Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 18
Found at i:205541 original size:9 final size:9
Alignment explanation
Indices: 205480--205544 Score: 69
Period size: 9 Copynumber: 6.9 Consensus size: 9
205470 GTAATATGTA
205480 ATAATATATT
1 ATAATA-ATT
*
205490 ATTAATAAAAT
1 A-TAAT-AATT
205501 ATAATAA-T
1 ATAATAATT
205509 AGTAATAATT
1 A-TAATAATT
*
205519 ATAACAATT
1 ATAATAATT
205528 ATAATAATT
1 ATAATAATT
205537 ATAATAAT
1 ATAATAAT
205545 AAAATAGGCA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 2 0.04
9 31 0.65
10 7 0.15
11 7 0.15
12 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (9 bp):
ATAATAATT
Found at i:206093 original size:123 final size:122
Alignment explanation
Indices: 205868--206544 Score: 748
Period size: 123 Copynumber: 5.7 Consensus size: 122
205858 CAACTTTATA
* * * *
205868 TGTGATAAA-TTAAG-ACAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCA
1 TGTGATAAAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
** * *
205930 GATGAGTTCTTCTCATTATGAACACT-TCTGGAAATGTTGATGTTGATCTATCTCCTTC
66 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAA-ATT-ATGCTGATCTATCTCCTTC
* *
205988 TGTGATAAAGTCAAACAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 TGTGATAAAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
206053 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAATTGATGCTGATCTATCTCCTTC
66 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAATT-ATGCTGATCTATCTCCTTC
* *
206111 TGTGA-AAGAGTCATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
1 TGTGATAA-AGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* *
206175 AAATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAAATTAATGATGATCTATCTCCTTC
65 AGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAATT-ATGCTGATCTATCTCCTTC
* * * * *
206235 TGTGATAGAA-TCATGAAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTT
1 TGTGATA-AAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTC
* * * * *
206299 AGATGAGTTCTTCTTATTATGAACTCTAC-CTGG--AA--ATGTTGATCCA--T-C--G
65 AGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAATTATGCTGATCTATCTCCTTC
* * * *
206348 AGTGATGAATTCAAGC-AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 TGTGATAAAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
* * *
206412 GATGAGTTCTTCTCATTATGAACTCT-TCTGG--AA--ATGCTGATCCA--T-C--G
66 GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAATTATGCTGATCTATCTCCTTC
** * * *
206459 AATGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
1 TGTGATAAAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
206524 GATGAG---TTCTCATTATGAACT
66 GATGAGTTCTTCTCATTATGAACT
206545 CTACCTAGAA
Statistics
Matches: 506, Mismatches: 39, Indels: 35
0.87 0.07 0.06
Matches are distributed among these distances:
109 15 0.03
111 34 0.07
112 123 0.24
113 9 0.02
115 1 0.00
116 1 0.00
118 9 0.02
120 9 0.02
121 5 0.01
122 36 0.07
123 146 0.29
124 113 0.22
125 4 0.01
126 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.38
Consensus pattern (122 bp):
TGTGATAAAGTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCA
GATGAGTTCTTCTCATTATGAACTTTCTCTGGAAAATTATGCTGATCTATCTCCTTC
Found at i:206263 original size:247 final size:233
Alignment explanation
Indices: 205884--206559 Score: 760
Period size: 247 Copynumber: 2.9 Consensus size: 233
205874 AAATTAAGAC
* *
205884 AAGGTTGAACAAATTCTTCTCATTATGAATTTCTTC-TCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * * * *
205948 TGAACACTTCTGGAAATGTTGATGTTGATCTATCTCCTTCTGTGATA-AAGTCAAACAAAAGGTT
66 TGAACTCTTCTGGAAA-ATTAATGATGATCTATCTCCTTCTGTGATAGAAGTCAGA-AAAA-GTT
*
206012 GAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
128 GAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
* * * *
206077 -TTCTCTGGAAAATTGATGCTGATCTATCTCCTTCTGTGAA-AGAGTCATGCAA
193 CTAC-CTGG-AAA-TG-T--TGATCCA--T-C--CAGTGAAGA-AGTCAAGC-A
* *
206129 AAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
*
206194 TGAACTTTCTCTGGAAAAATTAATGATGATCTATCTCCTTCTGTGATAGAA-TCATGAAAAAGAT
66 TGAACTCT-TCTGG-AAAATTAATGATGATCTATCTCCTTCTGTGATAGAAGTCA-GAAAAAG-T
* * *
206258 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTTAGATGAGTTCTTCTTATTATGAAC
127 TGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC
* * *
206323 TCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGCA
192 TCTACCTGGAAATGTTGATCCATCCAGTGAAGAAGTCAAGCA
*
206365 AAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
* * *** *
206430 TGAACTCTTCTGG---A--AATGCTGATCCA--T-C--GAATGAT-GAATTCAAGCAAAAAGTTG
66 TGAACTCTTCTGGAAAATTAATGATGATCTATCTCCTTCTGTGATAGAAGTC-AG-AAAAAGTTG
206484 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAG---TTCTCATTATGAACTC
129 AACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC
*
206546 TACCTAGAAATGTT
194 TACCTGGAAATGTT
206560 TTAAGAAAAA
Statistics
Matches: 386, Mismatches: 34, Indels: 46
0.83 0.07 0.10
Matches are distributed among these distances:
221 28 0.07
223 3 0.01
224 54 0.14
225 7 0.02
226 1 0.00
227 1 0.00
229 10 0.03
231 1 0.00
235 5 0.01
236 70 0.18
237 10 0.03
238 1 0.00
239 1 0.00
240 1 0.00
242 6 0.02
244 1 0.00
245 35 0.09
246 37 0.10
247 106 0.27
248 8 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (233 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTTCTGGAAAATTAATGATGATCTATCTCCTTCTGTGATAGAAGTCAGAAAAAGTTGAA
CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTA
CCTGGAAATGTTGATCCATCCAGTGAAGAAGTCAAGCA
Found at i:206378 original size:112 final size:111
Alignment explanation
Indices: 206252--206559 Score: 505
Period size: 112 Copynumber: 2.8 Consensus size: 111
206242 GAATCATGAA
* *
206252 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTTAGATGAGTTCTTCTTATT
1 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTC-TATT
*
206317 ATGAACTCTACCTGGAAATGTTGATCCATCGAGTGATGAATTCAAGC
65 ATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
206364 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT-ATT
* *
206429 ATGAACTCT-TCTGGAAATGCTGATCCATCGAATGATGAATTCAAGC
65 ATGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
*
206475 AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTC-TC-ATT
1 AAAGA-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTATT
*
206538 ATGAACTCTACCTAGAAATGTT
65 ATGAACTCTACCTGGAAATGTT
206560 TTAAGAAAAA
Statistics
Matches: 184, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
109 12 0.07
110 9 0.05
111 41 0.22
112 122 0.66
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (111 bp):
AAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTATTA
TGAACTCTACCTGGAAATGTTGATCCATCGAATGATGAATTCAAGC
Found at i:206735 original size:76 final size:75
Alignment explanation
Indices: 206568--206821 Score: 386
Period size: 76 Copynumber: 3.4 Consensus size: 75
206558 TTTTAAGAAA
* * * * * *
206568 AAACATC-TGCACTGTAGGGCTTACAGCTGACCCGAAGGTTTTGAAAACATCAAAAGCTCCCCAA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGTTCCCGAA
*
206632 GACTTTTTGG
66 GGCTTTTTGG
*
206642 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGTTCCCGG
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATC-AAAAGTTCCCGA
206707 AGGCTTTTTGG
65 AGGCTTTTTGG
*
206718 AAACATCATGCATTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGTTCCCGAA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGTTCCCGAA
*
206783 GGCTTTTTGA
66 GGCTTTTTGG
*
206793 AAACA-CATGCATTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
206822 TGAGAATAGT
Statistics
Matches: 167, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
74 31 0.19
75 66 0.40
76 70 0.42
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.25
Consensus pattern (75 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAGTTCCCGAA
GGCTTTTTGG
Found at i:207507 original size:22 final size:22
Alignment explanation
Indices: 207482--207596 Score: 161
Period size: 22 Copynumber: 5.5 Consensus size: 22
207472 CAATAAAGCT
207482 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
207504 TCATCTTTAAAAAGAG-ATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
207525 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
207547 TCATCTTTGAAAACAGAATC--
1 TCATCTTTGAAAAGAGAATCTA
207567 T-ATCTTTG--AAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
207586 TCATCTTTGAA
1 TCATCTTTGAA
207597 GAATGGTAGA
Statistics
Matches: 81, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.10
19 8 0.10
20 8 0.10
21 19 0.23
22 38 0.47
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:207543 original size:43 final size:41
Alignment explanation
Indices: 207482--207596 Score: 157
Period size: 43 Copynumber: 2.8 Consensus size: 41
207472 CAATAAAGCT
207482 TCATCTTTGAAAAGAGAATCTATCATCTTT-AAAA-AGAGATC
1 TCATCTTTG-AAAGAGAATCTATCATCTTTGAAAACAGA-ATC
207523 TATCATCTTTGAAGAGAGAATCTATCATCTTTGAAAACAGAATC
1 --TCATCTTTGAA-AGAGAATCTATCATCTTTGAAAACAGAATC
207567 T-ATCTTTG-AAGAGAATCTATCATCTTTGAA
1 TCATCTTTGAAAGAGAATCTATCATCTTTGAA
207597 GAATGGTAGA
Statistics
Matches: 69, Mismatches: 0, Indels: 10
0.87 0.00 0.13
Matches are distributed among these distances:
39 21 0.30
40 1 0.01
41 7 0.10
42 3 0.04
43 27 0.39
44 7 0.10
45 3 0.04
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (41 bp):
TCATCTTTGAAAGAGAATCTATCATCTTTGAAAACAGAATC
Found at i:211815 original size:7 final size:7
Alignment explanation
Indices: 211814--211847 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
211804 ATTTTCCTTT
211814 TTTTTTC
1 TTTTTTC
211821 TTTTTTC
1 TTTTTTC
211828 -TTTTTC
1 TTTTTTC
*
211834 TTTTTTT
1 TTTTTTC
211841 TTTTTTC
1 TTTTTTC
211848 CCTTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:211845 original size:13 final size:13
Alignment explanation
Indices: 211811--211845 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
211801 TCAATTTTCC
211811 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
*
211824 TTTCTTTTTCTTT
1 TTTTTTTTTCTTT
211837 TTTTTTTTT
1 TTTTTTTTT
211846 TCCCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTCTTT
Found at i:212148 original size:2 final size:2
Alignment explanation
Indices: 212141--212207 Score: 125
Period size: 2 Copynumber: 33.5 Consensus size: 2
212131 ATAACAAAGG
212141 AT AT AT AT AT 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 AT AT AT AT AT
*
212183 AG AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
