Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008097.1 Hibiscus syriacus cultivar Beakdansim tig00110621_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: 3094402
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 8 of 12
Found at i:1907095 original size:183 final size:181
Alignment explanation
Indices: 1906729--1907202 Score: 754
Period size: 181 Copynumber: 2.6 Consensus size: 181
1906719 GATCCAAATT
* * * *
1906729 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACAGGTATTGAAAA-GAT
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTA-TCAAAATGAT
* * * * * *
1906793 GAATCCGGTAAAGCGGTACCGGATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 GAAACCGGTAAAACGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCAACACTT
* *
1906858 CGTTAATTTAAAAGAGAAGTAGTTTTAGCGCCTATAAAGTGTCGATACTTTAAA
130 CGTTAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTT--A
1906912 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
1906977 AAACCGGTAAAACGCTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCAACACTTC
66 AAACCGGTAAAACGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCAACACTTC
1907041 GTTAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTTA
131 GTTAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATAC-TTTA
* *
1907093 AAAAATGTATCGATCCACAACGATATAACATGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
* *
1907158 AAATCGGTAAAACGCTACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGCTACCGGATATATTAAAAGTGTCGATACTTT
1907203 CGTAAGTACG
Statistics
Matches: 273, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
181 107 0.39
182 68 0.25
183 98 0.36
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (181 bp):
AAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATG
AAACCGGTAAAACGCTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCAACACTTC
GTTAATTTAAAAGAGAAGCAATTTTAGCGCCTATAAAGTGTCGATACTTTA
Found at i:1909230 original size:19 final size:19
Alignment explanation
Indices: 1909206--1909254 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1909196 AATGTAGGGT
1909206 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1909225 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
1909244 TAATTTTGTAT
1 TAATTTTGTAT
1909255 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1909731 original size:21 final size:21
Alignment explanation
Indices: 1909706--1909760 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
1909696 GTGCAACCAT
1909706 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCCATATATAA
1909727 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCCATATATAA
1909748 AAAGTGTCGATCC
1 AAAGTGTCGATCC
1909761 CAGAAACATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
AAAGTGTCGATCCATATATAA
Found at i:1910023 original size:407 final size:370
Alignment explanation
Indices: 1909727--1910447 Score: 1097
Period size: 371 Copynumber: 1.9 Consensus size: 370
1909717 CCATATATAA
*
1909727 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTACAATGTA
1 AAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTA-AATGTA
*
1909792 ATAGGTAATTTTTCAATCTAACCGGTATAAGTATGAGAGATTAGGTATATAATATGTATCGACAC
65 ATAGGTAATTTTTCAATCTAACCGGTATAAGTAT-----A-CAGGTATAT-A-A-GTATCGACAC
1909857 TTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTG
121 --------TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTG
*
1909922 TCGATCC-ATATAAAAGGTGTCGAT-CCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTA
178 TCGATCCAATATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTA
* *
1909985 ATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTATGAGAGATTAGGTAT-ATAATATGTATC
243 ATTTTTCAATCTAACCGGTATAAGTATACCGATTTTATGAGAGATTAGGTGTAAT-ATATGTATC
* * *
1910049 GATATTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAATAGGGTGCAACCAT
307 GACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCAT
* *
1910113 AAAGTGTCGATCCATATATAAAAGGTGTCGATCCTAGAAACATCGAAACCCATAAGTATATGTAA
1 AAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTAAATGTAA
* *
1910178 TAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTATGTAAGTATCGACACTTTGTGTCGA
66 TAGGTAATTTTTCAATCTAACCGGTATAAGTATACAGGTATATAAGTATCGACACTTTGTGTCGA
1910243 TACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAA
131 TACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA-ATATAAAAA
*
1910308 GTTTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
195 GTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCG
* * *
1910373 GTATAAGTATACCGTTTTTATGAGATAATAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
260 GTATAAGTATACCGATTTTATGAGAGATTAGGTGTAATATATGTATCGACACTTTTTAATTTTGT
1910438 GTCGATACTA
325 GTCGATACTA
1910448 ATTTAAATAT
Statistics
Matches: 317, Mismatches: 14, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
368 64 0.20
370 15 0.05
371 122 0.38
372 2 0.01
376 10 0.03
377 1 0.00
378 1 0.00
379 6 0.02
380 1 0.00
385 39 0.12
386 56 0.18
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (370 bp):
AAAGTGTCGATCCATATATAAAAGGTGTCGATCCCAGAAACATCGAAACCCATAAGTAAATGTAA
TAGGTAATTTTTCAATCTAACCGGTATAAGTATACAGGTATATAAGTATCGACACTTTGTGTCGA
TACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAATATAAAAAG
TGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGG
TATAAGTATACCGATTTTATGAGAGATTAGGTGTAATATATGTATCGACACTTTTTAATTTTGTG
TCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCAT
Found at i:1910060 original size:197 final size:199
Alignment explanation
Indices: 1909484--1910216 Score: 1028
Period size: 197 Copynumber: 3.6 Consensus size: 199
1909474 AATTTACAAT
* * *
1909484 ATGGTAAACAGGGTGCAACCATAAAGTTTCGATCCATATATAAAAAGTGTCGATCCCAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCAAGAAACAT
*
1909549 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGATTTT
65 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
*
1909614 ATGAGAGATTAGGTGTA-ATATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
130 ATGAGAGATTAGGTATATA-ATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCA
1909678 GAATGA
194 GAATGA
1909684 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCATATATAAA
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCC---------
*
1909749 AAGTGTCGATCCCAGAAACATCGAAACCCATAAGTACAATGTAATAGGTAATTTTTCAATCTAAC
56 AA-----G-------AAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAAC
1909814 CGG--T-A-TA-A---G---TATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTT
109 CGGTATAAGTATACCGGTTTTATGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTT
1909868 GTGTCGATACTATTGGTCCAGAATGA
174 GTGTCGATACTATTGGTCCAGAATGA
*
1909894 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCC-ATATAAAAGGTGTCGATCC-AGAAACATC
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCAAGAAACATC
1909957 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTA
66 GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTA
* *
1910022 TGAGAGATTAGGTATATAATATGTATCGATATTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
131 TGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
1910087 ATGA
196 ATGA
* * *
1910091 ATGGCAAATAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGGTGTCGATCCTAGAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCAAGAAACAT
1910156 CGAAACCCATAAGTAT-ATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGT
65 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGT
1910217 ATGTAAGTAT
Statistics
Matches: 486, Mismatches: 11, Indels: 73
0.85 0.02 0.13
Matches are distributed among these distances:
186 52 0.11
188 1 0.00
189 1 0.00
190 2 0.00
191 1 0.00
193 1 0.00
194 1 0.00
197 103 0.21
198 1 0.00
199 64 0.13
200 78 0.16
208 18 0.04
209 1 0.00
210 103 0.21
211 1 0.00
214 1 0.00
216 1 0.00
217 2 0.00
218 1 0.00
219 1 0.00
221 52 0.11
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (199 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCAAGAAACATC
GAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTTA
TGAGAGATTAGGTATATAATATGTATCGACACTTTTTAATTTTGTGTCGATACTATTGGTCCAGA
ATGA
Found at i:1910261 original size:171 final size:172
Alignment explanation
Indices: 1910062--1910386 Score: 607
Period size: 171 Copynumber: 1.9 Consensus size: 172
1910052 ATTTTTTAAT
*
1910062 TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAATAGGGTGCAACCATAAAGTGTCGATCCA
1 TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA
* *
1910127 TATATAAAAGGTGTCGATCCTAGAAACATCGAAACCCATAAGTAT-ATGTAATAGGTAATTTTTC
66 TATATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
1910191 AATCTAACCGGTATAAGTATACCGGTATGTAAGTATCGACAC
131 AATCTAACCGGTATAAGTATACCGGTATGTAAGTATCGACAC
1910233 TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA
1 TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA
*
1910298 TATATAAAAAGTTTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
66 TATATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
1910363 AATCTAACCGGTATAAGTATACCG
131 AATCTAACCGGTATAAGTATACCG
1910387 TTTTTATGAG
Statistics
Matches: 149, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
171 106 0.71
172 43 0.29
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (172 bp):
TTTGTGTCGATACTATTGGTCCAGAATGAATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCA
TATATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAAGTATAATGTAATAGGTAATTTTTC
AATCTAACCGGTATAAGTATACCGGTATGTAAGTATCGACAC
Found at i:1911932 original size:12 final size:12
Alignment explanation
Indices: 1911910--1911949 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1911900 CAAGCGGTTA
*
1911910 ATGAAGATGAAG
1 ATGACGATGAAG
*
1911922 CTGACGATGAAG
1 ATGACGATGAAG
