATTACT
*
35603 GGAAAATGAATTACTGGAATTTGAATTCTGAAAAAATGAATTAC
1 GGAAAATGAATTACTGGAATTTGAATTATGAAAAAATGAATTAC
35647 ATTTCTGGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.34
Consensus pattern (45 bp):
GGAAAATGAATTACTGGAATTTGAATTATGAAAAAATGAATTACT
Found at i:35981 original size:23 final size:23
Alignment explanation
Indices: 35932--35994 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
35922 GTGTTATATT
* **
35932 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTAATTAAA
*
35955 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTAATTAAA
35978 ATATTATTTAAATATAT
1 ATA-T-TTTAAATATAT
35995 AAATAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 22 0.65
24 1 0.03
25 11 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTAATTAAA
Found at i:35988 original size:12 final size:12
Alignment explanation
Indices: 35954--35994 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
35944 TATTAATTAG
35954 TATA-TTTTAAA
1 TATATTTTTAAA
35965 TATATTTATTAAA
1 TATATTT-TTAAA
35978 -ATATTATTTAAA
1 TATATT-TTTAAA
35990 TATAT
1 TATAT
35995 AAATAATATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 12 0.46
13 10 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TATATTTTTAAA
Found at i:36022 original size:19 final size:20
Alignment explanation
Indices: 35970--36081 Score: 63
Period size: 20 Copynumber: 5.6 Consensus size: 20
35960 TTAAATATAT
35970 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
35989 ATATATAAATAATATTA-TTCA
1 TTAT-TAAAT-ATATTATTTAA
* **
36010 TTATTAAATATATAATTTTT
1 TTATTAAATATATTATTTAA
*
36030 TTATT--ATATATTATTAAA
1 TTATTAAATATATTATTTAA
* * *
36048 ATA-AAAATATAATATCTTATA
1 TTATTAAATATATTAT-TTA-A
36069 TTATTATAATATA
1 TTATTA-AATATA
36082 ATTGATTATT
Statistics
Matches: 67, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
18 11 0.16
19 16 0.24
20 18 0.27
21 9 0.13
22 7 0.10
23 6 0.09
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:36041 original size:59 final size:59
Alignment explanation
Indices: 35969--36127 Score: 150
Period size: 59 Copynumber: 2.7 Consensus size: 59
35959 TTTAAATATA
*
35969 TTTATTAAAATATTATTTAAATATATAA-ATAATATTATTCATTATTAAATATATAATT-TT
1 TTTATT-ATATATTATTTAAATATATAATATAATATTATT-ATTATTAAA-ATATAATTATT
* * *
36029 TTTATTATATATTATTAAAATA-AAAATATAATATCT-TATATTATTATAATATAATTGATT
1 TTTATTATATATTATTTAAATATATAATATAATAT-TAT-TATTATTAAAATATAATT-ATT
* * * *
36089 ATT-TTATATAATA-TTAAAAATATAATATTATATTATTAT
1 TTTATTATATATTATTTAAATATATAATATAATATTATTAT
36128 AAATATTAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
58 20 0.24
59 50 0.61
60 12 0.15
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (59 bp):
TTTATTATATATTATTTAAATATATAATATAATATTATTATTATTAAAATATAATTATT
Found at i:36120 original size:22 final size:23
Alignment explanation
Indices: 36095--36138 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
36085 GATTATTTTA
36095 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
36117 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
36139 AATAAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:36384 original size:42 final size:42
Alignment explanation
Indices: 36325--36440 Score: 180
Period size: 41 Copynumber: 2.8 Consensus size: 42
36315 ATGAATTACG
* *
36325 TTCCGAAAAACCAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
36367 TTCCGGAAAACGAATTACGTGAAACAAATAC-GGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
* *
36408 TTTCGGAAAACGAATTATGTGAAACAAACACGG
1 TTCCGGAAAACGAATTACGTGAAACAAACACGG
36441 TAATTCGGGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
41 38 0.57
42 29 0.43
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:53123 original size:21 final size:21
Alignment explanation
Indices: 53097--53145 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
53087 GCAAATTCTT
53097 GGGGTATGCTGATAGAGTTAA
1 GGGGTATGCTGATAGAGTTAA
*
53118 GGGGTATGCTGATAGATTTAA
1 GGGGTATGCTGATAGAGTTAA
53139 GGGGTAT
1 GGGGTAT
53146 CGCTTGTGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.27, C:0.04, G:0.39, T:0.31
Consensus pattern (21 bp):
GGGGTATGCTGATAGAGTTAA
Found at i:62824 original size:21 final size:21
Alignment explanation
Indices: 62794--62842 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 21
62784 ATATTATATT
62794 TAAATTAATTAATATATACTAAACA
1 TAAATTAA-TAA-ATAT-C-AAACA
*
62819 TAAATTTATAAATATCAAACA
1 TAAATTAATAAATATCAAACA
62840 TAA
1 TAA
62843 TATCAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 8 0.35
22 1 0.04
23 4 0.17
24 3 0.13
25 7 0.30
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAATTAATAAATATCAAACA
Found at i:62955 original size:13 final size:12
Alignment explanation
Indices: 62914--62954 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
62904 TTAAAATTTA
62914 CAAATACTAAAT
1 CAAATACTAAAT
62926 C-AATA-TATAAT
1 CAAATACTA-AAT
62937 CAAATCACTAAAT
1 CAAAT-ACTAAAT
62950 CAAAT
1 CAAAT
62955 CTATATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 2 0.08
11 8 0.32
12 4 0.16
13 9 0.36
14 2 0.08
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (12 bp):
CAAATACTAAAT