212208 AGGATAAATG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (2 bp):
AT
Found at i:213910 original size:7 final size:7
Alignment explanation
Indices: 213876--213917 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
213866 ATAAAAGTAT
213876 AAATGCA
1 AAATGCA
* *
213883 CAATGAA
1 AAATGCA
213890 AAATGCA
1 AAATGCA
213897 AAGATGCA
1 AA-ATGCA
213905 AAATGC-
1 AAATGCA
213911 AAATGCA
1 AAATGCA
213918 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:215427 original size:15 final size:15
Alignment explanation
Indices: 215402--215453 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 15
215392 AAATAAAGTA
215402 AAAATAA-AAATAAT
1 AAAATAATAAATAAT
215416 AAAATAATAAATATTAT
1 AAAATAATAAATA--AT
* *
215433 GAAAATCATAAGTAAT
1 -AAAATAATAAATAAT
215449 AAAAT
1 AAAAT
215454 TTGAAAGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
14 7 0.22
15 10 0.31
16 2 0.06
17 2 0.06
18 11 0.34
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (15 bp):
AAAATAATAAATAAT
Found at i:222726 original size:21 final size:21
Alignment explanation
Indices: 222700--222739 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
222690 CCCCCTTTGA
*
222700 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
222721 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
222740 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:226173 original size:3 final size:3
Alignment explanation
Indices: 226165--226243 Score: 63
Period size: 3 Copynumber: 26.7 Consensus size: 3
226155 CTATAATATG
* * * *
226165 TAA TAA TAA TATT TAT TAA TAA AAA T-A TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
226210 TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
226244 GGCAAAAATT
Statistics
Matches: 59, Mismatches: 14, Indels: 6
0.75 0.18 0.08
Matches are distributed among these distances:
2 4 0.07
3 53 0.90
4 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:231256 original size:23 final size:21
Alignment explanation
Indices: 231230--231272 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
231220 CTCTTTAAAA
231230 TTTTAAATTGTTATATATTTATG
1 TTTTAAA-T-TTATATATTTATG
**
231253 TTTTTTATTTATATATTTAT
1 TTTTAAATTTATATATTTAT
231273 TGATTATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.67
22 1 0.06
23 5 0.28
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTTTAAATTTATATATTTATG
Found at i:236381 original size:2 final size:2
Alignment explanation
Indices: 236376--236419 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
236366 TCTCTCTCTC
* *
236376 TA TA TA TA TA CA TA CA 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 TA TA TA TA TA TA TA TA
236418 TA
1 TA
236420 AATTGTTCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:236553 original size:41 final size:41
Alignment explanation
Indices: 236501--236584 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
236491 TGTAAAATTG
*
236501 AGTTCGACTCGATTCCAAAGCTCACGAGTTTAAAATTATCA
1 AGTTCGACTCGATTCCAAAGCTCACGAGCTTAAAATTATCA
* * ** *
236542 AGTTTGACTCGATTCGAAAGCTCGTGAGCTTAAAATTTTCA
1 AGTTCGACTCGATTCCAAAGCTCACGAGCTTAAAATTATCA
236583 AG
1 AG
236585 CTCAATTCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (41 bp):
AGTTCGACTCGATTCCAAAGCTCACGAGCTTAAAATTATCA
Found at i:238596 original size:21 final size:21
Alignment explanation
Indices: 238565--238618 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
238555 TCTCCAATGC
238565 GAAGTGGTCTTCATGTCTTTAT
1 GAAG-GGTCTTCATGTCTTTAT
238587 GAAGGGTCTTCATGTCTTTAT
1 GAAGGGTCTTCATGTCTTTAT
*
238608 GAATGGTCTTC
1 GAAGGGTCTTC
238619 TCGTCCTTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.43
Consensus pattern (21 bp):
GAAGGGTCTTCATGTCTTTAT
Found at i:241044 original size:28 final size:28
Alignment explanation
Indices: 240991--241044 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
240981 AAAATAAAAA
* *
240991 AAAATTAAATAACATAATATCTTGGACT
1 AAAATTAAATAACATAATAACATGGACT
*
241019 AAAATTAAATACGCATAA-AACATGGA
1 AAAATTAAATA-ACATAATAACATGGA
241045 GACAGAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (28 bp):
AAAATTAAATAACATAATAACATGGACT
Found at i:244672 original size:40 final size:40
Alignment explanation
Indices: 244597--244685 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
244587 TAATATTGTT
*
244597 AATTGTTAATGCTTACTGCTAATGCTTATAAACTTGAGTGA
1 AATTGTTAATGCTTACTACTAATGC-TATAAACTTGAGTGA
* * *
244638 AATTGTTAATTGGTTACTATTAATG-TATAAACTTGTGTGA
1 AATTGTTAA-TGCTTACTACTAATGCTATAAACTTGAGTGA
*
244678 ACTTGTTA
1 AATTGTTA
244686 TTGCATAATG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 21 0.50
41 9 0.21
42 12 0.29
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (40 bp):
AATTGTTAATGCTTACTACTAATGCTATAAACTTGAGTGA
Found at i:244678 original size:101 final size:100
Alignment explanation
Indices: 244537--244815 Score: 378
Period size: 101 Copynumber: 2.7 Consensus size: 100
244527 ATAGATAAAC
* *
244537 TTGTTAATTGCTTACTGTTAATGCGTATACACTTGTGTGAACTTGTTACTTAATATTGTTAATTG
1 TTGTTAATTGCTTACTGTTAAT--GTATAAACTTGTGTGAACTTGTTA-TTCATATTGTTAATTG
244602 TTAATGCTTACTGCTAATGCTTATAAACTTGAGTGAAA
63 TTAATGCTTACTGCTAATGCTTATAAACTTGAGTGAAA
* * *
244640 TTGTTAATTGGTTACTATTAATGTATAAACTTGTGTGAACTTGTTATTGCATAATGTTAATTGTT
1 TTGTTAATTGCTTACTGTTAATGTATAAACTTGTGTGAACTTGTTATT-CATATTGTTAATTGTT
* * *
244705 AATGCTTACTGTTAGTGCTTATAAACTTGTGTGAAA
65 AATGCTTACTGCTAATGCTTATAAACTTGAGTGAAA
* * * *
244741 TTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGAATTTGTTAATGCATATTGTTAATTG
1 TTGTTAATTGCTTACTGTTAATG--TATAAACTTGTGTGAACTTGTT-ATTCATATTGTTAATTG
*
244806 TTGATGCTTA
63 TTAATGCTTA
244816 TTTTTAATAG
Statistics
Matches: 156, Mismatches: 16, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
100 2 0.01
101 89 0.57
103 63 0.40
104 2 0.01
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.45
Consensus pattern (100 bp):
TTGTTAATTGCTTACTGTTAATGTATAAACTTGTGTGAACTTGTTATTCATATTGTTAATTGTTA
ATGCTTACTGCTAATGCTTATAAACTTGAGTGAAA
Found at i:244717 original size:20 final size:20
Alignment explanation
Indices: 244680--244864 Score: 63
Period size: 20 Copynumber: 9.1 Consensus size: 20
244670 TTGTGTGAAC
* * *
244680 TTGTTATTGCATAATGTTAA
1 TTGTTAATGCTTACTGTTAA
244700 TTGTTAATGCTTACTGTT-A
1 TTGTTAATGCTTACTGTTAA
* ** * *
244719 GTGCTTATAAACTT-GTGTGAAA
1 TTG-TTA-ATGCTTACTGT-TAA
*
244741 TTGTTAAATGCTAACTGTTAA
1 TTGTT-AATGCTTACTGTTAA
** * *
244762 -TGCTTATAAACTT-GTGTGAA
1 TTG-TTA-ATGCTTACTGTTAA
* *
244782 TTTGTTAATGCATATTGTTAA
1 TT-GTTAATGCTTACTGTTAA
* * *
244803 TTGTTGATGCTTATTTTTAA
1 TTGTTAATGCTTACTGTTAA
* * * *
244823 TAGTTATTGCATATTGTTAA
1 TTGTTAATGCTTACTGTTAA
* *
244843 TTGTTAATTCTTACTATTAA
1 TTGTTAATGCTTACTGTTAA
244863 TT
1 TT
244865 CTTATAAACT
Statistics
Matches: 116, Mismatches: 38, Indels: 22
0.66 0.22 0.12
Matches are distributed among these distances:
19 3 0.03
20 78 0.67
21 27 0.23
22 8 0.07
ACGTcount: A:0.28, C:0.08, G:0.15, T:0.49
Consensus pattern (20 bp):
TTGTTAATGCTTACTGTTAA
Found at i:244758 original size:42 final size:42
Alignment explanation
Indices: 244698--244789 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
244688 GCATAATGTT
* *
244698 AATTGTT-AATGCTTACTGTTAGTGCTTATAAACTTGTGTGA
1 AATTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGA
244739 AATTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGA
1 AATTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGA
*
244781 ATTTGTTAA
1 AATTGTTAA
244790 TGCATATTGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
41 7 0.15
42 40 0.85
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.43
Consensus pattern (42 bp):
AATTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGA
Found at i:244765 original size:143 final size:143
Alignment explanation
Indices: 244597--244946 Score: 415
Period size: 143 Copynumber: 2.5 Consensus size: 143
244587 TAATATTGTT
* * **
244597 AATTGTT-AATGCTTACTGCTAATGCTTATAAACTTGAGTGAAATTGTTAATTGGTTACTATTAA
1 AATTGTTAAATGCTTACTGTTAATGCTTATAAACTTGTGTGAAATTGTTAATTGCATACTATTAA
* * *
244661 TGTAT-AAACTT-GTGTGAACTTGTTATTGCATAATGTTAATTGTTAATGCTTACTGTTAGTGCT
66 TGT-TGAAACTTAGTGTGAA-TAGTTATTGCATAATGTTAATTGTTAATGCTTACTATTAATGCT
244724 TATAAACTT-GTGTGA
129 TATAAACTTAGT-TGA
* * * *
244739 AATTGTTAAATGCTAACTGTTAATGCTTATAAACTTGTGTGAATTTGTTAA-TGCATATTGTTAA
1 AATTGTTAAATGCTTACTGTTAATGCTTATAAACTTGTGTGAAATTGTTAATTGCATACTATTAA
** * * * * * *
244803 TTGTTGATGCTTATTTTTAATAGTTATTGCATATTGTTAATTGTTAATTCTTACTATTAATTCTT
66 -TGTTGAAACTTAGTGTGAATAGTTATTGCATAATGTTAATTGTTAATGCTTACTATTAATGCTT
244868 ATAAACTTAGTTGA
130 ATAAACTTAGTTGA
* * * *
244882 AATTGTTAATTGATTATTGTTAATGCTTATAAACTTGTGTGAACTTGTT-ATTGCATACTATTAA
1 AATTGTTAAATGCTTACTGTTAATGCTTATAAACTTGTGTGAAATTGTTAATTGCATACTATTAA
244946 T
66 T
244947 TATTAATGCT
Statistics
Matches: 176, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
142 19 0.11
143 151 0.86
144 6 0.03
ACGTcount: A:0.30, C:0.08, G:0.15, T:0.47
Consensus pattern (143 bp):
AATTGTTAAATGCTTACTGTTAATGCTTATAAACTTGTGTGAAATTGTTAATTGCATACTATTAA
TGTTGAAACTTAGTGTGAATAGTTATTGCATAATGTTAATTGTTAATGCTTACTATTAATGCTTA
TAAACTTAGTTGA
Found at i:244863 original size:40 final size:40
Alignment explanation
Indices: 244785--244863 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
244775 GTGTGAATTT
* * *
244785 GTTAATGCATATTGTTAATTGTTGATGCTTATTTTTAATA
1 GTTAATGCATATTGTTAATTGTTAATGCTTACTATTAATA
* *
244825 GTTATTGCATATTGTTAATTGTTAATTCTTACTATTAAT
1 GTTAATGCATATTGTTAATTGTTAATGCTTACTATTAAT
244864 TCTTATAAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (40 bp):
GTTAATGCATATTGTTAATTGTTAATGCTTACTATTAATA
Found at i:244887 original size:41 final size:42
Alignment explanation
Indices: 244841--244947 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
244831 GCATATTGTT
244841 AATTGTTAATT-CTTACTATTAATTCTTATAAACTTAGT-TGA
1 AATTGTTAATTGCTTACTATTAATTCTTATAAACTT-GTGTGA
* * * *
244882 AATTGTTAATTGATTATTGTTAATGCTTATAAACTTGTGTGA
1 AATTGTTAATTGCTTACTATTAATTCTTATAAACTTGTGTGA
* *
244924 ACTTGTT-ATTGCATACTATTAATT
1 AATTGTTAATTGCTTACTATTAATT
244948 ATTAATGCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
41 25 0.46
42 29 0.54
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (42 bp):
AATTGTTAATTGCTTACTATTAATTCTTATAAACTTGTGTGA
Found at i:244990 original size:143 final size:142
Alignment explanation
Indices: 244694--245008 Score: 377
Period size: 143 Copynumber: 2.2 Consensus size: 142