*
1911934 ATGACGATGATG
1 ATGACGATGAAG
1911946 ATGA
1 ATGA
1911950 TCCAAACAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1911948 original size:18 final size:18
Alignment explanation
Indices: 1911910--1911949 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1911900 CAAGCGGTTA
*
1911910 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
* *
1911928 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGACG
1911946 ATGA
1 ATGA
1911950 TCCAAACAAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:1914004 original size:366 final size:363
Alignment explanation
Indices: 1913330--1914030 Score: 1208
Period size: 366 Copynumber: 1.9 Consensus size: 363
1913320 ATATCATCAT
* *
1913330 AAAGTGTCGATACATTTTCAAAAAGTGTCAATTGAAAAACATCGGAACCCATAATTATAATGTAA
1 AAAGTGTCAATACATTTTCAAAAAGTATCAATTGAAAAACATCGGAACCCATAATTATAATGTAA
*
1913395 TAGGTAATTTTGTAATATAACTGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAACTA
66 TAGGTAATTTTGTAATATAACCGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAACTA
* * *
1913460 TATCACTTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAAAAAGTGTCGATACCT
131 TATCACCTTTTTAATATTGTGTCACAACTTTATGTCCAGAATGGATGAAAAAAGTGTCGATACCT
1913525 TTTCAAAAGTGTCGATTGAAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAA
196 TTTCAAAAGTGTCGATTGAAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAA
*
1913590 TATAACCGGTATAGATATACCGATTTTATGAGAGAATAGGTATACAACCTATATCGACACTTTTT
261 TATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTATACAACCTATATCGACACTTTTT
1913655 AATATTGTGTTGCTACTTTATGTCCAGAATAGATGAAA
326 AATATTGTGTTGCTACTTTATGTCCAGAATAGATGAAA
* *
1913693 AAAGTGTCAATACCTTTTCAAAAAGTATCGATTGAAAAAACATCGGAACCCATAA-TATAATGTA
1 AAAGTGTCAATACATTTTCAAAAAGTATCAATTG-AAAAACATCGGAACCCATAATTATAATGTA
* *
1913757 ATAGGTAA-TTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATATGTCTACAACC
65 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAA-C
1913821 TATATCGACACTTTTTAATATTGTGTCACAACTTTATGTCCAGAATGGATGAAAAAAGTGTCGAT
129 TATATC-AC-CTTTTTAATATTGTGTCACAACTTTATGTCCAGAATGGATGAAAAAAGTGTCGAT
* *
1913886 ACTTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGGTAATTT
192 ACCTTTTC-AAAAGTGTCGATTGAAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTT
* *
1913951 TGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACCTATATCGACAC
256 TGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTATACAACCTATATCGACAC
1914016 TTTTTAATATTGTGT
321 TTTTTAATATTGTGT
1914031 CCATACTTTT
Statistics
Matches: 318, Mismatches: 15, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
362 51 0.16
363 54 0.17
364 22 0.07
365 59 0.19
366 132 0.42
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (363 bp):
AAAGTGTCAATACATTTTCAAAAAGTATCAATTGAAAAACATCGGAACCCATAATTATAATGTAA
TAGGTAATTTTGTAATATAACCGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAACTA
TATCACCTTTTTAATATTGTGTCACAACTTTATGTCCAGAATGGATGAAAAAAGTGTCGATACCT
TTTCAAAAGTGTCGATTGAAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAA
TATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTATACAACCTATATCGACACTTTTT
AATATTGTGTTGCTACTTTATGTCCAGAATAGATGAAA
Found at i:1914028 original size:184 final size:184
Alignment explanation
Indices: 1913330--1914039 Score: 1193
Period size: 182 Copynumber: 3.9 Consensus size: 184
1913320 ATATCATCAT
* *
1913330 AAAGTGTCGATACATTTTCAAAAAGTGTCAATTG-AAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
1913394 ATAGGTAATTTTGTAATATAACTGGTATAGATATACCAGTTTTATGAGAGAATAGGTCTACAA-C
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
* *
1913458 TATATC-AC-TTTTTTAATATTGTGTCGCTACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCAACTTTATGTCCAGAATGGATGAAA
*
1913510 AAAGTGTCGATACCTTTTC-AAAAGTGTCGATTGAAAAAACATCGAAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
* *
1913574 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGATTTTATGAGAGAATAGGTATACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
* * *
1913639 TATATCGACACTTTTTAATATTGTGTTGCTACTTTATGTCCAGAATAGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCAACTTTATGTCCAGAATGGATGAAA
* *
1913693 AAAGTGTCAATACCTTTTCAAAAAGTATCGATTGAAAAAACATCGGAACCCATAA-TATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
*
1913757 ATAGGTAA-TTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATATGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
*
1913821 TATATCGACACTTTTTAATATTGTGTCACAACTTTATGTCCAGAATGGATGAAA
131 TATATCGACACTTTTTAATATTGTGTCGCAACTTTATGTCCAGAATGGATGAAA
*
1913875 AAAGTGTCGATACTTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
1 AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
*
1913940 ATAGGTAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACAACC
66 ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
1914005 TATATCGACACTTTTTAATATTGTGTC-CATACTTT
131 TATATCGACACTTTTTAATATTGTGTCGCA-ACTTT
1914040 TAAGTAACGT
Statistics
Matches: 497, Mismatches: 25, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
179 13 0.03
180 106 0.21
181 7 0.01
182 157 0.32
183 95 0.19
184 119 0.24
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (184 bp):
AAAGTGTCGATACCTTTTCAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTA
ATAGGTAATTTTGTAATATAACCGGTATAGATATACCGGTTTTATGAGAGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGCAACTTTATGTCCAGAATGGATGAAA
Found at i:1916710 original size:21 final size:23
Alignment explanation
Indices: 1916685--1916726 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
1916675 CTTATATTGT
1916685 AAAGTATCTAT-CTT-TTTTATA
1 AAAGTATCTATACTTATTTTATA
*
1916706 AAAGTGTCTATACTTATTTTA
1 AAAGTATCTATACTTATTTTA
1916727 CTGTGGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
22 3 0.17
23 5 0.28
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (23 bp):
AAAGTATCTATACTTATTTTATA
Found at i:1917629 original size:85 final size:86
Alignment explanation
Indices: 1917527--1917687 Score: 270
Period size: 85 Copynumber: 1.9 Consensus size: 86
1917517 AAATAGATCA
*
1917527 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATTTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1917592 -CGGTTAAATACCTATTTATT
66 CCGGTTAAATACCTATTTATT
* * * *
1917612 ATATAAGCGCTATCTATTACATTATATAAGCGTTACTTAATATGTTATTGTACTTGATAATATTT
1 ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1917677 CCGGTTAAATA
66 CCGGTTAAATA
1917688 ATATAACATA
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
85 60 0.86
86 10 0.14
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (86 bp):
ATATAAACGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATACCTATTTATT
Found at i:1922741 original size:36 final size:36
Alignment explanation
Indices: 1922700--1922772 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
1922690 TTTTAATAAC
1922700 AGATCAGTAAAACAATAGATCCAGAAATTCGGAGAG
1 AGATCAGTAAAACAATAGATCCAGAAATTCGGAGAG
1922736 AGATCAGTAAAACAATAGATCCAGAAATTCGGAGAG
1 AGATCAGTAAAACAATAGATCCAGAAATTCGGAGAG
1922772 A
1 A
1922773 AACTAATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.48, C:0.14, G:0.22, T:0.16
Consensus pattern (36 bp):
AGATCAGTAAAACAATAGATCCAGAAATTCGGAGAG
Found at i:1925368 original size:60 final size:58
Alignment explanation
Indices: 1925277--1925394 Score: 218
Period size: 60 Copynumber: 2.0 Consensus size: 58
1925267 TCAATCATGT
1925277 TTCCCCATACTGAAAAATGTTACATGAACTTGAATTGCAGACCGAAGCAGCTAAGTCG
1 TTCCCCATACTGAAAAATGTTACATGAACTTGAATTGCAGACCGAAGCAGCTAAGTCG
1925335 TTCCCCATACTGAAAAAAATGTTACATGAACTTGAATTGCAGACCGAAGCAGCTAAGTCG
1 TTCCCCATACTG--AAAAATGTTACATGAACTTGAATTGCAGACCGAAGCAGCTAAGTCG
1925395 ATGCTTGGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 12 0.21
60 46 0.79
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (58 bp):
TTCCCCATACTGAAAAATGTTACATGAACTTGAATTGCAGACCGAAGCAGCTAAGTCG
Found at i:1928905 original size:19 final size:19
Alignment explanation
Indices: 1928881--1928922 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1928871 GAATCCACCA
1928881 TGAAAAGCGCAGTGAAGGC
1 TGAAAAGCGCAGTGAAGGC
1928900 TGAAAAGCGCAGTGAAGGC
1 TGAAAAGCGCAGTGAAGGC
1928919 TGAA
1 TGAA
1928923 CATATTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.36, T:0.12
Consensus pattern (19 bp):
TGAAAAGCGCAGTGAAGGC
Found at i:1933870 original size:31 final size:31
Alignment explanation
Indices: 1933782--1933871 Score: 103
Period size: 30 Copynumber: 2.9 Consensus size: 31
1933772 AATATGATCC
* * *
1933782 CTAAATTTTAGATAAAATATTAAGTTGACCT
1 CTAAACTTTAGATAAAATATCAATTTGACCT
* * *
1933813 -TAAACATTAGATGAAATATCATTTTGACCT
1 CTAAACTTTAGATAAAATATCAATTTGACCT
1933843 CTAAACTTTAGATAAAATGA-CAATTTGAC
1 CTAAACTTTAGATAAAAT-ATCAATTTGAC
1933872 ATTTGAATTC
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
30 24 0.50
31 23 0.48
32 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (31 bp):
CTAAACTTTAGATAAAATATCAATTTGACCT
Found at i:1937790 original size:29 final size:29
Alignment explanation
Indices: 1937758--1937839 Score: 119
Period size: 29 Copynumber: 2.8 Consensus size: 29
1937748 AAACTAAATT
* *
1937758 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1937787 GATGTCATTGCTTACATCATTTAAGTAAT
1 GATGTCATTGCTTACATCATTTAAGTAAA
*
1937816 GATGTCATTGCTTATATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
1937840 GTTAGGTGGG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 43 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAAGTAAA
Found at i:1941410 original size:16 final size:16
Alignment explanation
Indices: 1941391--1941422 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1941381 TTTTGGTTCT
*
1941391 GTTCGGTTTTTTAATG
1 GTTCGGTTTTTCAATG