Found at i:65322 original size:41 final size:41
Alignment explanation
Indices: 65233--65325 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
65223 CTGTTGACAA
* * *
65233 TTGCATGACATTCTAGATGGCAGCCATCAATTGTTGAAATT
1 TTGCATGGCATTCTAGATGACAGCCAACAATTGTTGAAATT
* *
65274 TTGCATGGCATTCTAGATGATAGCTAACAATTGTTGAAATT
1 TTGCATGGCATTCTAGATGACAGCCAACAATTGTTGAAATT
65315 TTGCATGGCAT
1 TTGCATGGCAT
65326 CCGGTGGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (41 bp):
TTGCATGGCATTCTAGATGACAGCCAACAATTGTTGAAATT
Found at i:65801 original size:16 final size:16
Alignment explanation
Indices: 65780--65819 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
65770 ATTATTCACG
*
65780 TGAATAGTGGATTTCA
1 TGAATAGTGAATTTCA
**
65796 TGAATAGTGAATTTTG
1 TGAATAGTGAATTTCA
65812 TGAATAGT
1 TGAATAGT
65820 AAAAATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.03, G:0.25, T:0.40
Consensus pattern (16 bp):
TGAATAGTGAATTTCA
Found at i:80500 original size:19 final size:19
Alignment explanation
Indices: 80464--80502 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
80454 GAATATTTCT
* *
80464 TTTTCTTAAAACATAATTA
1 TTTTCATAAAACAAAATTA
*
80483 TTTTCATAAAATAAAATTA
1 TTTTCATAAAACAAAATTA
80502 T
1 T
80503 ATGAACAAAG
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTTCATAAAACAAAATTA
Found at i:81508 original size:29 final size:29
Alignment explanation
Indices: 81441--81511 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
81431 AATAGTTTTA
81441 TAAATATTTAAAACTAAAAATAATGTATT
1 TAAATATTTAAAACTAAAAATAATGTATT
* * * *
81470 TTATTTTTTAAAACT-AAATTATATGTATT
1 TAAATATTTAAAACTAAAAATA-ATGTATT
81499 TAAATATTTAAAA
1 TAAATATTTAAAA
81512 AAACTATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 5 0.15
29 29 0.85
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (29 bp):
TAAATATTTAAAACTAAAAATAATGTATT
Found at i:82460 original size:18 final size:20
Alignment explanation
Indices: 82433--82470 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
82423 AATATAATTT
*
82433 AAAT-ATTTTTTAT-TAAAA
1 AAATAATTTTATATATAAAA
82451 AAATAATTTTATATATAAAA
1 AAATAATTTTATATATAAAA
82471 TTTTTATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 8 0.47
20 5 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATAATTTTATATATAAAA
Found at i:84270 original size:69 final size:69
Alignment explanation
Indices: 84196--84325 Score: 260
Period size: 69 Copynumber: 1.9 Consensus size: 69
84186 TACGATGTTA
84196 GAAGTTTCCTATATCTTGAGGAATAACAAAAGATGGGTGGATTCCTTTGTTTTATATATGATGCG
1 GAAGTTTCCTATATCTTGAGGAATAACAAAAGATGGGTGGATTCCTTTGTTTTATATATGATGCG
84261 TTGG
66 TTGG
84265 GAAGTTTCCTATATCTTGAGGAATAACAAAAGATGGGTGGATTCCTTTGTTTTATATATGA
1 GAAGTTTCCTATATCTTGAGGAATAACAAAAGATGGGTGGATTCCTTTGTTTTATATATGA
84326 CTTCCCTTTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (69 bp):
GAAGTTTCCTATATCTTGAGGAATAACAAAAGATGGGTGGATTCCTTTGTTTTATATATGATGCG
TTGG
Found at i:86504 original size:33 final size:34
Alignment explanation
Indices: 86444--86515 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
86434 GCAGTATGAT
*
86444 TAAAAAAATCCATTGCATTATTGGGAAATAGA-TG
1 TAAAAAAACCCATTGCATTATTGGGAAATA-ATTG
*
86478 TAAAAAACCCCATTGCATTATT-GGAAATAATTG
1 TAAAAAAACCCATTGCATTATTGGGAAATAATTG
86511 TAAAA
1 TAAAA
86516 GGAGAAGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
32 1 0.03
33 14 0.40
34 20 0.57
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (34 bp):
TAAAAAAACCCATTGCATTATTGGGAAATAATTG
Found at i:87392 original size:2 final size:2
Alignment explanation
Indices: 87385--87416 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
87375 ATCATGCCGA
87385 AT AT AT 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 AT AT AT
87417 GGTGACGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91453 original size:2 final size:2
Alignment explanation
Indices: 91446--91475 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91436 GACTAAGACA
91446 AT AT 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 AT AT
91476 TCCAACTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110667 original size:15 final size:15
Alignment explanation
Indices: 110647--110676 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110637 TATCACAATC
110647 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
*
110662 GCGCAGGATTTCGGG
1 GCGCAGGATTCCGGG
110677 AGCACCGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:115632 original size:15 final size:15
Alignment explanation
Indices: 115612--115641 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
115602 TATCACAATC
115612 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
*
115627 GCGCAGGATTTCGGG
1 GCGCAGGATTCCGGG
115642 AGCACCGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:125540 original size:15 final size:15
Alignment explanation
Indices: 125520--125549 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
125510 TATCACAATC
125520 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
*
125535 GCGCAGGATTTCGGG
1 GCGCAGGATTCCGGG
125550 AGCACCGTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Done.