244684 TATTGCATAA
* * * *
244694 TGTTAATTGTTAATGCTTACTGTTAGTGCTTATAAACTTGTGTGAAATTGTTAAATGCTAACTGT
1 TGTTAATTGTTAATTCTTACTGTTAATTCTTATAAACTTGTGTGAAATTGTTAAATGATAACTGT
* * * * * * *
244759 TAATGCTTATAAACTTGTGTGAATTTGTTAATGCATATTGTTAATTGTTGATGCTTATTTTTAAT
66 TAATGCTTATAAACTTGTGTGAACTTGTTAATGCATACTATTAATTATTAATGCTTACTCTTAAT
* *
244824 AGTTATTGCATAT
131 ACTTATT-CAAAT
* * * *
244837 TGTTAATTGTTAATTCTTACTATTAATTCTTATAAACTTAGT-TGAAATTGTTAATTGATTATTG
1 TGTTAATTGTTAATTCTTACTGTTAATTCTTATAAACTT-GTGTGAAATTGTTAAATGATAACTG
*
244901 TTAATGCTTATAAACTTGTGTGAACTTGTTATTGCATACTATTAATTATTAATGCTT-CTCTTAA
65 TTAATGCTTATAAACTTGTGTGAACTTGTTAATGCATACTATTAATTATTAATGCTTACTCTTAA
244965 TACTTA-T-AAACT
130 TACTTATTCAAA-T
244977 TGTATGAACTTGTTAATTGCTTACTGTTAATT
1 TGT-T-AA-TTGTTAATT-CTTACTGTTAATT
245009 GTTAATGCTT
Statistics
Matches: 147, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
139 2 0.01
140 4 0.03
141 2 0.01
142 12 0.08
143 113 0.77
144 14 0.10
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (142 bp):
TGTTAATTGTTAATTCTTACTGTTAATTCTTATAAACTTGTGTGAAATTGTTAAATGATAACTGT
TAATGCTTATAAACTTGTGTGAACTTGTTAATGCATACTATTAATTATTAATGCTTACTCTTAAT
ACTTATTCAAAT
Found at i:245019 original size:20 final size:21
Alignment explanation
Indices: 244986--245025 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
244976 TTGTATGAAC
244986 TTGTTAATTGCTTACTGTTAA
1 TTGTTAATTGCTTACTGTTAA
*
245007 TTGTTAA-TGCTTATTGTTA
1 TTGTTAATTGCTTACTGTTA
245026 TTACTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.23, C:0.07, G:0.15, T:0.55
Consensus pattern (21 bp):
TTGTTAATTGCTTACTGTTAA
Found at i:245049 original size:62 final size:62
Alignment explanation
Indices: 244882--245069 Score: 254
Period size: 62 Copynumber: 3.0 Consensus size: 62
244872 ACTTAGTTGA
* * *
244882 AATTGTTAATTGATTATTGTTAATGCTTATAAACTTGTGTGAACTTGTT-ATTGCATACTATT
1 AATTGTTAA-TGCTTATTGTTAATACTTATAAACTTGTGTGAACTTGTTAATTGCTTACTATT
* * * * *
244944 AATTATTAATGCTT-CTCTTAATACTTATAAACTTGTATGAACTTGTTAATTGCTTACTGTT
1 AATTGTTAATGCTTATTGTTAATACTTATAAACTTGTGTGAACTTGTTAATTGCTTACTATT
* * *
245005 AATTGTTAATGCTTATTGTTATTACTTATAAACTTATGTGAACTTGTTAACTGCTTACTATT
1 AATTGTTAATGCTTATTGTTAATACTTATAAACTTGTGTGAACTTGTTAATTGCTTACTATT
245067 AAT
1 AAT
245070 GCTTATAAAC
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
60 29 0.27
61 28 0.26
62 51 0.47
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.48
Consensus pattern (62 bp):
AATTGTTAATGCTTATTGTTAATACTTATAAACTTGTGTGAACTTGTTAATTGCTTACTATT
Found at i:245075 original size:42 final size:41
Alignment explanation
Indices: 245005--245095 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 41
244995 GCTTACTGTT
* * *
245005 AATTGTTAATGCTTATTGTTATTACTTATAAACTTATGTGA
1 AATTGTTAATGCTTACTATTAATACTTATAAACTTATGTGA
* * *
245046 ACTTGTTAACTGCTTACTATTAATGCTTATAAACTTGTGTGA
1 AATTGTTAA-TGCTTACTATTAATACTTATAAACTTATGTGA
245088 AATTGTTA
1 AATTGTTA
245096 TTACATATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 8 0.19
42 34 0.81
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (41 bp):
AATTGTTAATGCTTACTATTAATACTTATAAACTTATGTGA
Found at i:247109 original size:18 final size:17
Alignment explanation
Indices: 247083--247116 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
247073 TGTTTCGTCG
247083 CTTCATTCTTTTCTACTT
1 CTTCATTCTTTT-TACTT
*
247101 CTTCCTTCTTTTTACT
1 CTTCATTCTTTTTACT
247117 CTATGTCTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.09, C:0.29, G:0.00, T:0.62
Consensus pattern (17 bp):
CTTCATTCTTTTTACTT
Found at i:248567 original size:15 final size:15
Alignment explanation
Indices: 248543--248598 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
248533 TAATTTTAAT
248543 CAGAAATTAAAATAA
1 CAGAAATTAAAATAA
* * *
248558 CAGAATTTAAACTATG
1 CAGAAATTAAAATA-A
248574 CA-AAATTAAAATAA
1 CAGAAATTAAAATAA
*
248588 CAGTAATTAAA
1 CAGAAATTAAA
248599 CAATCGAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 2 0.06
15 28 0.88
16 2 0.06
ACGTcount: A:0.59, C:0.09, G:0.07, T:0.25
Consensus pattern (15 bp):
CAGAAATTAAAATAA
Found at i:250479 original size:46 final size:46
Alignment explanation
Indices: 250378--250479 Score: 125
Period size: 46 Copynumber: 2.2 Consensus size: 46
250368 TTATCAATTT
* * * *
250378 ACTTACCATTT-GATCCCATAAGCTCGTAATCTTATTTTAGCAAAAT
1 ACTTACCATTTAG-CCCCATAAGCTCGTAAGCTTATTTTACCAAAAC
* *
250424 ACTTACCATTTAGCCCCATAAGCTTGTAAGCTTATTTTACCAATAC
1 ACTTACCATTTAGCCCCATAAGCTCGTAAGCTTATTTTACCAAAAC
*
250470 ACTTGCCATT
1 ACTTACCATT
250480 ATTCCATAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
46 47 0.98
47 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
ACTTACCATTTAGCCCCATAAGCTCGTAAGCTTATTTTACCAAAAC
Found at i:250612 original size:40 final size:40
Alignment explanation
Indices: 250566--250727 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
250556 ATCGTAGTGC
*
250566 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
250606 TGCACATAAGGTCGTGCCCACCATATACACCGAAATGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
250646 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
250686 TACACATAAGGTCATGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
250726 TA
1 TA
250728 TAAACCTACA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:262097 original size:34 final size:36
Alignment explanation
Indices: 262049--262115 Score: 102
Period size: 34 Copynumber: 1.9 Consensus size: 36
262039 AGATAAACCC
*
262049 TTTCTTAATATTAAAAAATA-A-ATAAATATTATCA
1 TTTCCTAATATTAAAAAATAGATATAAATATTATCA
*
262083 TTTCCTAATATTAAAATATAGATATAAATATTA
1 TTTCCTAATATTAAAAAATAGATATAAATATTA
262116 AAAATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 18 0.62
35 1 0.03
36 10 0.34
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (36 bp):
TTTCCTAATATTAAAAAATAGATATAAATATTATCA
Found at i:263333 original size:3 final size:3
Alignment explanation
Indices: 263318--263381 Score: 71
Period size: 3 Copynumber: 22.0 Consensus size: 3
263308 GTTGGGCCTG
* * *
263318 TAA TAA TAT TAA TAA T-T TAT TTAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
263362 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
263382 AAAATAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
2 5 0.09
3 46 0.87
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:263365 original size:17 final size:17
Alignment explanation
Indices: 263343--263394 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
263333 TTTATTTAAT
263343 AATAATAATAATAATAA
1 AATAATAATAATAATAA
263360 AATAATAATAATAATAA
1 AATAATAATAATAATAA
*
263377 AATAA-AA-AATAAAAA
1 AATAATAATAATAATAA
263392 AAT
1 AAT
263395 GGGCAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
15 10 0.29
16 2 0.06
17 22 0.65
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:263785 original size:123 final size:123
Alignment explanation
Indices: 263624--263930 Score: 427
Period size: 123 Copynumber: 2.5 Consensus size: 123
263614 TTCTATGGTG
* * * * *
263624 TAATCTAGCAAAAGGTTGAACAAGTTCTTCAAAATATGAAGTTCTTCTTCCTCTTCAGATGAGTT
1 TAATCAAGCAAAAGATTGAACAAGTTCTTCAGAATATGAACTTCTTCTTCCTCTTTAGATGAGTT
*
263689 CTTCTTATTACGAACTCTATCTGGAAATGTTGATGCT-CTTCTATCTCCTTCTGCGATA
66 CTTCTTATTACGAACTCTATCTGGAAATATTGATGCTGC-TCTATCTCCTTCTGCGATA
* * * * *
263747 TAATCGAGCGAAAGATTGAACAAATTCTTCAGACTATGAACTTCTTCTTCCTCTTTAGTTGAGTT
1 TAATCAAGCAAAAGATTGAACAAGTTCTTCAGAATATGAACTTCTTCTTCCTCTTTAGATGAGTT
* *
263812 CTTCTTATTACGAACTCTGTCTGGAAATATTGATGCTGCTCTATCTTCTTCTGCGATA
66 CTTCTTATTACGAACTCTATCTGGAAATATTGATGCTGCTCTATCTCCTTCTGCGATA
* * * * *
263870 GAGTCAAGCAAAAAGCTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTTAGAT
1 TAATCAAGC-AAAAGATTGAACAAGTTCTTCAGAATATGAACTTCTTCTTCCTCTTTAGAT
263931 TATGAACTTC
Statistics
Matches: 161, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
123 115 0.71
124 46 0.29
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (123 bp):
TAATCAAGCAAAAGATTGAACAAGTTCTTCAGAATATGAACTTCTTCTTCCTCTTTAGATGAGTT
CTTCTTATTACGAACTCTATCTGGAAATATTGATGCTGCTCTATCTCCTTCTGCGATA
Found at i:263932 original size:26 final size:26
Alignment explanation
Indices: 263896--263956 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
263886 TTGAATAAGT
263896 TCTTCAGATTATGAACTTCTTCTTCC
1 TCTTCAGATTATGAACTTCTTCTTCC
*
263922 TCTTTAGATTATGAACTTCTTCTTCC
1 TCTTCAGATTATGAACTTCTTCTTCC
263948 TCTTCAGAT
1 TCTTCAGAT
263957 GAGTTCTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.08, T:0.48
Consensus pattern (26 bp):
TCTTCAGATTATGAACTTCTTCTTCC
Found at i:263945 original size:150 final size:150
Alignment explanation
Indices: 263772--264080 Score: 494
Period size: 150 Copynumber: 2.1 Consensus size: 150
263762 TTGAACAAAT
* * *
263772 TCTTCAGACTATGAACTTCTTCTTCCTCTTTAGTTGAGTTCTTCTTATTACGAAC-TCTGTCTGG
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCT-TCTGG
* *
263836 AAATATTGATGCTGCTCTATCTTCTTCTGCGATAGAGTCAAGCAAAAAGCTTGAATAAGTTCTTC
65 AAATATTGATGCTACTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGCTTGAATAAGTTCTTC
263901 AGATTATGAACTTCTTCTTCC
130 AGATTATGAACTTCTTCTTCC
* *
263922 TCTTTAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
* * * * *
263987 AATGTTGATGCTACTCTATCTCCTTCTGCGATAGTGTCGAGCAAAAAGGTTGAATAAGTTCTTCG
66 AATATTGATGCTACTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGCTTGAATAAGTTCTTCA
264052 GATTATGAACTTCTTCTTCC
131 GATTATGAACTTCTTCTTCC
264072 TCTTCAGAT
1 TCTTCAGAT
264081 GAGTTCTTCT
Statistics
Matches: 145, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 142 0.98
151 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (150 bp):
TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
AATATTGATGCTACTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGCTTGAATAAGTTCTTCA
GATTATGAACTTCTTCTTCC
Found at i:264069 original size:124 final size:124
Alignment explanation
Indices: 263922--264366 Score: 766
Period size: 124 Copynumber: 3.6 Consensus size: 124
263912 TTCTTCTTCC
* *
263922 TCTTTAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
* * *
263987 AATGTTGATGCTACTCTATCTCCTTCTGCGATAGTGTCGAGCAAAAAGGTTGAATAAGT
66 AATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGGTTGAATAAGT
*
264046 TCTTCGGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
* *
264111 AATGTTGATGCTGCTCTATATCCTTCTGCGATAGAGTCAAGCAAAAAGGCTGAATAAGT
66 AATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGGTTGAATAAGT
*
264170 TCTTCATATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
* *
264235 AATATTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGAAAAAAGGTTGAATAAGT
66 AATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGGTTGAATAAGT
* *
264294 TCTTCAGATTATGAACTTCTTCTTCCTCTTCA-ACGAGATCTTCTTATTACGAACTTCTTCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
264358 AATGTTGAT
66 AATGTTGAT
264367 CCATCAAGTG
Statistics
Matches: 303, Mismatches: 18, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
123 38 0.13
124 265 0.87
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (124 bp):
TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCTTCTGGA
AATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCAAGCAAAAAGGTTGAATAAGT
Found at i:264153 original size:274 final size:273
Alignment explanation
Indices: 263649--264204 Score: 861
Period size: 274 Copynumber: 2.0 Consensus size: 273
263639 TTGAACAAGT
* * *
263649 TCTTCAAAATATGAAGTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTATCTGGA
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTATCTGGA
*
263714 AATGTTGATGCTCTTCTATCTCCTTCTGCGATATAATCGAGCGAAAGATTGAACAAATTCTTCAG
66 AATGTTGATGCTCTTCTATCTCCTTCTGCGATATAATCGAGCAAAAGATTGAACAAATTCTTCAG
* *
263779 ACTATGAACTTCTTCTTCCTCTTTAGTTGAGTTCTTCTTATTACGAACTCTGTCTGGAAATATTG
131 ACTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTGTCTGGAAATATTG
* *
263844 ATGCTGCTCTATCTTCTTCTGCGATAGAGTCAAGCAAAAA-GCTTGAATAAGTTCTTCAGATTAT
196 ATGCTGCTCTATATCCTTCTGCGATAGAGTCAAGCAAAAAGGC-TGAATAAGTTCTTCAGATTAT
263908 GAACTTCTTCTTCC
260 GAACTTCTTCTTCC
* *
263922 TCTTTAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTATGAACTTCT-TCTGG
1 TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAAC-TCTATCTGG
* * * *
263986 AAATGTTGATGCTAC-TCTATCTCCTTCTGCGATAGT-GTCGAGCAAAAAGGTTGAATAAGTTCT
65 AAATGTTGATGCT-CTTCTATCTCCTTCTGCGATA-TAATCGAGC-AAAAGATTGAACAAATTCT
* *
264049 TCGGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTTCT-TCTGGAAA
127 TCAGACTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAAC-TCTGTCTGGAAA
* *
264113 TGTTGATGCTGCTCTATATCCTTCTGCGATAGAGTCAAGCAAAAAGGCTGAATAAGTTCTTCATA
191 TATTGATGCTGCTCTATATCCTTCTGCGATAGAGTCAAGCAAAAAGGCTGAATAAGTTCTTCAGA
264178 TTATGAACTTCTTCTTCC
256 TTATGAACTTCTTCTTCC
264196 TCTTCAGAT
1 TCTTCAGAT
264205 GAGTTCTTCT
Statistics
Matches: 258, Mismatches: 19, Indels: 11
0.90 0.07 0.04
Matches are distributed among these distances:
273 93 0.36
274 160 0.62
275 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (273 bp):
TCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTATCTGGA
AATGTTGATGCTCTTCTATCTCCTTCTGCGATATAATCGAGCAAAAGATTGAACAAATTCTTCAG
ACTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATTACGAACTCTGTCTGGAAATATTG
ATGCTGCTCTATATCCTTCTGCGATAGAGTCAAGCAAAAAGGCTGAATAAGTTCTTCAGATTATG
AACTTCTTCTTCC
Found at i:267208 original size:2 final size:2
Alignment explanation
Indices: 267203--267273 Score: 121
Period size: 2 Copynumber: 37.0 Consensus size: 2
267193 TTTTACATAC
267203 AT AT AT AT AT 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 AT AT AT AT AT
267245 AT AT AT AT -T AT AT -T AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
267274 TAATGTTTTA
Statistics
Matches: 66, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
1 3 0.05
2 63 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:267285 original size:19 final size:21
Alignment explanation
Indices: 267203--267275 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
267193 TTTTACATAC
267203 ATATATATATA-TATA-TA-T
1 ATATATATATATTATATTATT
267221 ATATATATATA-TATA-TATAT
1 ATATATATATATTATATTAT-T
267241 ATATATATATATTATATTATT
1 ATATATATATATTATATTATT
267262 ATATATATATATTA
1 ATATATATATATTA
267276 ATGTTTTATA
Statistics
Matches: 51, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.33
20 12 0.24
21 19 0.37
22 3 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATATATATATTATATTATT
Found at i:267360 original size:26 final size:27
Alignment explanation
Indices: 267313--267363 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
267303 TATTTTATAC
*
267313 ATTTTATTGGACATATGTATATATTAT
1 ATTTTATTGGACACATGTATATATTAT
*
267340 ATTTTATT-TACACATGTATATATT
1 ATTTTATTGGACACATGTATATATT
267364 TAATGTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (27 bp):
ATTTTATTGGACACATGTATATATTAT
Found at i:269417 original size:55 final size:55
Alignment explanation
Indices: 269331--269438 Score: 139
Period size: 55 Copynumber: 2.0 Consensus size: 55
269321 ACATTCAAAT
* *
269331 GATTCATGAAAATGGACATCCGATGAATGAAGAAAT-TTGAAACTGATTAAAGAAC
1 GATTCATGAAAATGAACATCCGATGAATGAAGAAATCTT-AAACAGATTAAAGAAC
* * *
269386 GATTCATGAAGAA-GAACATTCGATGATTGAAGAAATCTTAAACAGATTGAAGA
1 GATTCATGAA-AATGAACATCCGATGAATGAAGAAATCTTAAACAGATTAAAGA
269439 CAGATCTGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 42 0.91
56 4 0.09
ACGTcount: A:0.45, C:0.10, G:0.20, T:0.24
Consensus pattern (55 bp):
GATTCATGAAAATGAACATCCGATGAATGAAGAAATCTTAAACAGATTAAAGAAC
Found at i:272732 original size:1 final size:1
Alignment explanation
Indices: 272728--272813 Score: 127
Period size: 1 Copynumber: 86.0 Consensus size: 1
272718 GAAAAAAAGG
* * * *
272728 AAAAAAAAAAAAAAAAAGAAAAAAAAAAGAAAAAAAGAAAAAAAAAAAGAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
272793 AAAAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAA
272814 GAAATGAAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 75 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (1 bp):
A
Found at i:272733 original size:8 final size:8
Alignment explanation
Indices: 272717--272817 Score: 109
Period size: 8 Copynumber: 12.6 Consensus size: 8
272707 CATCCATCAG
272717 AGAAAAAA
1 AGAAAAAA
272725 AGGAAAAAA
1 A-GAAAAAA
272734 A-AAAAAA
1 AGAAAAAA
*
272741 A-AAAGAA
1 AGAAAAAA
272748 A-AAAAAA
1 AGAAAAAA
272755 AGAAAAAA
1 AGAAAAAA
272763 AGAAAAAA
1 AGAAAAAA
*
272771 AAAAAGAAA
1 AGAAA-AAA
*
272780 AAAAAAAA
1 AGAAAAAA
*
272788 AAAAAAAA
1 AGAAAAAA
*
272796 AAAAAAAA
1 AGAAAAAA
272804 AGAAAAAAA
1 AG-AAAAAA
272813 AGAAA
1 AGAAA
272818 TGAAATTGAA
Statistics
Matches: 85, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
7 19 0.22
8 42 0.49
9 24 0.28
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:272743 original size:19 final size:18
Alignment explanation
Indices: 272719--272813 Score: 140
Period size: 18 Copynumber: 5.2 Consensus size: 18
272709 TCCATCAGAG
*
272719 AAAAAAAGGAAAAAAAAA
1 AAAAAAAAGAAAAAAAAA
272737 AAAAAAAAGAAAAAAAAA
1 AAAAAAAAGAAAAAAAAA
272755 AGAAAAAAAGAAAAAAAAA
1 A-AAAAAAAGAAAAAAAAA
272774 AAGAAAAAA-AAAAAAAAA
1 AA-AAAAAAGAAAAAAAAA
272792 AAAAAAAA-AAAAAGAAAA
1 AAAAAAAAGAAAAA-AAAA
272810 AAAA
1 AAAA
272814 GAAATGAAAT
Statistics
Matches: 73, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
17 11 0.15
18 38 0.52
19 24 0.33
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAAAAAAAA
Found at i:272770 original size:38 final size:38
Alignment explanation
Indices: 272717--272822 Score: 146
Period size: 38 Copynumber: 2.8 Consensus size: 38
272707 CATCCATCAG
*
272717 AGAAAAAAAGGAAAAAAAAAAAAAAAAAGAAAAAAAAA
1 AGAAAAAAAGAAAAAAAAAAAAAAAAAAGAAAAAAAAA
272755 AGAAAAAAAGAAAAAAAAAAAGAAAAAAA-AAAAAAAAA
1 AGAAAAAAAGAAAAAAAAAAA-AAAAAAAGAAAAAAAAA
* * *
272793 A-AAAAAAA-AAAAGAAAAAAAAGAAATGAAA
1 AGAAAAAAAGAAAAAAAAAAAAAAAAAAGAAA
272823 TTGAATCAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
35 5 0.08
36 13 0.21
37 7 0.11
38 30 0.48
39 7 0.11
ACGTcount: A:0.90, C:0.00, G:0.09, T:0.01
Consensus pattern (38 bp):
AGAAAAAAAGAAAAAAAAAAAAAAAAAAGAAAAAAAAA
Found at i:272794 original size:50 final size:50
Alignment explanation
Indices: 272719--272817 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 50
272709 TCCATCAGAG
* *
272719 AAAAAAAGGAAAAAAAAAAAAAAAAAGAAAAAAAAAAG-AAAAAAAGAAA
1 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAA
272768 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAA
1 AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAA
272818 TGAAATTGAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 36 0.77
50 11 0.23
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (50 bp):
AAAAAAAAGAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAAAAGAAA
Found at i:275689 original size:20 final size:20
Alignment explanation
Indices: 275666--275770 Score: 51
Period size: 20 Copynumber: 5.2 Consensus size: 20
275656 GAAACAAAAG
275666 ATTTTATCTCATTCAAGATT
1 ATTTTATCTCATTCAAGATT
* **
275686 ATTTT-TC-C-TTGAAATAGAAG
1 ATTTTATCTCATT--CA-AGATT
275706 ATTTTATCTCATTCAAGATT
1 ATTTTATCTCATTCAAGATT
* * **
275726 GTTTT-TC-C-TTAAAACAGAAG
1 ATTTTATCTCATT--CA-AGATT
275746 ATTTTATCTCATTCAAGATT
1 ATTTTATCTCATTCAAGATT
275766 ATTTT
1 ATTTT
275771 TCCTTGAAAC
Statistics
Matches: 59, Mismatches: 14, Indels: 24
0.61 0.14 0.25
Matches are distributed among these distances:
17 4 0.07
18 2 0.03
19 6 0.10
20 35 0.59
21 6 0.10
22 2 0.03
23 4 0.07
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTTTATCTCATTCAAGATT
Found at i:275826 original size:23 final size:23
Alignment explanation
Indices: 275800--275868 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
275790 TATCTCACTC
275800 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTTGAAACAG
* *
275823 AAGATT-TTATCTCATT----C--
1 AAGATTGTT-TTTCCTTGAAACAG
275840 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTTGAAACAG
275863 AAGATT
1 AAGATT
275869 TTATCTCATT
Statistics
Matches: 34, Mismatches: 4, Indels: 16
0.63 0.07 0.30
Matches are distributed among these distances:
17 11 0.32
18 2 0.06
19 1 0.03
21 1 0.03
22 2 0.06
23 17 0.50
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (23 bp):
AAGATTGTTTTTCCTTGAAACAG
Found at i:275946 original size:23 final size:23
Alignment explanation
Indices: 275920--275988 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 23
275910 TATCTCAGTC
275920 AAGATTGTTTTTCCTCGAAACAG
1 AAGATTGTTTTTCCTCGAAACAG
* **
275943 AAGA-T-TTTAT-CTCG---CTC
1 AAGATTGTTTTTCCTCGAAACAG
*
275960 AAGATTGTTTTTCCTTGAAACAG
1 AAGATTGTTTTTCCTCGAAACAG
275983 AAGATT
1 AAGATT
275989 TTATCTCGCT
Statistics
Matches: 33, Mismatches: 7, Indels: 12
0.63 0.13 0.23
Matches are distributed among these distances:
17 5 0.15
18 1 0.03
19 4 0.12
20 7 0.21
21 4 0.12
22 1 0.03
23 11 0.33