1941407 GTTCGGTTTTTCAATG
1 GTTCGGTTTTTCAATG
1941423 AAAAATTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.09, G:0.25, T:0.53
Consensus pattern (16 bp):
GTTCGGTTTTTCAATG
Found at i:1952868 original size:30 final size:29
Alignment explanation
Indices: 1952825--1952925 Score: 86
Period size: 30 Copynumber: 3.6 Consensus size: 29
1952815 TTTTAAAAAG
* *
1952825 TTATAATTTAATTATTTAATTAAAATATTA
1 TTATAAATAAATTATTTAATTAAAATA-TA
1952855 TTATAAATAAATTA-TT--TTAAAA-A-A
1 TTATAAATAAATTATTTAATTAAAATATA
* * * *
1952879 TTATAATTTAATCAATTAATTAAAATATCA
1 TTATAAATAAATTATTTAATTAAAATAT-A
*
1952909 TTATAAATAGATTATTT
1 TTATAAATAAATTATTT
1952926 TATCAGTAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
24 12 0.22
25 2 0.04
26 1 0.02
27 12 0.22
28 1 0.02
29 2 0.04
30 25 0.45
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.48
Consensus pattern (29 bp):
TTATAAATAAATTATTTAATTAAAATATA
Found at i:1952883 original size:54 final size:54
Alignment explanation
Indices: 1952815--1952927 Score: 181
Period size: 54 Copynumber: 2.1 Consensus size: 54
1952805 ACAAATTATT
* * * *
1952815 TTTTAAAAAGTTATAATTTAATTATTTAATTAAAATATTATTATAAATAAATTA
1 TTTTAAAAAATTATAATTTAATCAATTAATTAAAATATCATTATAAATAAATTA
*
1952869 TTTTAAAAAATTATAATTTAATCAATTAATTAAAATATCATTATAAATAGATTA
1 TTTTAAAAAATTATAATTTAATCAATTAATTAAAATATCATTATAAATAAATTA
1952923 TTTTA
1 TTTTA
1952928 TCAGTAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (54 bp):
TTTTAAAAAATTATAATTTAATCAATTAATTAAAATATCATTATAAATAAATTA
Found at i:1952964 original size:27 final size:26
Alignment explanation
Indices: 1952817--1952974 Score: 95
Period size: 27 Copynumber: 6.0 Consensus size: 26
1952807 AAATTATTTT
* *
1952817 TTAAAAAGTTATAATTTAATTATTTAA
1 TTAAAAAATTATAA-TTAATTAATTAA
* * * * *
1952844 TTAAAATATTATTATAAATAAATTATT
1 TTAAAAAATTATAATTAATTAATTA-A
*
1952871 TTAAAAAATTATAATTTAATCAATTAA
1 TTAAAAAATTATAA-TTAATTAATTAA
* * * * *
1952898 TTAAAATATCATTA-TAAATAGATTAT
1 TTAAAAAATTATAATTAATTA-ATTAA
* ** * *
1952924 TTTATCAGTAATAATTAATTAATTAA
1 TTAAAAAATTATAATTAATTAATTAA
1952950 TTAAAAAAGTTATAATTAA-TAATTA
1 TTAAAAAA-TTATAATTAATTAATTA
1952975 CTTTAATTAA
Statistics
Matches: 94, Mismatches: 32, Indels: 11
0.69 0.23 0.08
Matches are distributed among these distances:
25 4 0.04
26 33 0.35
27 48 0.51
28 9 0.10
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (26 bp):
TTAAAAAATTATAATTAATTAATTAA
Found at i:1954210 original size:19 final size:18
Alignment explanation
Indices: 1954188--1954245 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 18
1954178 ATAATACAAT
1954188 ATTCCCATAGTAATATTAC
1 ATTCCCA-AGTAATATTAC
1954207 ATT-CCAA-TAATATT--
1 ATTCCCAAGTAATATTAC
*
1954221 ATTCCCAAAGGTAATCTTAC
1 ATTCCC-AA-GTAATATTAC
1954241 ATTCC
1 ATTCC
1954246 GTGAACCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 11
0.73 0.02 0.25
Matches are distributed among these distances:
14 3 0.09
15 2 0.06
16 9 0.28
17 1 0.03
18 9 0.28
19 3 0.09
20 5 0.16
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.36
Consensus pattern (18 bp):
ATTCCCAAGTAATATTAC
Found at i:1955147 original size:19 final size:20
Alignment explanation
Indices: 1955109--1955151 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
1955099 CGAATAACAC
1955109 TCTTTATAATTTAAATTTTTT
1 TCTTTATAATTT-AATTTTTT
1955130 TCTTTATAATTT-ATTTTTT
1 TCTTTATAATTTAATTTTTT
1955149 TCT
1 TCT
1955152 CATCAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.45
21 12 0.55
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (20 bp):
TCTTTATAATTTAATTTTTT
Found at i:1959774 original size:33 final size:33
Alignment explanation
Indices: 1959737--1959801 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
1959727 ACTTGTTCTC
1959737 TACATCTATAGTGAATTATTGTTCATCTCTCTT
1 TACATCTATAGTGAATTATTGTTCATCTCTCTT
* *
1959770 TACATTTATAGTGGATTATTGTTCATCTCTCT
1 TACATCTATAGTGAATTATTGTTCATCTCTCT
1959802 CGTGGAGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (33 bp):
TACATCTATAGTGAATTATTGTTCATCTCTCTT
Found at i:1968381 original size:14 final size:15
Alignment explanation
Indices: 1968353--1968385 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1968343 GGTTTTCTAA
*
1968353 TTAATTATTATTAAT
1 TTAATTATTAATAAT
1968368 TTAATT-TTAATAAT
1 TTAATTATTAATAAT
1968382 TTAA
1 TTAA
1968386 AATGTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTATTAATAAT
Found at i:1972893 original size:32 final size:33
Alignment explanation
Indices: 1972833--1972908 Score: 102
Period size: 33 Copynumber: 2.3 Consensus size: 33
1972823 CCGAATATAT
1972833 TAATATTTTAAAATAATTAAAATAATATA-TTTA
1 TAATATTTTAAAAT-ATTAAAATAATATATTTTA
*
1972866 TAATATTTTAAACAT-TTAAAATGATATATTTTA
1 TAATATTTTAAA-ATATTAAAATAATATATTTTA
1972899 TAATAATTTT
1 TAAT-ATTTT
1972909 TATATTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 12 0.31
33 20 0.51
34 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (33 bp):
TAATATTTTAAAATATTAAAATAATATATTTTA
Found at i:1977711 original size:36 final size:36
Alignment explanation
Indices: 1977660--1978001 Score: 423
Period size: 36 Copynumber: 9.5 Consensus size: 36
1977650 GTTTGATCCT
* * **
1977660 GAACCTCAAGCTAAGCATCAACATGAATTAGCTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* ***
1977696 GAACCTCAGGTTAAGCCTAAACATGAATTAGCTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* * *** **
1977732 AAACCTCATGCTAAGCCTAAACATGAATTAGCTATT
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* *
1977768 GAACCTCAGGCCAAGCCTCGACATGAATTAGCTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* * * *
1977804 AAACCTCAGACTAAGCCTCGGGATGAATTAACTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* *
1977840 GAACCTCAGGCTAAGCCTCGGGATGAATTAGCAACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
*
1977876 GAACCTCAGGCTAAGCTTCGGCATGAATTAGCTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
* * *
1977912 GAATCTCAAGCTAAGCCTCGGCATGAATTAGCTACT
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
*
1977948 GAACCTCAGGCTAAGCCTCAGCATGAATTAGCTACC
1 GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
*
1977984 AAACCTCAGGCTAAGCCT
1 GAACCTCAGGCTAAGCCT
1978002 GAACATCTGG
Statistics
Matches: 268, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 268 1.00
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (36 bp):
GAACCTCAGGCTAAGCCTCGGCATGAATTAGCTACC
Found at i:1977765 original size:21 final size:21
Alignment explanation
Indices: 1977707--1977765 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 21
1977697 AACCTCAGGT
1977707 TAAGCCTAAACATGAATTAGC
1 TAAGCCTAAACATGAATTAGC
* *
1977728 T-A-CC-AAACCT-CA-T-GC
1 TAAGCCTAAACATGAATTAGC
1977743 TAAGCCTAAACATGAATTAGC
1 TAAGCCTAAACATGAATTAGC
1977764 TA
1 TA
1977766 TTGAACCTCA
Statistics
Matches: 28, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
15 3 0.11
16 2 0.07
17 3 0.11
18 10 0.36
19 3 0.11
20 2 0.07
21 5 0.18
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (21 bp):
TAAGCCTAAACATGAATTAGC
Found at i:1978014 original size:54 final size:54
Alignment explanation
Indices: 1977946--1978055 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
1977936 GAATTAGCTA
*
1977946 CTGAACCTCAGGCTAAGCCTCAG-CATGAATTAGCTACCAAACCTCAGGCTAAGC
1 CTGAACATCAGGCTAAGCCTC-GTCATGAATTAGCTACCAAACCTCAGGCTAAGC
* * * **
1978000 CTGAACATCTGGCTAAGCCTCGTTATGAGTTAGCTACTGAACCTCAGGCTAAGC
1 CTGAACATCAGGCTAAGCCTCGTCATGAATTAGCTACCAAACCTCAGGCTAAGC
1978054 CT
1 CT
1978056 AAGCATGAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
53 1 0.02
54 48 0.98
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (54 bp):
CTGAACATCAGGCTAAGCCTCGTCATGAATTAGCTACCAAACCTCAGGCTAAGC
Found at i:1978078 original size:24 final size:24
Alignment explanation
Indices: 1978051--1978096 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1978041 CCTCAGGCTA
1978051 AGCCT-AAGCATGAATTAGCTACCG
1 AGCCTCAA-CATGAATTAGCTACCG
*
1978075 AGCCTCAACATGAATTGGCTAC
1 AGCCTCAACATGAATTAGCTAC
1978097 TGAATCTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (24 bp):
AGCCTCAACATGAATTAGCTACCG
Found at i:1981447 original size:49 final size:49
Alignment explanation
Indices: 1981379--1981472 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
1981369 GGAACTGTTA
*
1981379 TTGTTCGTTAATTTCAAGGTAGAACAGAACTCTGTTTTATAATGTTTAT
1 TTGTTCGTTAATTTCAAGGTAGAACAGAACACTGTTTTATAATGTTTAT
*
1981428 TTGTTCGTTAATTTCAAGGTATAACAGAACACTGTTTTATAATGT
1 TTGTTCGTTAATTTCAAGGTAGAACAGAACACTGTTTTATAATGT
1981473 ATACATGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.44
Consensus pattern (49 bp):
TTGTTCGTTAATTTCAAGGTAGAACAGAACACTGTTTTATAATGTTTAT
Found at i:1982544 original size:2 final size:2
Alignment explanation
Indices: 1982537--1982566 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1982527 TCCAAACATC
*
1982537 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1982567 CATGCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1990538 original size:18 final size:18
Alignment explanation
Indices: 1990511--1990554 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1990501 GTGGTTTTTT
1990511 AATT-ATTTAAAACTA-TA
1 AATTAATTTAAAA-TATTA
1990528 AATTAATTTAAAATATTA
1 AATTAATTTAAAATATTA
*
1990546 TATTAATTT
1 AATTAATTT
1990555 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTAATTTAAAATATTA
Found at i:1994973 original size:31 final size:31
Alignment explanation
Indices: 1994905--1994966 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1994895 TGACACTCAG
1994905 ATGTATGCATGATGGCTTTCCTCGATATCAT
1 ATGTATGCATGATGGCTTTCCTCGATATCAT
1994936 ATGTATGCATGATGGCTTTCCTCGATATCAT
1 ATGTATGCATGATGGCTTTCCTCGATATCAT
1994967 CAGTATGTGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (31 bp):
ATGTATGCATGATGGCTTTCCTCGATATCAT
Found at i:2001069 original size:19 final size:19
Alignment explanation
Indices: 2001026--2001062 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2001016 ACCTGGCAAC
* *
2001026 AACAACGGCATTCTTTTAG
1 AACAACGGCATTCTATCAG
2001045 AACAACGGCATTCTATCA
1 AACAACGGCATTCTATCA
2001063 TTACAACAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (19 bp):
AACAACGGCATTCTATCAG
Found at i:2001659 original size:2 final size:2
Alignment explanation
Indices: 2001652--2001679 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2001642 GAAGACACCC
2001652 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
2001680 TGTCTACATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2024036 original size:69 final size:62
Alignment explanation
Indices: 2023927--2024072 Score: 148
Period size: 69 Copynumber: 2.2 Consensus size: 62
2023917 ACAATTTATT
* * * * **
2023927 TTTTTAAATAAATTTCAGTTCGATTAATGATTAAAGAAAAAAATTCAGTTAATTCGATTTTATTA
1 TTTTCAAATAAATTTCAGTTCAACTAACGATTAAAG-AAAAAATT-A-TT--TT--ATTCGATTA
2023992 ATAA
59 ATAA
* * *
2023996 TTTTCAAATAAATTTCGGTTCAACTAACGGTTAAGGAAAAAATTATTTTATTCGATTAATAA
1 TTTTCAAATAAATTTCAGTTCAACTAACGATTAAAGAAAAAATTATTTTATTCGATTAATAA
2024058 TTTTCAAATAAATTT
1 TTTTCAAATAAATTT
2024073 TGATTTTCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
62 26 0.38
64 2 0.03
66 2 0.03
67 1 0.01
68 8 0.12
69 29 0.43
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (62 bp):
TTTTCAAATAAATTTCAGTTCAACTAACGATTAAAGAAAAAATTATTTTATTCGATTAATAA
Found at i:2024316 original size:81 final size:81
Alignment explanation
Indices: 2024214--2024387 Score: 251
Period size: 81 Copynumber: 2.1 Consensus size: 81
2024204 TTTATTCGGT
* * * * * *
2024214 TAATTTGGTTAATATTTTTCAAATAAAATTGGGTTCGATTAACGATCAAATAATTTCGGTTCGAT
1 TAATTAGGTTAACAATTTTCAAATAAAATTCGGTTCAATTAACGATCAAATAATTTCGGTTCAAT
2024279 TAATGGTTAAAGAAAAA
66 TAAT-GTTAAAGAAAAA
* *
2024296 -AATTAGGTTAACAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCAAT
1 TAATTAGGTTAACAATTTTCAAATAAAATTCGGTTCAATTAACGATCAAATAATTTCGGTTCAAT
2024360 TAATGTTAAAGAAAAA
66 TAATGTTAAAGAAAAA
*
2024376 TAATTCGGTTAA
1 TAATTAGGTTAA
2024388 TTTGGTTCGT
Statistics
Matches: 82, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 12 0.15
81 70 0.85
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (81 bp):
TAATTAGGTTAACAATTTTCAAATAAAATTCGGTTCAATTAACGATCAAATAATTTCGGTTCAAT
TAATGTTAAAGAAAAA
Found at i:2024520 original size:94 final size:95
Alignment explanation
Indices: 2024301--2024526 Score: 337
Period size: 95 Copynumber: 2.4 Consensus size: 95
2024291 AAAAAAATTA
* * *
2024301 GGTTAACAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCGGTTCAATTAATGT
1 GGTTAAAAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGT
2024366 TAAAGAAAAATAATTCGGTTAATTTGGTTC
66 TAAAGAAAAATAATTCGGTTAATTTGGTTC
* * * * * *
2024396 GTTTAATAATTTTCAAATAAATTTTAGTTCGATTAACGGTCAAATAATTTTGGTTCGATTAATTT
1 GGTTAAAAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGT
* * *
2024461 TAAGGAAAAA-ATTTTGGTTAATTTGGTTC
66 TAAAGAAAAATAATTCGGTTAATTTGGTTC
2024490 GGTTAAAAATTTTCAAATAAATTTTGGTTCGATTAAC
1 GGTTAAAAATTTTCAAATAAATTTTGGTTCGATTAAC
2024527 AGTTAAAGAA
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
94 51 0.44
95 66 0.56
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (95 bp):
GGTTAAAAATTTTCAAATAAATTTTGGTTCGATTAACGGTCAAATAATTTCGGTTCAATTAATGT
TAAAGAAAAATAATTCGGTTAATTTGGTTC
Found at i:2031269 original size:31 final size:30
Alignment explanation
Indices: 2031234--2031310 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
2031224 CTTTCGAGAT
*
2031234 ATATGGACAGTATACCTATGTTCTAAGGAAC
1 ATATGGACAGT-TACCTAGGTTCTAAGGAAC
* ** *
2031265 ATATGGATAGTTTACCTAGGTTCTTCGGGAC
1 ATATGGACAG-TTACCTAGGTTCTAAGGAAC
*
2031296 CTATGGACAGTTACC
1 ATATGGACAGTTACC
2031311 GAGGATCTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 5 0.13
31 32 0.84
32 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (30 bp):
ATATGGACAGTTACCTAGGTTCTAAGGAAC
Found at i:2031338 original size:30 final size:30
Alignment explanation
Indices: 2031294--2031365 Score: 126
Period size: 30 Copynumber: 2.4 Consensus size: 30
2031284 GTTCTTCGGG
* *
2031294 ACCTATGGACAGTTACCGAGGATCTTTATA
1 ACCTCTGGATAGTTACCGAGGATCTTTATA
2031324 ACCTCTGGATAGTTACCGAGGATCTTTATA
1 ACCTCTGGATAGTTACCGAGGATCTTTATA
2031354 ACCTCTGGATAG
1 ACCTCTGGATAG
2031366 GTCCTTCGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATA
Found at i:2046545 original size:48 final size:48
Alignment explanation
Indices: 2046489--2046580 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 48
2046479 CCGAAGGTGG
* *
2046489 TTTAGTGGCTTTACATCTGAAAATGCAAAAATATAATTTTAAAAGTGA
1 TTTAGTGGCTTTACATCTGAAAATGAAAAAACATAATTTTAAAAGTGA
* *
2046537 TTTAGTGGCTTTATATCTGAAAATGAAAAAACGTAATTTTAAAA
1 TTTAGTGGCTTTACATCTGAAAATGAAAAAACATAATTTTAAAA
2046581 TAATCTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (48 bp):
TTTAGTGGCTTTACATCTGAAAATGAAAAAACATAATTTTAAAAGTGA
Found at i:2048690 original size:16 final size:17
Alignment explanation
Indices: 2048669--2048700 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
2048659 TTTTTAATTC
2048669 TTAAATATAT-TTACAT
1 TTAAATATATATTACAT
2048685 TTAAATATATATTACA
1 TTAAATATATATTACA
2048701 GGTAGTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAATATATATTACAT
Found at i:2057736 original size:20 final size:21
Alignment explanation
Indices: 2057695--2057738 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
2057685 GTTTATCTCG
*
2057695 TAATAAAACCATACATATTAAT
1 TAATAAAACAATACA-ATTAAT
2057717 TAATAAAACAATAC-ATTAAT
1 TAATAAAACAATACAATTAAT
2057737 TA
1 TA
2057739 CTTGTGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
22 13 0.62
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (21 bp):
TAATAAAACAATACAATTAAT
Found at i:2068289 original size:19 final size:17
Alignment explanation
Indices: 2068264--2068302 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2068254 AATTATCAAA
2068264 AAAATATA-AATATATTT
1 AAAATATATAATA-ATTT
*
2068281 AAAATATATGATAATTT
1 AAAATATATAATAATTT
2068298 AAAAT
1 AAAAT
2068303 TTTAAAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAAATATATAATAATTT
Found at i:2070691 original size:31 final size:31
Alignment explanation
Indices: 2070650--2070714 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
2070640 TGGATAAATA
2070650 ACAAAAAAGTCACCAAATTACTAGAAAGATT
1 ACAAAAAAGTCACCAAATTACTAGAAAGATT
* ** * *
2070681 ACAAACAAGTCACTTAATTATTAGTAAGATT
1 ACAAAAAAGTCACCAAATTACTAGAAAGATT
2070712 ACA
1 ACA
2070715 TATTGGTATC
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:0.51, C:0.15, G:0.09, T:0.25
Consensus pattern (31 bp):
ACAAAAAAGTCACCAAATTACTAGAAAGATT
Found at i:2084038 original size:3 final size:3
Alignment explanation
Indices: 2084030--2084070 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
2084020 GAAGGGGATA
2084030 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GA
2084071 CGGATACGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.66, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:2085853 original size:21 final size:21
Alignment explanation
Indices: 2085829--2085869 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2085819 AAAAAATTAT
*
2085829 TTAAAATATTATTATTTTTTC
1 TTAAAATATTAATATTTTTTC
*
2085850 TTAAAATATTAATGTTTTTT
1 TTAAAATATTAATATTTTTT
2085870 AATATTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTAAAATATTAATATTTTTTC
Found at i:2088240 original size:20 final size:21
Alignment explanation
Indices: 2088215--2088307 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
2088205 TTTTCCCAAT
*
2088215 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2088235 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
2088256 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2088276 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2088297 TCGCAATGCGA
1 TCGCAATGCGA
2088308 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2088260 original size:41 final size:41
Alignment explanation
Indices: 2088215--2088307 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
2088205 TTTTCCCAAT
2088215 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2088256 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
2088297 TCGCAATGCGA
1 TCGCAATGCGA
2088308 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:2088320 original size:41 final size:41
Alignment explanation
Indices: 2088234--2088368 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
2088224 GAATAAGTAA
* *
2088234 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
2088275 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
2088316 ATCGCAATGCGATAAT-AAAAAATCGCAACGGGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
2088357 TTCGCAACGCGA
1 ATCGCAACGCGA
2088369 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:2088321 original size:20 final size:20
Alignment explanation
Indices: 2088296--2088390 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
2088286 AATTGGGAAA
*
2088296 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
2088316 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
2088337 ATCGCAACGGGATACTTACT
1 ATCGCAACGCGATACTGACT
*
2088357 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
2088377 TTCGCAACGCGATA
1 ATCGCAACGCGATA
2088391 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2088606 original size:22 final size:22
Alignment explanation
Indices: 2088578--2088621 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2088568 CACTCTCTCA