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (23 bp):
AAGATTGTTTTTCCTCGAAACAG
Found at i:275998 original size:40 final size:40
Alignment explanation
Indices: 275626--275995 Score: 614
Period size: 40 Copynumber: 9.2 Consensus size: 40
275616 AAAACAATAT
* * *
275626 ATTTTATTTCATTCAAGATTATTTTTCCTTGAAACAAAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
* *
275666 ATTTTATCTCATTCAAGATTATTTTTCCTTGAAATAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
*
275706 ATTTTATCTCATTCAAGATTGTTTTTCCTTAAAACAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
* *
275746 ATTTTATCTCATTCAAGATTATTTTTCCTTGAAACATAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
*
275786 ATTTTATCTCACTCAAGATTGTTTTTCCTTGAAACAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
275826 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
*
275866 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAATAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
* *
275906 ATTTTATCTCAGTCAAGATTGTTTTTCCTCGAAACAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
**
275946 ATTTTATCTCGCTCAAGATTGTTTTTCCTTGAAACAGAAG
1 ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
275986 ATTTTATCTC
1 ATTTTATCTC
275996 GCTTGAGATA
Statistics
Matches: 310, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 310 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTATCTCATTCAAGATTGTTTTTCCTTGAAACAGAAG
Found at i:276084 original size:36 final size:37
Alignment explanation
Indices: 275652--276104 Score: 171
Period size: 40 Copynumber: 11.5 Consensus size: 37
275642 GATTATTTTT
* * *
275652 CCTTGAAACAAAAGATTTTATCTCA-TTCAAGATTATTTTT
1 CCTTGAAAC-AAA-ATTTTATCTCACTT-GAGA-TAGTTTC
* * * *
275692 CCTTGAAATAGAAGATTTTATCTCA-TTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTT-GAGATAG-TTTC
* * * *
275732 CCTTAAAACAGAAGATTTTATCTCA-TTCAAGATTATTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTT-GAGA-TAGTTTC
** * *
275772 CCTTGAAACATAAGATTTTATCTCACTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTTGAGATAG-TTTC
* * *
275812 CCTTGAAACAGAAGATTTTATCTCA-TTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTT-GAGATAG-TTTC
* * *
275852 CCTTGAAACAGAAGATTTTATCTCA-TTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTT-GAGATAG-TTTC
* * ** * *
275892 CCTTGAAATAGAAGATTTTATCTCAGTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTTGAGATAG-TTTC
* * ** * *
275932 CCTCGAAACAGAAGATTTTATCTCGCTCAAGATTGTTTTT
1 CCTTGAAACA-AA-ATTTTATCTCACTTGAGATAG-TTTC
*
275972 CCTTGAAACAGAAGATTTTATCTCGCTTGAGATAGTTTC
1 CCTTGAAACA-AA-ATTTTATCTCACTTGAGATAGTTTC
* * * *
276011 CCTCGAAACAAAAAATTGTGTCTCACTTGAGACAGTTTC
1 CCTTGAAAC--AAAATTTTATCTCACTTGAGATAGTTTC
* * *
276050 CCTTGAAAC-AAATTTTATCTCCCATGAAATAGTTTC
1 CCTTGAAACAAAATTTTATCTCACTTGAGATAGTTTC
*
276086 TCTTGAAACACAAAATTTT
1 CCTTG-AA-ACAAAATTTT
276105 GAAACGAGTT
Statistics
Matches: 363, Mismatches: 38, Indels: 25
0.85 0.09 0.06
Matches are distributed among these distances:
36 25 0.07
37 2 0.01
38 2 0.01
39 51 0.14
40 279 0.77
41 4 0.01
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (37 bp):
CCTTGAAACAAAATTTTATCTCACTTGAGATAGTTTC
Found at i:276784 original size:136 final size:136
Alignment explanation
Indices: 276577--277145 Score: 901
Period size: 136 Copynumber: 4.2 Consensus size: 136
276567 TTTCCAGTAC
*
276577 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAAAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGCTTGT
* * * ** * *
276642 TTGACCTATCACTCGATTCATGACATTTCAAATTAGTGACACCTCGCTTGAGGGATTGACATTTT
66 TCGACCTATCACTCAATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
*
276707 TAATTG
131 CAATTG
* *
276713 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGGTTGG
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGCTTGT
*
276778 TCGACCTATCACTCGATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
66 TCGACCTATCACTCAATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
276843 CAATTG
131 CAATTG
* *
276849 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCACAATGAGAAGAGCTTGT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGCTTGT
* * *
276914 TCGACCTATCACTCAATTCACGGTATTTCGAATCAGTGACACCTCGATTGAGGGATTGATATTTC
66 TCGACCTATCACTCAATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
276979 CAATTG
131 CAATTG
* * *
276985 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAGAAGAGCTTAT
1 AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGCTTGT
* *
277050 TCGACCTATCACTCAATTCACGGTATTTCGAATCAGTGACGCCTCGCTTGAGGGATTGACATTTC
66 TCGACCTATCACTCAATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
277115 C-A--G
131 CAATTG
*
277118 AAGAGTTCATAATGAGAATAACTCATCC
1 -AGAGTTCATAATGAGAAGAACTCATCC
277146 TAAAGGAGAA
Statistics
Matches: 407, Mismatches: 25, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
133 1 0.00
134 26 0.06
135 1 0.00
136 379 0.93
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (136 bp):
AGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAAAAGTTCATAATAAGAAGAGCTTGT
TCGACCTATCACTCAATTCACGGTATTTCAAATCAGTGACACCTCGCTTGAGGGATTGACATTTC
CAATTG
Found at i:278001 original size:19 final size:20
Alignment explanation
Indices: 277955--278001 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
277945 ATTCATGTTT
*
277955 TAGTATTATACGTTTTTTTA
1 TAGTATTTTACGTTTTTTTA
*
277975 -ATTCATTTTA-GTTTTTTTA
1 TAGT-ATTTTACGTTTTTTTA
277994 TAGTATTT
1 TAGTATTT
278002 GATTTTGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (20 bp):
TAGTATTTTACGTTTTTTTA
Found at i:278103 original size:23 final size:24
Alignment explanation
Indices: 278077--278121 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
278067 ATTTTCATTG
278077 TTAA-TATATATATTG-TTTGATAT
1 TTAATTAT-TATATTGATTTGATAT
*
278100 TTAATTATTATCTTGATTTGAT
1 TTAATTATTATATTGATTTGAT
278122 GTTGATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.58
Consensus pattern (24 bp):
TTAATTATTATATTGATTTGATAT
Found at i:278607 original size:103 final size:103
Alignment explanation
Indices: 278488--278695 Score: 407
Period size: 103 Copynumber: 2.0 Consensus size: 103
278478 TATAAATTAC
278488 ATATATAGTTTAATTCATTTTGATATATAAATTAGGTACAAGGCATCTTTTAATTAATATTGTAT
1 ATATATAGTTTAATTCATTTTGATATATAAATTAGGTACAAGGCATCTTTTAATTAATATTGTAT
278553 GTTATCTTCATGTGCATAACTCAACATTATTACATGTT
66 GTTATCTTCATGTGCATAACTCAACATTATTACATGTT
*
278591 ATATATAGTTTTATTCATTTTGATATATAAATTAGGTACAAGGCATCTTTTAATTAATATTGTAT
1 ATATATAGTTTAATTCATTTTGATATATAAATTAGGTACAAGGCATCTTTTAATTAATATTGTAT
278656 GTTATCTTCATGTGCATAACTCAACATTATTACATGTT
66 GTTATCTTCATGTGCATAACTCAACATTATTACATGTT
278694 AT
1 AT
278696 GTTAATATTT
Statistics
Matches: 104, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 104 1.00
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.45
Consensus pattern (103 bp):
ATATATAGTTTAATTCATTTTGATATATAAATTAGGTACAAGGCATCTTTTAATTAATATTGTAT
GTTATCTTCATGTGCATAACTCAACATTATTACATGTT
Found at i:283984 original size:15 final size:15
Alignment explanation
Indices: 283964--283995 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
283954 TACAATGAAT
283964 AATGAATGTATGCAA
1 AATGAATGTATGCAA
283979 AATGAATGTATGCAA
1 AATGAATGTATGCAA
283994 AA
1 AA
283996 GGTATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:289521 original size:3 final size:3
Alignment explanation
Indices: 289506--289570 Score: 80
Period size: 3 Copynumber: 22.0 Consensus size: 3
289496 TTTGGTCCTG
* * *
289506 TAA TAA TAT TAA TAA T-T TAT TTAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
289551 TAA TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA
289571 AAAATGGGCA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 3 0.05
3 50 0.91
4 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:300803 original size:30 final size:29
Alignment explanation
Indices: 300739--300807 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
300729 GGTCTGACAA
* *
300739 TGAATCGGCTGAAAACCGGTAAAACCATGG
1 TGAACCGGCTGAAAACCGGCAAAACCA-GG
300769 TGAACCGGCTGAAAACCGGCAAAACC-GG
1 TGAACCGGCTGAAAACCGGCAAAACCAGG
300797 TTTGAACCGGC
1 --TGAACCGGC
300808 GATTCACTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
30 33 0.94
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (29 bp):
TGAACCGGCTGAAAACCGGCAAAACCAGG
Found at i:301279 original size:69 final size:70
Alignment explanation
Indices: 301157--301334 Score: 322
Period size: 69 Copynumber: 2.6 Consensus size: 70
301147 AGCAAGTTGG
*
301157 GATGCTCTTCTATATTTCTTAGCCATGTGGGATTGTTTTGTTCTCATATTTTTACTCTTTAAACT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGGGATTGTTTTGTTCTCATATTTTTACTCTTTAAACT
301222 TTTGA
66 TTTGA
* *
301227 GATGCTCTTCTATGTTTCTCAGTCATGT-GGATTGTTTTGTTCTCATATTTTTACTCTTTAAACT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGGGATTGTTTTGTTCTCATATTTTTACTCTTTAAACT
301291 TTTGA
66 TTTGA
301296 GATGCTCTTCTATGTTTCTTAGCCATGTGGGATTGTTTT
1 GATGCTCTTCTATGTTTCTTAGCCATGTGGGATTGTTTT
301335 TTTAAAAAAA
Statistics
Matches: 102, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
69 67 0.66
70 35 0.34
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.51
Consensus pattern (70 bp):
GATGCTCTTCTATGTTTCTTAGCCATGTGGGATTGTTTTGTTCTCATATTTTTACTCTTTAAACT
TTTGA
Found at i:301832 original size:30 final size:30
Alignment explanation
Indices: 301774--301832 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
301764 AATTTTTTCT
* *
301774 TAATATTTATTATTACAGGCTTAGTTTTTG
1 TAATAATTATTATTACAGGCTTAATTTTTG
*
301804 TAATAATTATTATTA-AGGGTTTAATTTTT
1 TAATAATTATTATTACA-GGCTTAATTTTT
301833 CCCAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.54
Consensus pattern (30 bp):
TAATAATTATTATTACAGGCTTAATTTTTG
Found at i:302341 original size:15 final size:14
Alignment explanation
Indices: 302309--302338 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
302299 ACAATCTGTT
302309 AATTTAAAAAAATA
1 AATTTAAAAAAATA
*
302323 AATTTAAAAAATTA
1 AATTTAAAAAAATA
302337 AA
1 AA
302339 ATTATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATTTAAAAAAATA
Found at i:302346 original size:2 final size:2
Alignment explanation
Indices: 302341--302394 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
302331 AAATTAAAAT
302341 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
302383 TA TA TA TA TA TA
1 TA TA TA TA TA TA
302395 AAAGAAAACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:303245 original size:141 final size:142
Alignment explanation
Indices: 302974--303370 Score: 552
Period size: 142 Copynumber: 3.0 Consensus size: 142
302964 AAAAAAGACA
302974 TAGGTTGGACACCTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTTT
1 TAGGTTGGACACCTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTTT
303039 TTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAAA
66 TTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAAA
303104 AATTCAACTTGT
131 AATTCAACTTGT
*
303116 TAGGTTGGGCA-CTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTTG
1 TAGGTTGGACACCTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTT-
303180 TTTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAA
65 TTTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAA
303245 AAATTCAACTTGT
130 AAATTCAACTTGT
303258 TA--TT----A-C---TG-ATATTTAATTC----TATTATCAACATACTTAT-AAA---A-----
1 TAGGTTGGACACCTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTTT
303299 --T-A-ATA---GTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAAA
66 TTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAAA
303357 AATTCAACTTGT
131 AATTCAACTTGT
303369 TA
1 TA
303371 TTATGAATAA
Statistics
Matches: 253, Mismatches: 1, Indels: 33
0.88 0.00 0.11
Matches are distributed among these distances:
111 67 0.26
114 3 0.01
115 1 0.00
116 1 0.00
124 1 0.00
127 3 0.01
128 18 0.07
132 11 0.04
133 2 0.01
136 2 0.01
140 2 0.01
141 52 0.21
142 90 0.36
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (142 bp):
TAGGTTGGACACCTTTTGTATATTTAATTCTTTTTATTATCAACATACTTATAAAATTTATCTTT
TTTCATATATTTGTTATTAGGAATTCATTTTTTCATGCTTGTTATTATGGAGCTACCCTTAAAAA
AATTCAACTTGT
Found at i:312199 original size:5 final size:5
Alignment explanation
Indices: 312189--312214 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
312179 CAATGGGTTT
312189 TCATA TCATA TCATA TCATA TCATA T
1 TCATA TCATA TCATA TCATA TCATA T
312215 TCATTTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TCATA
Found at i:317753 original size:102 final size:103
Alignment explanation
Indices: 317627--317861 Score: 271
Period size: 103 Copynumber: 2.3 Consensus size: 103
317617 TTCCAATAGC
* **
317627 CAATTTTGGTATC-AGTAATCATGGGAGTATCGATA-TCGAGGGTAGAGTATTGATACTCT-AGT
1 CAATTTTGGTATCGA-TACTCATGGGAGTATCGATACT-GAGGGTAGAGTATCAATACTCTCAGT
* * *
317689 A-GAAGTATTGATACCGGGGTGCTTTTCAAAACATCGAATG
64 ATG-AGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
* *
317729 CAATTTTGGTATCGATACTTATGGGAGTATTGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
1 CAATTTTGGTATCGATACTCATGGGAGTATCGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
* * * *
317794 GAGTATCGATACTGGAGTATTTTTTAAAACATTGAATG
66 GAGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
* * * *
317832 AAAATTTGGTATTGATACTCATGGAAGTAT
1 CAATTTTGGTATCGATACTCATGGGAGTAT
317862 TAATACCTTA
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
102 50 0.45
103 61 0.54
104 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (103 bp):
CAATTTTGGTATCGATACTCATGGGAGTATCGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
GAGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
Found at i:321739 original size:102 final size:103
Alignment explanation
Indices: 321611--321845 Score: 278
Period size: 103 Copynumber: 2.3 Consensus size: 103
321601 TTCCAATAGC
* **
321611 CAATTTTGGTATTAGTACTCATGGGAGTATCGATA-TCGAGGGTAGAGTATTGATACTCT-AGTA
1 CAATTTTGGTATTAATACTCATGGGAGTATCGATACT-GAGGGTAGAGTATCAATACTCTCAGTA
* * *
321674 -GAAGTATTGATACCGGGGTGCTTTTCAAAACATCGAATG
65 TG-AGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
* * *
321713 CAATTTTGGTATCAATACTTATGGGAGTATTGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
1 CAATTTTGGTATTAATACTCATGGGAGTATCGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
* * * *
321778 GAGTATCGATACTGGAGTATTTTTTAAAACATTGAATG
66 GAGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
* * * *
321816 AAAATTTGGTATTGATACTCATGGAAGTAT
1 CAATTTTGGTATTAATACTCATGGGAGTAT
321846 TAATACCTTA
Statistics
Matches: 111, Mismatches: 19, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
102 51 0.46
103 59 0.53
104 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (103 bp):
CAATTTTGGTATTAATACTCATGGGAGTATCGATACTGAGGGTAGAGTATCAATACTCTCAGTAT
GAGTATCGATACCGGAGTACTTTTCAAAACATCGAATG
Found at i:332292 original size:14 final size:14
Alignment explanation
Indices: 332275--332351 Score: 66
Period size: 14 Copynumber: 5.6 Consensus size: 14
332265 AAGTTAACGG
332275 GTTGACTCGGACGA
1 GTTGACTCGGACGA
** *
332289 GTTGACTCAAATGA
1 GTTGACTCGGACGA
* *
332303 GTTGACTTGGACAA
1 GTTGACTCGGACGA
* *
332317 G-TGACTCGAAAGA
1 GTTGACTCGGACGA
*
332330 GTTGACTTGGACGA
1 GTTGACTCGGACGA
*
332344 TTTGACTC
1 GTTGACTC
332352 AGTTCGGGTT
Statistics
Matches: 45, Mismatches: 17, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
13 9 0.20
14 36 0.80
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (14 bp):
GTTGACTCGGACGA
Found at i:332331 original size:27 final size:28
Alignment explanation
Indices: 332275--332352 Score: 97
Period size: 27 Copynumber: 2.8 Consensus size: 28
332265 AAGTTAACGG
* *
332275 GTTGACTCGGACGAGTTGACTCAAATGA
1 GTTGACTTGGACAAGTTGACTCAAATGA
332303 GTTGACTTGGACAAG-TGACTCGAAA-GA
1 GTTGACTTGGACAAGTTGACTC-AAATGA
* *
332330 GTTGACTTGGACGATTTGACTCA
1 GTTGACTTGGACAAGTTGACTCA
332353 GTTCGGGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
27 22 0.50
28 22 0.50
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (28 bp):
GTTGACTTGGACAAGTTGACTCAAATGA
Found at i:337017 original size:12 final size:12
Alignment explanation
Indices: 337002--337029 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
336992 AAAATAAAAT
337002 AAAACAGAATAA
1 AAAACAGAATAA
337014 AAAACAGAATAA
1 AAAACAGAATAA
337026 AAAA
1 AAAA
337030 TAAAGAGGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAACAGAATAA
Found at i:346264 original size:20 final size:20
Alignment explanation
Indices: 346235--346284 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
346225 AATTTTAAAT
*
346235 TATATATTTATATATAAAAA
1 TATATTTTTATATATAAAAA
*
346255 TATATTTTTATATATAAACA
1 TATATTTTTATATATAAAAA
*
346275 TATAATTTTA
1 TATATTTTTA
346285 AAATTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTTTTATATATAAAAA
Found at i:349707 original size:26 final size:25
Alignment explanation
Indices: 349669--349717 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
349659 CATTTCATAT
* *
349669 AAAAATATGTTTAATATATAAATAA
1 AAAAATATATTTAACATATAAATAA
349694 AAAAATTATATTTAACATATAAAT
1 AAAAA-TATATTTAACATATAAAT
349718 CAATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAAATATATTTAACATATAAATAA
Found at i:351365 original size:24 final size:24
Alignment explanation
Indices: 351320--351365 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
351310 TTTTTATTGA
*
351320 ATATTTGTAATTAAATTCAACTTT
1 ATATTTGTAATTAAATTAAACTTT
351344 ATATTTGTAATTAAGA-TAAACT
1 ATATTTGTAATTAA-ATTAAACT
351366 GGTAATTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATATTTGTAATTAAATTAAACTTT
Found at i:354857 original size:6 final size:6
Alignment explanation
Indices: 354841--354874 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
354831 AGGAAGAGAA
*
354841 AAATGG GAATGG AAATGG AAATGG AAATGTG AAA
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAA
354875 GGGTGATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.32, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:358388 original size:24 final size:24
Alignment explanation
Indices: 358333--358409 Score: 70
Period size: 24 Copynumber: 3.2 Consensus size: 24
358323 TAAAACTTAA
358333 ATATTTTTTTATAATATTATAAAT
1 ATATTTTTTTATAATATTATAAAT
* * *
358357 ATACTTTTTTATAATGATTTTATAT
1 ATATTTTTTTATAAT-ATTATAAAT
* *
358382 A-ATTTTTATA-AAAATATATAAAT
1 ATATTTTTTTATAATAT-TATAAAT
358405 -TATTT
1 ATATTT
358410 AATTATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
22 2 0.05
23 11 0.26
24 21 0.50
25 8 0.19
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (24 bp):
ATATTTTTTTATAATATTATAAAT
Found at i:360916 original size:37 final size:37
Alignment explanation
Indices: 360832--360909 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
360822 CATTAAACCT
**
360832 TTTTATATTTTTAATTTTGCAAAAAAAATTATATAAA
1 TTTTATAAATTTAATTTTGCAAAAAAAATTATATAAA
** *
360869 TTTTATAAATTTAATTTTTTAAAGAAAA-TATATAATA
1 TTTTATAAATTTAATTTTGCAAAAAAAATTATATAA-A
360906 TTTT
1 TTTT
360910 TCAAATTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
TTTTATAAATTTAATTTTGCAAAAAAAATTATATAAA
Found at i:363115 original size:10 final size:10
Alignment explanation
Indices: 363100--363126 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
363090 CGAGATTGGA
363100 TTTTTATTAT
1 TTTTTATTAT
363110 TTTTTATTAT
1 TTTTTATTAT
363120 TTTTTAT
1 TTTTTAT
363127 GAATTGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:363417 original size:3 final size:3
Alignment explanation
Indices: 363405--363447 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
363395 TAAAAAAAGA
*
363405 AAT AAA AAT AAT AAT AAT AAT AA- AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
363448 CAACAACAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:363431 original size:17 final size:17
Alignment explanation
Indices: 363409--363444 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
363399 AAAAGAAATA
363409 AAAATAATAATAATAAT
1 AAAATAATAATAATAAT
363426 AAAATAATAATAATAAT
1 AAAATAATAATAATAAT
363443 AA
1 AA
363445 TAACAACAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAATAATAATAATAAT
Found at i:363437 original size:23 final size:23
Alignment explanation
Indices: 363404--363447 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
363394 GTAAAAAAAG
363404 AAATAAAAATAATAATAATAATA
1 AAATAAAAATAATAATAATAATA
*
363427 AAATAATAATAATAATAATAA
1 AAATAAAAATAATAATAATAA
363448 CAACAACAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AAATAAAAATAATAATAATAATA
Found at i:364095 original size:41 final size:41
Alignment explanation
Indices: 364028--364107 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
364018 CTTGTGAAAA
* *
364028 CATCCTGCCCGAAAGTCTTATAGATGGCTCGAAGAACTTAT
1 CATCCTGCCCGAAAGGCTTATAGATGGCCCGAAGAACTTAT
* * *
364069 CATCTTGCTCGAAAGGCTTACT-GATGGCCCGAAGGACTT
1 CATCCTGCCCGAAAGGCTTA-TAGATGGCCCGAAGAACTT