2088578 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2088600 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2088622 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2088910 original size:20 final size:20
Alignment explanation
Indices: 2088885--2088922 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2088875 CGATTCTCTC
2088885 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
2088905 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
2088923 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:2090874 original size:65 final size:65
Alignment explanation
Indices: 2090794--2090939 Score: 181
Period size: 64 Copynumber: 2.2 Consensus size: 65
2090784 ACCCATTCAA
* * *
2090794 GGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC-T-AGAGGGAATCGGTACCCCCA-
1 GGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAG-GGGAATCGATA-CCCCAG
2090856 GG
64 GG
* * *
2090858 GGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCTTAAGGGGAATCGATACCCCAGGG
1 GGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCA-GG
2090923 G
65 G
*
2090924 GGGAACCGATTCCCCC
1 GGGAACCGATACCCCC
2090940 ATGAGAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
64 41 0.58
65 11 0.15
66 19 0.27
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.19
Consensus pattern (65 bp):
GGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTTAAGGGGAATCGATACCCCAGGG
Found at i:2091277 original size:29 final size:29
Alignment explanation
Indices: 2091243--2091314 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
2091233 CATATTATGA
*
2091243 TACATGACATGAAGTT-GTATTAAAGGTAT
1 TACATGACATGAA-TTCATATTAAAGGTAT
* *
2091272 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAAGGTAT
*
2091301 TACATTACATGAAT
1 TACATGACATGAAT
2091315 ATGCAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAAGGTAT
Found at i:2091371 original size:30 final size:31
Alignment explanation
Indices: 2091329--2091388 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
2091319 AGAAAACGTT
*
2091329 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGAAAATG
*
2091360 ATATGC-CTATGTGTTAAAGGTATGAAAAT
1 ATATGCACTATGTGATAAAGGTATGAAAAT
2091389 ACTATGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGAAAATG
Found at i:2091682 original size:22 final size:22
Alignment explanation
Indices: 2091608--2091674 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
2091598 TTATGGACAT
2091608 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2091630 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2091652 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2091674 A
1 A
2091675 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2097738 original size:21 final size:21
Alignment explanation
Indices: 2097712--2097754 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2097702 TTTCTGGGTT
* *
2097712 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2097733 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2097754 A
1 A
2097755 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2097815 original size:66 final size:66
Alignment explanation
Indices: 2097712--2097883 Score: 197
Period size: 66 Copynumber: 2.6 Consensus size: 66
2097702 TTTCTGGGTT
* * * *
2097712 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCTTCAACGAATATGATTTCCAGAATGC
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGC
2097776 -TA
64 TTA
* * *
2097778 GAGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAATTCCAGATTGCT
1 -AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCT
2097843 TA
65 TA
* *
2097845 AGGGGAATCGATA-CCCCAGGGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCA--GGGGGGAACCGATACCCCC
2097884 ATGAGAAAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
65 7 0.08
66 49 0.53
67 36 0.39
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (66 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGAATATGAATTCCAGAATGCTT
A
Found at i:2098221 original size:29 final size:29
Alignment explanation
Indices: 2098187--2098258 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
2098177 CATATTATGA
*
2098187 TACATGACATGAAGTT-GTATTAAAGGTAT
1 TACATGACATGAA-TTCATATTAAAGGTAT
* *
2098216 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTAAAGGTAT
*
2098245 TACATTACATGAAT
1 TACATGACATGAAT
2098259 ATGCAGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 2 0.05
29 36 0.95
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAAGGTAT
Found at i:2098315 original size:30 final size:31
Alignment explanation
Indices: 2098273--2098332 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
2098263 AGAAAACGTT
*
2098273 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGAAAATG
*
2098304 ATATGC-CTATGTGTTAAAGGTATGAAAAT
1 ATATGCACTATGTGATAAAGGTATGAAAAT
2098333 ACTATGGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGAAAATG
Found at i:2098626 original size:22 final size:22
Alignment explanation
Indices: 2098552--2098618 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
2098542 TTATGGACAT
2098552 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2098574 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2098596 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
2098618 A
1 A
2098619 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:2099434 original size:18 final size:18
Alignment explanation
Indices: 2099390--2099434 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2099380 TCCACTTCGG
2099390 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
**
2099408 GAGTTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
2099426 GAGCCATCA
1 GAGCCATCA
2099435 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.29, C:0.42, G:0.13, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2099964 original size:19 final size:20
Alignment explanation
Indices: 2099921--2099965 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
2099911 CGCAACACGA
2099921 AAATGACTATCACAACGCGG
1 AAATGACTATCACAACGCGG
* * *
2099941 AAATGGCTATCGCAATGC-G
1 AAATGACTATCACAACGCGG
2099960 AAATGA
1 AAATGA
2099966 AAATCGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:2099984 original size:14 final size:14
Alignment explanation
Indices: 2099965--2100022 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
2099955 ATGCGAAATG
2099965 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2099979 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2099995 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
2100011 AAAATTGCAACG
1 AAAATCGCAACG
2100023 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2100007 original size:32 final size:33
Alignment explanation
Indices: 2099949--2100039 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
2099939 GGAAATGGCT
2099949 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2099982 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
2100014 ATTGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
2100040 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2100085 original size:19 final size:19
Alignment explanation
Indices: 2100070--2100173 Score: 111
Period size: 19 Copynumber: 5.4 Consensus size: 19
2100060 GCGATTTTGT
2100070 CGTTGCGA-TTTCATTTCG
1 CGTTGCGATTTTCATTTCG
2100088 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* ***
2100107 CATTGCGATAGCCATTTCCG
1 CGTTGCGATTTTCATTT-CG
**
2100127 CGTTGCGATAGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
2100146 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTTCA-TTTCG
*
2100166 TGTTGCGA
1 CGTTGCGA
2100174 AAGTAAACTA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
18 8 0.11
19 36 0.49
20 29 0.40
ACGTcount: A:0.14, C:0.21, G:0.24, T:0.40
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:2100131 original size:39 final size:38
Alignment explanation
Indices: 2100081--2100154 Score: 112
Period size: 39 Copynumber: 1.9 Consensus size: 38
2100071 GTTGCGATTT
**
2100081 CATTTCGCGTTGCGATTTTCATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
*
2100119 CATTTCCGCGTTGCGATAGTCATTTCGCGTTGCGAT
1 CATTT-CGCGTTGCGATAGTCATTTCGCATTGCGAT
2100155 TTTAAGTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (38 bp):
CATTTCGCGTTGCGATAGTCATTTCGCATTGCGATAGC
Found at i:2102018 original size:14 final size:14
Alignment explanation
Indices: 2101999--2102034 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
2101989 ATTGTTTAAT
2101999 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
2102013 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
2102027 TGATTTGT
1 TGATTTGT
2102035 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
Found at i:2102154 original size:13 final size:14
Alignment explanation
Indices: 2102136--2102188 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
2102126 GCGAATGGCT
2102136 ATCGCAACGAG-AA
1 ATCGCAACGAGAAA
2102149 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
2102168 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
2102182 ATCGCAA
1 ATCGCAA
2102189 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 7 0.21
14 11 0.32
15 3 0.09
17 3 0.09
18 1 0.03
19 9 0.26
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:2102171 original size:19 final size:17
Alignment explanation
Indices: 2102147--2102193 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 17
2102137 TCGCAACGAG
2102147 AAATCGCAATGCGAAATGA
1 AAATCGCAATGCG-AA-GA
2102166 AAATCGCAA--CG-AGA
1 AAATCGCAATGCGAAGA
2102180 AAATCGCAATGCGA
1 AAATCGCAATGCGA
2102194 TTTTCATTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 2 0.08
17 2 0.08
19 9 0.36
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (17 bp):
AAATCGCAATGCGAAGA
Found at i:2102269 original size:20 final size:20
Alignment explanation
Indices: 2102212--2102269 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
2102202 TCACATTGCG
* *
2102212 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
*
2102232 ATTTTCGCTTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
2102252 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
2102270 TCAAATGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:2103180 original size:24 final size:24
Alignment explanation
Indices: 2103153--2103206 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
2103143 GTATTCGAAA
* *
2103153 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
* *
2103177 TTTGATATTTGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
2103201 TTTGAT
1 TTTGAT
2103207 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:2103398 original size:12 final size:12
Alignment explanation
Indices: 2103381--2103405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2103371 ATATAATCCT
2103381 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2103393 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2103405 G
1 G
2103406 TCCCTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2105708 original size:19 final size:18
Alignment explanation
Indices: 2105684--2105815 Score: 72
Period size: 19 Copynumber: 7.8 Consensus size: 18
2105674 GGAAATTACT
2105684 ATCGCAATGCGATATGAAA
1 ATCGCAATGCGA-ATGAAA
*
2105703 ATCGCAA--CG-A-GAGA
1 ATCGCAATGCGAATGAAA
*
2105717 ATCACAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
* *
2105736 ATCGCAA--CG-CT-AAT
1 ATCGCAATGCGAATGAAA
*
2105750 TTCGCAATGCGGAATGAAA
1 ATCGCAATGC-GAATGAAA
**
2105769 ATCGCAA--CG-A-GGGA
1 ATCGCAATGCGAATGAAA
2105783 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCG-AATGAAA
*
2105802 ATCGCAACGCGAAT
1 ATCGCAATGCGAAT
2105816 TTAATTTCGC
Statistics
Matches: 83, Mismatches: 15, Indels: 31
0.64 0.12 0.24
Matches are distributed among these distances:
14 26 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 6 0.07
19 36 0.43
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (18 bp):
ATCGCAATGCGAATGAAA
Found at i:2105734 original size:33 final size:33
Alignment explanation
Indices: 2105684--2105810 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
2105674 GGAAATTACT
*
2105684 ATCGCAATGCGATATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
2105717 ATCACAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
2105749 TTTCGCAATGCGGAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2105783 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2105811 CGAATTTAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
32 1 0.01
33 78 0.98
34 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2105769 original size:66 final size:66
Alignment explanation
Indices: 2105685--2105817 Score: 223
Period size: 66 Copynumber: 2.0 Consensus size: 66
2105675 GAAATTACTA
*
2105685 TCGCAATGCGATATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGATATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
2105750 T
66 T
* *
2105751 TCGCAATGCGGA-ATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAA
1 TCGCAATGC-GATATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAA
2105815 TT
65 TT
2105817 T
1 T
2105818 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
66 61 0.97
67 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGATATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:2106007 original size:13 final size:14
Alignment explanation
Indices: 2105991--2106025 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2105981 CATCAATTAA
2105991 ACAAATCA-CTTTT
1 ACAAATCACCTTTT
2106004 ACAAATCACCTTTT
1 ACAAATCACCTTTT
2106018 ACAAATCA
1 ACAAATCA
2106026 ATTAAACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCACCTTTT
Found at i:2107446 original size:21 final size:21
Alignment explanation
Indices: 2107380--2107446 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2107370 GTGAATCGGG
*
2107380 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
2107400 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
2107422 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
2107443 CTCT
1 CTCT
2107447 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:2107465 original size:42 final size:41
Alignment explanation
Indices: 2107380--2107502 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
2107370 GTGAATCGGG
* * * * *
2107380 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
2107422 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
2107464 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
2107503 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:2109545 original size:20 final size:19
Alignment explanation
Indices: 2109500--2109704 Score: 160
Period size: 20 Copynumber: 11.1 Consensus size: 19
2109490 TCTTTTGGTT
* *
2109500 GAAATGAAAATCGCAATGA
1 GAAATGAAAATCGCAACGC
*
2109519 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
2109539 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
**
2109559 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
2109577 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** **
2109593 GAAATGACTATCGTGAC-C
1 GAAATGAAAATCGCAACGC
*
2109611 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2109626 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
* *
2109646 AAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
2109665 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
2109684 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
2109703 GA
1 GA
2109705 TTTTGGTTTC
Statistics
Matches: 153, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
14 18 0.12
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.39
20 63 0.41
21 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:2109602 original size:33 final size:33
Alignment explanation
Indices: 2109549--2109643 Score: 127
Period size: 33 Copynumber: 2.8 Consensus size: 33
2109539 GGAAATGACT
* *
2109549 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGACTATCGCAACCAGACA
**
2109583 ATCGCAACGCGAAATGACTATCGTGACCAGACA
1 ATCGCAACGCGAAATGACTATCGCAACCAGACA
**
2109616 ATCGCAACGCGAAATGAAAATCGCAACC
1 ATCGCAACGCGAAATGACTATCGCAACC
2109644 GCAAAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
33 43 0.81
34 10 0.19
ACGTcount: A:0.39, C:0.26, G:0.22, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGACTATCGCAACCAGACA
Found at i:2109639 original size:19 final size:19
Alignment explanation
Indices: 2109615--2109704 Score: 144
Period size: 19 Copynumber: 4.7 Consensus size: 19
2109605 GTGACCAGAC
2109615 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
2109634 AATCGCAACCGCAAAATAAA
1 AATCGCAA-CGCGAAATGAA
2109654 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
2109673 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
2109692 AATCGCAATGCGA
1 AATCGCAACGCGA
2109705 TTTTGGTTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 48 0.74
20 17 0.26
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:2109669 original size:39 final size:38
Alignment explanation
Indices: 2109615--2109704 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
2109605 GTGACCAGAC
2109615 AATCGCAACGCGAAATGAAAATCGCAACCGCAAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCAAAATAAA
* *
2109654 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
*
2109692 AATCGCAATGCGA
1 AATCGCAACGCGA
2109705 TTTTGGTTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCAAAATAAA
Found at i:2109733 original size:19 final size:19
Alignment explanation
Indices: 2109700--2109780 Score: 73
Period size: 19 Copynumber: 4.5 Consensus size: 19
2109690 AAAATCGCAA
**
2109700 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
2109719 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
2109738 TGCGA---TTA--TCTCGT
1 TGCGATTTTTATTTCGCGT
**
2109752 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
2109772 TGCGATTTT
1 TGCGATTTT
2109781 CATTCTCGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
14 10 0.20
16 3 0.06
17 3 0.06
19 23 0.46
20 11 0.22
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.47
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:2110342 original size:20 final size:20
Alignment explanation
Indices: 2110294--2110333 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2110284 GCGCTATGTA
2110294 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2110314 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
2110334 TATCTCGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:2110380 original size:20 final size:20
Alignment explanation
Indices: 2110355--2110408 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
2110345 GATTTTGTAT
2110355 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
2110375 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
2110395 TATCGCATTGCGAT
1 TATCGCATTGCGAT
2110409 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:2110409 original size:61 final size:61
Alignment explanation
Indices: 2110295--2110411 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
2110285 CGCTATGTAA
* * * * *
2110295 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTACGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
* * * *
2110356 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT
2110412 CCCAATTCGC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTGTATT
Found at i:2110427 original size:61 final size:61
Alignment explanation