364108 GCCAATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 32 0.97
42 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (41 bp):
CATCCTGCCCGAAAGGCTTATAGATGGCCCGAAGAACTTAT
Found at i:364304 original size:218 final size:214
Alignment explanation
Indices: 363912--364325 Score: 562
Period size: 218 Copynumber: 1.9 Consensus size: 214
363902 CCCAAAGAAC
** *
363912 TTACTAAGTAAGAAACTTTGGAAATCGTTTTCTTACTTTAAAAAACAATTTTCAGAAAATATTTA
1 TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTTTAAAAAACAATTTTCAGAAAAGATTTA
* *
363977 AATAAAAACCTTTGGAAACCACTTTCTCATTTTTCGAAAATCTTGTGAAAACATCCTGCCCGAAA
66 AATAAAAACCTTTAGAAACCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAA
* * * * *
364042 GTCTTATAGATGGCTCGAAGAACTTATCATCTTGCTCGAAAGGCTTACT-GATGGCCCGAAGGAC
131 GTCTTATAGATGACCCGAAGAACTTATCATATTGCTCAAAAGGCTTA-TAGATGACCCGAAGGAC
364106 TTGCCAATTTTGGAAATAGT
195 TTGCCAATTTTGGAAATAGT
* * * *
364126 TTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCACTTTTCATAAAAGA
1 TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTAC-TTT-AAAAA--ACAATTTTCAGAAAAGA
* * * *
364191 TTTAAATGAGAGA-CTTTAGAAATCACTTTCTCATTTTTCGAAAATCATGTGAAAATATCCTGCC
62 TTTAAAT-AAAAACCTTTAGAAACCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCCTGCC
* * * *
364255 CGAAGGTCTTATGGATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATATATGACCCGAA
126 CGAAAGTCTTATAGATGACCCGAAGAACTTATCATATTGCTCAAAAGGCTTATAGATGACCCGAA
364320 GGACTT
191 GGACTT
364326 ATCATATTGC
Statistics
Matches: 172, Mismatches: 22, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
214 33 0.19
215 3 0.02
216 5 0.03
217 1 0.01
218 127 0.74
219 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (214 bp):
TTACTAAGTAAGAAACTTTGGAAATCACTTTCTTACTTTAAAAAACAATTTTCAGAAAAGATTTA
AATAAAAACCTTTAGAAACCACTTTCTCATTTTTCGAAAATCATGTGAAAACATCCTGCCCGAAA
GTCTTATAGATGACCCGAAGAACTTATCATATTGCTCAAAAGGCTTATAGATGACCCGAAGGACT
TGCCAATTTTGGAAATAGT
Found at i:364306 original size:21 final size:21
Alignment explanation
Indices: 364277--364352 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
364267 GGATGACCCG
364277 AAGGACTTATCATATTGCTCAA
1 AAGGACTTAT-ATATTGCTCAA
**
364299 AAGG-CTTATATA-TGAC-CCG
1 AAGGACTTATATATTG-CTCAA
364318 AAGGACTTATCATATTGCTCAA
1 AAGGACTTAT-ATATTGCTCAA
364340 AAGG-CTTATATAT
1 AAGGACTTATATAT
364353 GACCCGAAGG
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
19 7 0.16
20 13 0.29
21 14 0.31
22 11 0.24
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.32
Consensus pattern (21 bp):
AAGGACTTATATATTGCTCAA
Found at i:364319 original size:41 final size:41
Alignment explanation
Indices: 364269--364363 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
364259 GGTCTTATGG
364269 ATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATAT
1 ATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATAT
364310 ATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATAT
1 ATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATAT
364351 ATGACCCGAAGGA
1 ATGACCCGAAGGA
364364 TTTAACCACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (41 bp):
ATGACCCGAAGGACTTATCATATTGCTCAAAAGGCTTATAT
Found at i:364326 original size:20 final size:20
Alignment explanation
Indices: 364253--364363 Score: 77
Period size: 20 Copynumber: 5.5 Consensus size: 20
364243 AAATATCCTG
* **
364253 CCCGAAGGTCTTATGGATGA
1 CCCGAAGGACTTATATATGA
364273 CCCGAAGGACTTATCATATTG-
1 CCCGAAGGACTTAT-ATA-TGA
**
364294 CTCAAAAGG-CTTATATATGA
1 C-CCGAAGGACTTATATATGA
364314 CCCGAAGGACTTATCATATTG-
1 CCCGAAGGACTTAT-ATA-TGA
**
364335 CTCAAAAGG-CTTATATATGA
1 C-CCGAAGGACTTATATATGA
364355 CCCGAAGGA
1 CCCGAAGGA
364364 TTTAACCACC
Statistics
Matches: 70, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
19 14 0.20
20 26 0.37
21 16 0.23
22 14 0.20
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
CCCGAAGGACTTATATATGA
Found at i:364681 original size:41 final size:42
Alignment explanation
Indices: 364581--364749 Score: 141
Period size: 42 Copynumber: 4.1 Consensus size: 42
364571 GGCCTGAAGA
* **
364581 ACTT-ATCATCTTGCTCGAAAGGTTTA-T-ATGACCCAAAGG
1 ACTTAATCATCATGCTCGAAAGACTTACTGATGACCCAAAGG
* * *
364620 ATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCAAAGG
1 ACTTAATCATCATGCTCGAAAGACTTACTGATGACCCAAAGG
* * * ** *
364662 ACTT-ATCACCTTGCTCGAAA-AGTTTGTAGATGACCCAAATG
1 ACTTAATCATCATGCTCGAAAGACTTACT-GATGACCCAAAGG
* * * * *
364703 ATTTAATCATCATGCTCGAAAGACTTACTAATAACCCGAAGA
1 ACTTAATCATCATGCTCGAAAGACTTACTGATGACCCAAAGG
364745 ACTTA
1 ACTTA
364750 GCAATTTTGG
Statistics
Matches: 97, Mismatches: 27, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
39 3 0.03
40 22 0.23
41 28 0.29
42 40 0.41
43 4 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (42 bp):
ACTTAATCATCATGCTCGAAAGACTTACTGATGACCCAAAGG
Found at i:364749 original size:83 final size:81
Alignment explanation
Indices: 364576--364749 Score: 240
Period size: 83 Copynumber: 2.1 Consensus size: 81
364566 TGGATGGCCT
* *
364576 GAAGAACTTATCATCTTGCTCGAAAGGTTTATATGACCCAAAGGATTTAAGCATCATGCTCGAAA
1 GAAGAACTTATCACCTTGCTCGAAAGGTTTAGATGACCCAAAGGATTTAAGCATCATGCTCGAAA
* **
364641 GACTTACTGATGGCCC
66 GACTTACTAATAACCC
* * * * *
364657 AAAGGACTTATCACCTTGCTCGAAAAGTTTGTAGATGACCCAAATGATTTAATCATCATGCTCGA
1 GAAGAACTTATCACCTTGCTCG-AAAGGTT-TAGATGACCCAAAGGATTTAAGCATCATGCTCGA
364722 AAGACTTACTAATAACCC
64 AAGACTTACTAATAACCC
364740 GAAGAACTTA
1 GAAGAACTTA
364750 GCAATTTTGG
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 19 0.24
82 6 0.08
83 54 0.68
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (81 bp):
GAAGAACTTATCACCTTGCTCGAAAGGTTTAGATGACCCAAAGGATTTAAGCATCATGCTCGAAA
GACTTACTAATAACCC
Found at i:367195 original size:21 final size:20
Alignment explanation
Indices: 367171--367249 Score: 74
Period size: 21 Copynumber: 3.8 Consensus size: 20
367161 ATCTATTGTC
367171 TTTCTTCTTTTCCTTTTCCTT
1 TTTCTTCTTTT-CTTTTCCTT
367192 TTTC-TCTTTTTCTTATTCTCTT
1 TTTCTTC-TTTTCTT-TTC-CTT
*
367214 TCTT-TTCTTTTCTTTTCTTT
1 T-TTCTTCTTTTCTTTTCCTT
367234 TTCTCTTCTTTT-TTTT
1 TT-TCTTCTTTTCTTTT
367250 TGTTTCTCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
19 1 0.02
20 13 0.26
21 21 0.42
22 11 0.22
23 4 0.08
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTCTTTTCTTTTCCTT
Found at i:367200 original size:14 final size:14
Alignment explanation
Indices: 367178--367240 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
367168 GTCTTTCTTC
367178 TTTTC-CTTTTCCT
1 TTTTCTCTTTTCCT
*
367191 TTTTCTCTTTTTCT
1 TTTTCTCTTTTCCT
* *
367205 TATTCTC-TTTCTT
1 TTTTCTCTTTTCCT
*
367218 TTCTTTTCTTTT-CT
1 TT-TTCTCTTTTCCT
367232 TTTTCTCTT
1 TTTTCTCTT
367241 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
13 16 0.41
14 20 0.51
15 3 0.08
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTCTCTTTTCCT
Found at i:367235 original size:16 final size:16
Alignment explanation
Indices: 367175--367268 Score: 88
Period size: 16 Copynumber: 5.9 Consensus size: 16
367165 ATTGTCTTTC
* *
367175 TTCTTTTCCTTTTCCT
1 TTCTTTTCTTTTTCTT
*
367191 TT-TTCTCTTTTTCTT
1 TTCTTTTCTTTTTCTT
367206 ATTCTCTTTC-TTTTCTT
1 -TTCT-TTTCTTTTTCTT
*
367223 TTCTTTTCTTTTTCTC
1 TTCTTTTCTTTTTCTT
*
367239 TTCTTTT-TTTTTGTT
1 TTCTTTTCTTTTTCTT
367254 TCTCTTTT-TTTTTCT
1 T-TCTTTTCTTTTTCT
367269 CAATCTTCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
15 21 0.32
16 33 0.51
17 8 0.12
18 3 0.05
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.77
Consensus pattern (16 bp):
TTCTTTTCTTTTTCTT
Found at i:367237 original size:6 final size:6
Alignment explanation
Indices: 367169--367290 Score: 69
Period size: 6 Copynumber: 20.7 Consensus size: 6
367159 TGATCTATTG
* * * *
367169 TCTTTCT TCTTTT CCTTTT CCTTTTT CTCTTTT TCTTAT TCTCTT TC-TTT
1 TCTTT-T TCTTTT TCTTTT TC-TTTT -TCTTTT TCTTTT TCTTTT TCTTTT
* * *
367219 TC-TTT TC-TTT TCTTTT TC-TCT TC-TTT T-TTTT TGTTTC TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
* *
367262 T-TTTT CTCAATCT TCTTTT TCTTTT TCTT
1 TCTTTT -TC-TTTT TCTTTT TCTTTT TCTT
367291 CAAATATGAC
Statistics
Matches: 92, Mismatches: 15, Indels: 17
0.74 0.12 0.14
Matches are distributed among these distances:
5 29 0.32
6 45 0.49
7 15 0.16
8 3 0.03
ACGTcount: A:0.02, C:0.22, G:0.01, T:0.75
Consensus pattern (6 bp):
TCTTTT
Found at i:367246 original size:27 final size:26
Alignment explanation
Indices: 367175--367249 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 26
367165 ATTGTCTTTC
* * *
367175 TTCTTTTCCT-TTTCCTTTTTCTCTTT
1 TTCTTTTTCTCTTTCTTTTTTTTC-TT
*
367201 TTCTTATTCTCTTTCTTTTCTTTTCTT
1 TTCTTTTTCTCTTTCTTTT-TTTTCTT
367228 TTCTTTTTCTC-TTCTTTTTTTT
1 TTCTTTTTCTCTTTCTTTTTTTT
367250 TGTTTCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 4 0.10
26 15 0.36
27 19 0.45
28 4 0.10
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (26 bp):
TTCTTTTTCTCTTTCTTTTTTTTCTT
Found at i:367250 original size:21 final size:21
Alignment explanation
Indices: 367173--367266 Score: 79
Period size: 20 Copynumber: 4.6 Consensus size: 21
367163 CTATTGTCTT
*
367173 TCTTCTTTTCCTTTTCCTTTTTC
1 TCTTCTTTT--TTTTTCTTTTTC
* * *
367196 TCTT-TTTCTTATTCTCTTTC
1 TCTTCTTTTTTTTTCTTTTTC
* *
367216 TTTTCTTTTCTTTTCTTTTTC
1 TCTTCTTTTTTTTTCTTTTTC
*
367237 TCTTC-TTTTTTTT-TGTTTC
1 TCTTCTTTTTTTTTCTTTTTC
367256 TCTT-TTTTTTT
1 TCTTCTTTTTTT
367267 CTCAATCTTC
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
19 15 0.26
20 19 0.33
21 16 0.28
22 3 0.05
23 4 0.07
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.77
Consensus pattern (21 bp):
TCTTCTTTTTTTTTCTTTTTC
Found at i:367256 original size:35 final size:35
Alignment explanation
Indices: 367207--367286 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 35
367197 CTTTTTCTTA
* * *
367207 TTCTCTTTCTTTTCTTT-TCTTTTCTTTT-TC-TC
1 TTCTTTTTCTTTTGTTTCTCTTTTTTTTTCTCATC
367239 TTCTTTTT-TTTTGTTTCTCTTTTTTTTTCTCAATC
1 TTCTTTTTCTTTTGTTTCTCTTTTTTTTTCTC-ATC
367274 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
367287 TCTTCAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
31 7 0.17
32 17 0.43
33 2 0.05
35 10 0.25
36 4 0.10
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (35 bp):
TTCTTTTTCTTTTGTTTCTCTTTTTTTTTCTCATC
Found at i:367259 original size:27 final size:27
Alignment explanation
Indices: 367199--367262 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
367189 CTTTTTCTCT
*