Indices: 2110295--2110429 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
2110285 CGCTATGTAA
* * * * * ** *
2110295 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTACGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
* * * *
2110356 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT-CCAAT
2110418 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
2110430 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAAT
Found at i:2117654 original size:28 final size:28
Alignment explanation
Indices: 2117622--2117678 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
2117612 GTCTTTATTT
*
2117622 ACATTATGTTGTCGAGCCAGTGCTTGAA
1 ACATTATGCTGTCGAGCCAGTGCTTGAA
2117650 ACATTATGCTGTCGAGCCAGTGCTTGAA
1 ACATTATGCTGTCGAGCCAGTGCTTGAA
2117678 A
1 A
2117679 GCAACGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (28 bp):
ACATTATGCTGTCGAGCCAGTGCTTGAA
Found at i:2117727 original size:26 final size:26
Alignment explanation
Indices: 2117691--2117745 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
2117681 AACGACAATG
2117691 TTAGTAGATATCACTGAAATATGATT
1 TTAGTAGATATCACTGAAATATGATT
2117717 TTAGTAGATATCACTGAAATATGATT
1 TTAGTAGATATCACTGAAATATGATT
2117743 TTA
1 TTA
2117746 TCACTGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (26 bp):
TTAGTAGATATCACTGAAATATGATT
Found at i:2117749 original size:19 final size:19
Alignment explanation
Indices: 2117725--2117767 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
2117715 TTTTAGTAGA
2117725 TATCACTGAAATATGATTT
1 TATCACTGAAATATGATTT
2117744 TATCACTGAAATATGATTT
1 TATCACTGAAATATGATTT
2117763 TATCA
1 TATCA
2117768 TATCATAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (19 bp):
TATCACTGAAATATGATTT
Found at i:2118009 original size:161 final size:161
Alignment explanation
Indices: 2117744--2118055 Score: 624
Period size: 161 Copynumber: 1.9 Consensus size: 161
2117734 AATATGATTT
2117744 TATCACTGAAATATGATTTTATCATATCATAGTCAACATGTTAAAGTCCAACCCAAACCGTCGTT
1 TATCACTGAAATATGATTTTATCATATCATAGTCAACATGTTAAAGTCCAACCCAAACCGTCGTT
2117809 AATTTTTTAACGAAAAAGTACAAGTTTTGAATATATGAACAGTCAAGTGACTGTTTTGTAACTTT
66 AATTTTTTAACGAAAAAGTACAAGTTTTGAATATATGAACAGTCAAGTGACTGTTTTGTAACTTT
2117874 CAATAGCTAGGGACTCAACAATGTTAGTAGA
131 CAATAGCTAGGGACTCAACAATGTTAGTAGA
2117905 TATCACTGAAATATGATTTTATCATATCATAGTCAACATGTTAAAGTCCAACCCAAACCGTCGTT
1 TATCACTGAAATATGATTTTATCATATCATAGTCAACATGTTAAAGTCCAACCCAAACCGTCGTT
2117970 AATTTTTTAACGAAAAAGTACAAGTTTTGAATATATGAACAGTCAAGTGACTGTTTTGTAACTTT
66 AATTTTTTAACGAAAAAGTACAAGTTTTGAATATATGAACAGTCAAGTGACTGTTTTGTAACTTT
2118035 CAATAGCTAGGGACTCAACAA
131 CAATAGCTAGGGACTCAACAA
2118056 AGCAACGTCC
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 151 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (161 bp):
TATCACTGAAATATGATTTTATCATATCATAGTCAACATGTTAAAGTCCAACCCAAACCGTCGTT
AATTTTTTAACGAAAAAGTACAAGTTTTGAATATATGAACAGTCAAGTGACTGTTTTGTAACTTT
CAATAGCTAGGGACTCAACAATGTTAGTAGA
Found at i:2121193 original size:393 final size:383
Alignment explanation
Indices: 2120275--2121365 Score: 1412
Period size: 393 Copynumber: 2.8 Consensus size: 383
2120265 GCAAGGAGAC
* * * * * * * *
2120275 GCCACCGTGAGTTGTGGCCAAGTTAGAAGTTCATTGGCGAAGTGCGTTCCTTTCCTTACCGGTGC
1 GCCACCGTGAGTTGTGACCAAGTTAGAGGTACATTGGTGCACTGCGTTCCTTTCCTTATCGGTAC
* * *
2120340 TCAAGCGGTTCCTACGGCTGATTGTTGTAGTGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
66 TCAAGCGGTTCCTACGGCTGACTGATGTAGCGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
*
2120405 CCGCGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTAGTATGCCCTCCATC---
131 CCGCGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTAGTATGCCATCCATCAAG
* *
2120467 ----GCG--GCATCTCTCCCAGCCGAGTGCAACGTTCAATTTAATTTCCCCATCTCCAAAAACAC
196 AGATGCGCCGCATCTCTCCCGGCCAAGTGCAACGTTCAATTTAATTTCCCCATCTCC-AAAACAC
* ** * *
2120526 CGATTGCAAAAAGTGAGTTCATCATCTTCGCTTCTTTTAGATTTTTTTTATAAACCTTAACATTA
260 CGATTGCAAAGAGTGAGTTCATCATCTTCGCTTC-TTTA-A--CATTTTATAAACCTCAACACTA
* * * * *
2120591 TAGGATGCTTAATGACTAATGTTTCCTTCGCTTTGTTTGTAAATTGAAAGTATTCAAGAGCAG
321 TAGGATGCTTAATAACCAATCTTTCCTTCGCCTTGTTTGTAAATTGAAAGTATCCAAGAGCAG
* *
2120654 GCCACCGTAAGTTGTGACCAAGTTAGAGGTACATTGGTGCACTGCGTTCTTTTCC-TATCGGTAC
1 GCCACCGTGAGTTGTGACCAAGTTAGAGGTACATTGGTGCACTGCGTTCCTTTCCTTATCGGTAC
2120718 TCAAGCGGTTCCTACGGCTGACTGATGTAGCGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
66 TCAAGCGGTTCCTACGGCTGACTGATGTAGCGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
* *
2120783 CCGCGGACAAACAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTACTATGCCATCCATCAAG
131 CCGCGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTAGTATGCCATCCATCAA-
* * *
2120848 GATGATGCAGCCGCATCTCTCCCGGCCAAGTGCAATGTTCAAGTTAGTTTCCCCATCTCCAGAAA
195 GA-GATGC-GCCGCATCTCTCCCGGCCAAGTGCAACGTTCAATTTAATTTCCCCATCTCCA-AAA
*
2120913 CACCGATTGCAAAGAGTGAGTTCATCATCTTCGCTTCTTTAACAATTTTATAAAGCTCAACACTA
257 CACCGATTGCAAAGAGTGAGTTCATCATCTTCGCTTCTTTAAC-ATTTTATAAACCTCAACACTA
* ** *
2120978 TA-GATTGCTTAATATAATAACCAATCTTTCCTTCGCCTTGTTTGTAACTTGTTAGTATCCGAGA
321 TAGGA-TGC----T-TAATAACCAATCTTTCCTTCGCCTTGTTTGTAAATTGAAAGTATCCAAGA
*
2121042 GCCG
380 GCAG
* *
2121046 GCCACTGTGAGTTGTGACCGAGTTAGAGGTACATTGGTGCACTGCGTTCCTTTCCTTATCGGTAC
1 GCCACCGTGAGTTGTGACCAAGTTAGAGGTACATTGGTGCACTGCGTTCCTTTCCTTATCGGTAC
* * * * *
2121111 TCAAGAGGTTCCTACGGCTGACTGCTGTAGCGGCGTGTCGAGACTCCAGACCATGGCCACAACCA
66 TCAAGCGGTTCCTACGGCTGACTGATGTAGCGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
* * *
2121176 CCACGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCGGCTAGTATGCCATCAATCAAA
131 CCGCGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTAGTATGCCATCCATC-AA
* *
2121241 GAAGATGCCGCCGCATCTCTCCCGACCAAGTGCAACGTTCTATTTAATTTCCCCATCTCCAAGAA
195 G-AGATG-CGCCGCATCTCTCCCGGCCAAGTGCAACGTTCAATTTAATTTCCCCATCTCCAA-AA
* * ** * * *
2121306 CACGGACTGCAGGGCGTGAGTTCATCATCTTCGCTTCTTTTACATTTTCGTAAACCTCAA
257 CACCGATTGCAAAGAGTGAGTTCATCATCTTCGCTTCTTTAACATTTT-ATAAACCTCAA
2121366 AACTGTATAA
Statistics
Matches: 622, Mismatches: 64, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
378 128 0.21
379 47 0.08
386 2 0.00
387 24 0.04
388 2 0.00
389 5 0.01
390 82 0.13
391 1 0.00
392 101 0.16
393 226 0.36
394 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (383 bp):
GCCACCGTGAGTTGTGACCAAGTTAGAGGTACATTGGTGCACTGCGTTCCTTTCCTTATCGGTAC
TCAAGCGGTTCCTACGGCTGACTGATGTAGCGGCGTGTCGAGACTCCAGACCATCGCCACTACAA
CCGCGGACAAGCAGGCGGCTTGCAACTGCGTTAAAGACACCGCCGCTAGTATGCCATCCATCAAG
AGATGCGCCGCATCTCTCCCGGCCAAGTGCAACGTTCAATTTAATTTCCCCATCTCCAAAACACC
GATTGCAAAGAGTGAGTTCATCATCTTCGCTTCTTTAACATTTTATAAACCTCAACACTATAGGA
TGCTTAATAACCAATCTTTCCTTCGCCTTGTTTGTAAATTGAAAGTATCCAAGAGCAG
Found at i:2124720 original size:10 final size:11
Alignment explanation
Indices: 2124702--2124734 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
2124692 AATATGCATC
2124702 TCTTTTTCTTT
1 TCTTTTTCTTT
2124713 TC-TTTTCTTT
1 TCTTTTTCTTT
2124723 TCTTTTTCTTT
1 TCTTTTTCTTT
2124734 T
1 T
2124735 TCGTCTCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:2124736 original size:6 final size:5
Alignment explanation
Indices: 2124705--2124734 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
2124695 ATGCATCTCT
2124705 TTTTC TTTTC TTTTC TTTTC TTTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC -TTTTC TTTT
2124735 TCGTCTCGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:2128995 original size:60 final size:60
Alignment explanation
Indices: 2128863--2128995 Score: 135
Period size: 60 Copynumber: 2.2 Consensus size: 60
2128853 TATAAATAGT
* * * * * *
2128863 TAGG-TGACAATTTTATAACTTTTAATTGTCAAAAGACTTAACAAAACAATATCTTATAA
1 TAGGATGACCATTTTATAACTTTTAATAGTCAAAAGACTCAACAAAACAAAATCCTAAAA
* * * * * *
2128922 TTGAAAGATCATTTTATAATTTTTAATAGT-AAAATGACTCAACAAAATAAAATCCTAAAA
1 TAGGATGACCATTTTATAACTTTTAATAGTCAAAA-GACTCAACAAAACAAAATCCTAAAA
2128982 TAGGATGACCATTT
1 TAGGATGACCATTT
2128996 GCATACTTTA
Statistics
Matches: 56, Mismatches: 16, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
59 6 0.11
60 50 0.89
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.35
Consensus pattern (60 bp):
TAGGATGACCATTTTATAACTTTTAATAGTCAAAAGACTCAACAAAACAAAATCCTAAAA
Found at i:2132475 original size:27 final size:26
Alignment explanation
Indices: 2132413--2132479 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
2132403 ATATTATGTT
* *
2132413 AAGAGGATAAATTTATAAAATTTTAA
1 AAGAAGATAAATATATAAAATTTTAA
* * *
2132439 AATAAAATAAATATATAAAATTTTTAG
1 AAGAAGATAAATATATAAAA-TTTTAA
*
2132466 AAGATGATAAATAT
1 AAGAAGATAAATAT
2132480 TAGAAAAAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 16 0.50
27 16 0.50
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (26 bp):
AAGAAGATAAATATATAAAATTTTAA
Found at i:2132535 original size:26 final size:24
Alignment explanation
Indices: 2132485--2132535 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
2132475 AATATTAGAA
***
2132485 AAAATATAAAATTTTAAATTTATT
1 AAAATATAAAATTTTAAAGAGATT
2132509 AAAATATAAAATATTTAAGAGAGATT
1 AAAATATAAAAT-TTTAA-AGAGATT
2132535 A
1 A
2132536 TCATTCTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 12 0.55
25 5 0.23
26 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
AAAATATAAAATTTTAAAGAGATT
Found at i:2133317 original size:23 final size:23
Alignment explanation
Indices: 2133291--2133345 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
2133281 TGTTGATGCT
2133291 CCATCAGTTCGGGTGGTTTCCGA
1 CCATCAGTTCGGGTGGTTTCCGA
2133314 CCATCAGTTCGGGTGGTTTCCGA
1 CCATCAGTTCGGGTGGTTTCCGA
2133337 CCATCAGTT
1 CCATCAGTT
2133346 GTTGTATCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.15, C:0.27, G:0.27, T:0.31