367199 TTTTCTTATTCTCTTTCTTTTCTTTTC
1 TTTTCTTTTTCTCTTTCTTTTCTTTTC
* *
367226 TTTTCTTTTTCTC-TTCTTTTTTTTTG
1 TTTTCTTTTTCTCTTTCTTTTCTTTTC
367252 TTTCTCTTTTT
1 TTT-TCTTTTT
367263 TTTTCTCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 14 0.42
27 19 0.58
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (27 bp):
TTTTCTTTTTCTCTTTCTTTTCTTTTC
Found at i:368274 original size:13 final size:13
Alignment explanation
Indices: 368256--368281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
368246 ATAAGTTCAA
368256 TCACAAAATATTT
1 TCACAAAATATTT
368269 TCACAAAATATTT
1 TCACAAAATATTT
368282 AGGTAAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TCACAAAATATTT
Found at i:370171 original size:30 final size:30
Alignment explanation
Indices: 370137--370209 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
370127 CCTGAAGGAC
370137 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
370167 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
370197 CTGTCCATAGGTC
1 CTATCCAGAGGTC
370210 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:370233 original size:31 final size:31
Alignment explanation
Indices: 370195--370259 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
370185 GATCCTCGGT
*
370195 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
370226 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
370257 AAC
1 AAC
370260 CCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:371215 original size:20 final size:22
Alignment explanation
Indices: 371190--371247 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 22
371180 TTTCCCTTGA
371190 AGTGCATCGATGCATTC-T-AC
1 AGTGCATCGATGCATTCTTAAC
371210 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC-TTAAC
371233 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
371248 CTACTCATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (22 bp):
AGTGCATCGATGCATTCTTAAC
Found at i:371385 original size:64 final size:64
Alignment explanation
Indices: 371236--371396 Score: 186
Period size: 64 Copynumber: 2.5 Consensus size: 64
371226 CTTTAACATG
* * *
371236 TGCATCGATGCACT-ACTCATGCATCGATACACAAATTACCTTCGATGTTTTCATTTAAAAAGGA
1 TGCATCGATGCACTCAAT-ATGCATCGATACACCAATTACATTCGATGTTTTCATTTAAAAAGGA
** * **
371300 TGCATCGATGCACTCCTTATGCATCGATACACCAATTGCATTCGATG-TTTC-TTTTTAAA-GA
1 TGCATCGATGCACTCAATATGCATCGATACACCAATTACATTCGATGTTTTCATTTAAAAAGGA
371361 GTGCATCGATGCACATTCAATATGCATCGATACACC
1 -TGCATCGATGCAC--TCAATATGCATCGATACACC
371397 TTGCCCAGAA
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
61 2 0.02
62 19 0.23
63 4 0.05
64 58 0.69
65 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.32
Consensus pattern (64 bp):
TGCATCGATGCACTCAATATGCATCGATACACCAATTACATTCGATGTTTTCATTTAAAAAGGA
Found at i:371861 original size:3 final size:3
Alignment explanation
Indices: 371853--371908 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
371843 GCTTACGGGG
371853 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
371901 AGA AGA AG
1 AGA AGA AG
371909 GAAATAAGCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:378817 original size:6 final size:6
Alignment explanation
Indices: 378784--378892 Score: 95
Period size: 6 Copynumber: 18.7 Consensus size: 6
378774 ACAAGGACTT
378784 ATAAAA A-AAGAA ATAAAA A-AAGAA ATAAAA AT-AAA AT-AAA ATAAAA
1 ATAAAA ATAA-AA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA
* * * * *
378830 ATAGAA ATAGAA ATAAAA ATAAAA AT-AAA ATAAAT ATATAT AT-AAA
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
*
378876 ATAAATA ATAATA ATAA
1 ATAAA-A ATAAAA ATAA
378893 TCCGGACAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
5 22 0.25
6 57 0.65
7 9 0.10
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (6 bp):
ATAAAA
Found at i:378850 original size:40 final size:40
Alignment explanation
Indices: 378785--378863 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
378775 CAAGGACTTA
378785 TAAAAAAAGAAATAAAAAAAGAAATAAAAATAAAATAAAA
1 TAAAAAAAGAAATAAAAAAAGAAATAAAAATAAAATAAAA
* *
378825 TAAAAATAGAAATAGAAATAA-AAATAAAAATAAAATAAA
1 TAAAAAAAGAAATA-AAAAAAGAAATAAAAATAAAATAAA
378864 TATATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 31 0.86
41 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (40 bp):
TAAAAAAAGAAATAAAAAAAGAAATAAAAATAAAATAAAA
Found at i:378855 original size:35 final size:35
Alignment explanation
Indices: 378806--378892 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 35
378796 ATAAAAAAAG
378806 AAATAAA-AAT-AAAATAAAATAAAAATAGAAATA
1 AAATAAATAATAAAAATAAAATAAAAATAGAAATA
* * *
378839 GAAATAAA-AATAAAAATAAAATAAATATATATATA
1 -AAATAAATAATAAAAATAAAATAAAAATAGAAATA
*
378874 AAATAAATAATAATAATAA
1 AAATAAATAATAAAAATAA
378893 TCCGGACAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
34 17 0.36
35 30 0.64
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (35 bp):
AAATAAATAATAAAAATAAAATAAAAATAGAAATA
Found at i:379982 original size:2 final size:2
Alignment explanation
Indices: 379975--380042 Score: 129
Period size: 2 Copynumber: 34.5 Consensus size: 2
379965 CAATTCCTGT
379975 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
380017 TA TA TA TA TA TA T- TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
380043 TACACATCAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 64 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:380872 original size:14 final size:14
Alignment explanation
Indices: 380839--380900 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
380829 ATTTTAATGT
* *
380839 TAAAATTTAAAATA
1 TAAACTTTAAATTA
*
380853 TAAAACTTTAAATTC
1 T-AAACTTTAAATTA
* *
380868 TAAACTGTAATTTA
1 TAAACTTTAAATTA
* *
380882 TAAATTTTAAATTT
1 TAAACTTTAAATTA
380896 TAAAC
1 TAAAC
380901 CCAAGACCTT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
14 25 0.69
15 11 0.31
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (14 bp):
TAAACTTTAAATTA
Found at i:383218 original size:20 final size:21
Alignment explanation
Indices: 383193--383244 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
383183 TTTTCCCAAT
*
383193 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
383213 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
383234 TCGCAATGCGA
1 TCGCAATGCGA
383245 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:383257 original size:41 final size:41
Alignment explanation
Indices: 383230--383361 Score: 124
Period size: 41 Copynumber: 3.2 Consensus size: 41
383220 GCGAATTGGG
* * *
383230 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
* * *
383271 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAAT-AC
** * * * *
383313 --TTTCACAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
*
383352 ATAATCGCAA
1 AAAATCGCAA
383362 TGCGATTTCA
Statistics
Matches: 72, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.42
41 38 0.53
42 2 0.03
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATAC
Found at i:383258 original size:20 final size:20
Alignment explanation
Indices: 383233--383347 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
383223 AATTGGGAAA
*
383233 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
383253 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
383274 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
383294 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
383314 TTCACAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
383334 TTCGCAACGCGATA
1 ATCGCAACGCGATA
383348 ATACATAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.78
21 13 0.16
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:383559 original size:21 final size:21
Alignment explanation
Indices: 383533--383575 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
383523 CACTCTCTCA
383533 CCCATCTCCGACGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
**
383554 CCCATCTCCGGTGAAATCCGT
1 CCCATCTCCGACGAAATCCGT
383575 C
1 C
383576 TCTCCATCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (21 bp):
CCCATCTCCGACGAAATCCGT
Found at i:385209 original size:18 final size:18
Alignment explanation
Indices: 385188--385232 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
385178 TCCACTTCGG
*
385188 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
385206 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
385224 GAGCCATCA
1 GAGCCATCA
385233 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:385739 original size:20 final size:20
Alignment explanation
Indices: 385714--385759 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
385704 TAGTTTACTT
385714 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
385734 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
385754 TCGCAA
1 TCGCAA
385760 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:385768 original size:19 final size:20
Alignment explanation
Indices: 385725--385769 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
385715 CGCAACACGA
385725 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
385745 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
385764 AAATGA
1 AAATGA
385770 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:385775 original size:19 final size:20
Alignment explanation
Indices: 385733--385778 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
385723 GAAAATGACT
***
385733 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGCGGAAATGAAA
385753 ATCGCAATGC-GAAATGAAA
1 ATCGCAATGCGGAAATGAAA
385772 ATCGCAA
1 ATCGCAA
385779 CGACAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (20 bp):
ATCGCAATGCGGAAATGAAA
Found at i:385818 original size:20 final size:20
Alignment explanation
Indices: 385793--385838 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
385783 AAAATCGCAA
385793 TGCGATAGCCATTTCCGCGT
1 TGCGATAGCCATTTCCGCGT
* *
385813 TGCGATAGTCATTTTCGCGT
1 TGCGATAGCCATTTCCGCGT
385833 TGCGAT
1 TGCGAT
385839 TTTAAGTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (20 bp):
TGCGATAGCCATTTCCGCGT
Found at i:387725 original size:14 final size:14
Alignment explanation
Indices: 387706--387741 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
387696 ATTGTTTAAT
387706 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
387720 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
387734 TGATTTGT
1 TGATTTGT
387742 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Done.