Consensus pattern (23 bp):
CCATCAGTTCGGGTGGTTTCCGA
Found at i:2135046 original size:21 final size:21
Alignment explanation
Indices: 2134983--2135048 Score: 114
Period size: 21 Copynumber: 3.1 Consensus size: 21
2134973 ATTATCCAAA
*
2134983 AAACTTGAAATCCATAACAAC
1 AAACTTGAAATCCATAACAAT
2135004 AAACTTGAAATCCATAACAAT
1 AAACTTGAAATCCATAACAAT
*
2135025 AAACTTGAAATCCATAATAAT
1 AAACTTGAAATCCATAACAAT
2135046 AAA
1 AAA
2135049 TCAAAGTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.23
Consensus pattern (21 bp):
AAACTTGAAATCCATAACAAT
Found at i:2143032 original size:33 final size:33
Alignment explanation
Indices: 2142995--2143067 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
2142985 CACTCAAAAC
* *
2142995 AATAAATTGTAATATATATTATAGCACCCAAAT
1 AATAAAATGTAATATATATCATAGCACCCAAAT
2143028 AATAAAATGTAATATATATCATAGCACCCAAAT
1 AATAAAATGTAATATATATCATAGCACCCAAAT
2143061 AATAAAA
1 AATAAAA
2143068 ATGTGAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.29
Consensus pattern (33 bp):
AATAAAATGTAATATATATCATAGCACCCAAAT
Found at i:2146010 original size:45 final size:46
Alignment explanation
Indices: 2145925--2146012 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
2145915 AAAAAGCCTG
* *
2145925 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
2145971 AGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
2146013 TTCGATGTTC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.55
46 18 0.45
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
Found at i:2146432 original size:15 final size:15
Alignment explanation
Indices: 2146412--2146443 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
2146402 TACTCCAAAT
2146412 TACTCCCCCTTACTA
1 TACTCCCCCTTACTA
2146427 TACTCCCCCTTACTA
1 TACTCCCCCTTACTA
2146442 TA
1 TA
2146444 ACACTTATCC
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:0.22, C:0.44, G:0.00, T:0.34
Consensus pattern (15 bp):
TACTCCCCCTTACTA
Found at i:2146476 original size:16 final size:16
Alignment explanation
Indices: 2146457--2146497 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
2146447 CTTATCCCCT
*
2146457 TTAAAACTTTTAACAC
1 TTAACACTTTTAACAC
2146473 TTAACACTTTTAACAC
1 TTAACACTTTTAACAC
2146489 TTAACACTT
1 TTAACACTT
2146498 CTCTATTGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAACACTTTTAACAC
Found at i:2155708 original size:16 final size:17
Alignment explanation
Indices: 2155687--2155720 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
2155677 ATCCGAGTGT
2155687 AACATTAACTTTT-CAA
1 AACATTAACTTTTACAA
2155703 AACATTAACTTTTACAA
1 AACATTAACTTTTACAA
2155720 A
1 A
2155721 TAATGAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (17 bp):
AACATTAACTTTTACAA
Found at i:2160319 original size:166 final size:166
Alignment explanation
Indices: 2160045--2160377 Score: 657
Period size: 166 Copynumber: 2.0 Consensus size: 166
2160035 TAATGTGCTT
2160045 ATTGGTTTAAGGTTTTTGTTTTAATTATTAACTGGGAATTGCATCGCTTATTTCTTCCCCCAAAA
1 ATTGGTTTAAGGTTTTTGTTTTAATTATTAACTGGGAATTGCATCGCTTATTTCTTCCCCCAAAA
2160110 CCCTAACCTGTAAGTATATTGGCTTTTAACGCAGATAGCTGAAGTGATTTAATCATGTGTGAGCG
66 CCCTAACCTGTAAGTATATTGGCTTTTAACGCAGATAGCTGAAGTGATTTAATCATGTGTGAGCG
2160175 CTTTCCAAGGTACTCTGTCTACACCAACTATTATGA
131 CTTTCCAAGGTACTCTGTCTACACCAACTATTATGA
*
2160211 ATTGGTTTAAGGTTTTTGTTTTATTTATTAACTGGGAATTGCATCGCTTATTTCTTCCCCCAAAA
1 ATTGGTTTAAGGTTTTTGTTTTAATTATTAACTGGGAATTGCATCGCTTATTTCTTCCCCCAAAA
2160276 CCCTAACCTGTAAGTATATTGGCTTTTAACGCAGATAGCTGAAGTGATTTAATCATGTGTGAGCG
66 CCCTAACCTGTAAGTATATTGGCTTTTAACGCAGATAGCTGAAGTGATTTAATCATGTGTGAGCG
2160341 CTTTCCAAGGTACTCTGTCTACACCAACTATTATGA
131 CTTTCCAAGGTACTCTGTCTACACCAACTATTATGA
2160377 A
1 A
2160378 GTTCTTGGTG
Statistics
Matches: 166, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 166 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (166 bp):
ATTGGTTTAAGGTTTTTGTTTTAATTATTAACTGGGAATTGCATCGCTTATTTCTTCCCCCAAAA
CCCTAACCTGTAAGTATATTGGCTTTTAACGCAGATAGCTGAAGTGATTTAATCATGTGTGAGCG
CTTTCCAAGGTACTCTGTCTACACCAACTATTATGA
Found at i:2162526 original size:17 final size:17
Alignment explanation
Indices: 2162486--2162534 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
2162476 TTATTATAAT
* *
2162486 TATAATGATTAAAGATTA
1 TATAATAATTAAA-TTTA
*
2162504 TTTAATAATTAAATTTA
1 TATAATAATTAAATTTA
*
2162521 TATAATAAATAAAT
1 TATAATAATTAAAT
2162535 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (17 bp):
TATAATAATTAAATTTA
Found at i:2165254 original size:2 final size:2
Alignment explanation
Indices: 2165187--2165234 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
2165177 CTAAATTTCA
2165187 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
2165229 AT AT AT
1 AT AT AT
2165235 CCAAATTTCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2175340 original size:31 final size:31
Alignment explanation
Indices: 2175297--2175357 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
2175287 GATAATATAA
* *
2175297 TAATTATTTTATAGT-ATTTAGATAAATTTAT
1 TAATAATTTTATAATCATTTA-ATAAATTTAT
*
2175328 TAATAATTTTATAATCTTTTAATAAATTTA
1 TAATAATTTTATAATCATTTAATAAATTTA
2175358 ATAAGTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (31 bp):
TAATAATTTTATAATCATTTAATAAATTTAT
Found at i:2175341 original size:20 final size:20
Alignment explanation
Indices: 2175318--2175385 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 20
2175308 TAGTATTTAG
2175318 ATAAAT-TTATTAATAATTTT
1 ATAAATCTT-TTAATAATTTT
*
2175338 AT-AATCTTTTAATAAATTTA
1 ATAAATCTTTTAAT-AATTTT
* *
2175358 ATAAGTGTTTT-ATAATTTT
1 ATAAATCTTTTAATAATTTT
*
2175377 TTAAA-CTTT
1 ATAAATCTTT
2175386 ATTTACGAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 16 0.42
20 13 0.34
21 6 0.16
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
ATAAATCTTTTAATAATTTT
Found at i:2175351 original size:19 final size:20
Alignment explanation
Indices: 2175327--2175376 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
2175317 GATAAATTTA
2175327 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTCTT
* *
2175346 TTAATAAATTTAATAAGTGTT
1 TTAAT-AATTTTATAAGTCTT
2175367 TT-ATAATTTT
1 TTAATAATTTT
2175377 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTCTT
Found at i:2176158 original size:31 final size:31
Alignment explanation
Indices: 2176100--2176167 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
2176090 TAAATAAAGT
*
2176100 TTAAAAAATTATAAAACACTTATTAAATTTA
1 TTAAAAAATTATAAAACACTTAATAAATTTA
* *
2176131 TTAAAAGATTATAAAATTA-TTAATAAATTTA
1 TTAAAAAATTATAAAA-CACTTAATAAATTTA
2176162 TCTAAA
1 T-TAAA
2176168 TACTATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 27 0.84
32 5 0.16
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.40
Consensus pattern (31 bp):
TTAAAAAATTATAAAACACTTAATAAATTTA
Found at i:2176162 original size:20 final size:20
Alignment explanation
Indices: 2176099--2176162 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
2176089 GTAAATAAAG
*
2176099 TTTAAAAAATTA-TAAAACA
1 TTTATAAAATTATTAAAACA
* * *
2176118 CTTATTAAATTTATTAAAAGA
1 TTTA-TAAAATTATTAAAACA
2176139 -TTATAAAATTATTAATAA-A
1 TTTATAAAATTATTAA-AACA
2176158 TTTAT
1 TTTAT
2176163 CTAAATACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
19 15 0.42
20 15 0.42
21 6 0.17
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (20 bp):
TTTATAAAATTATTAAAACA
Found at i:2176175 original size:31 final size:31
Alignment explanation
Indices: 2176100--2176183 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
2176090 TAAATAAAGT
* * * * *
2176100 TTAAAAAATTATAAAACACTTATTAAATTTA
1 TTAAAAGACTATAAAATAATTAATAAATTTA
* *
2176131 TTAAAAGATTATAAAATTATTAATAAATTTA
1 TTAAAAGACTATAAAATAATTAATAAATTTA
*
2176162 TCT-AAATACTATAAAATAATTA
1 T-TAAAAGACTATAAAATAATTA
2176184 TTATATTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 43 0.98
32 1 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (31 bp):
TTAAAAGACTATAAAATAATTAATAAATTTA
Found at i:2185162 original size:50 final size:51
Alignment explanation
Indices: 2185041--2185167 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
2185031 TTAGTAGTAA
* **
2185041 AGCGCGCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCAACGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* *
2185092 AGCACGCCCCCTG-AACCGCGCTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCCTGCAA-CGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
*
2185142 AGCGCGGCCCCTGCAACGCGCTATAC
1 AGCGCGCCCCCTGCAACGCGCTATAC
2185168 CTGTATATCT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
50 28 0.42
51 39 0.58
ACGTcount: A:0.17, C:0.35, G:0.31, T:0.17
Consensus pattern (51 bp):
AGCGCGCCCCCTGCAACGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:2185310 original size:20 final size:19
Alignment explanation
Indices: 2185279--2185317 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
2185269 TTATCACACC
*
2185279 AAATTTTCTCAAATTCTCT
1 AAATTTTCTCAAATACTCT
2185298 AAATTTCTCTCAAATACTCT
1 AAATTT-TCTCAAATACTCT
2185318 CTTTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTTTCTCAAATACTCT
Found at i:2185367 original size:13 final size:14
Alignment explanation
Indices: 2185339--2185367 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2185329 ATATTTTATA
2185339 ATGTTTTTACTATT
1 ATGTTTTTACTATT
2185353 ATGTTTTTACT-TT
1 ATGTTTTTACTATT
2185366 AT
1 AT
2185368 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (14 bp):
ATGTTTTTACTATT
Found at i:2187428 original size:3 final size:3
Alignment explanation
Indices: 2187420--2187450 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
2187410 ACCTGCGCAA
*
2187420 GAC GAC GAC GAC GAC GAC GAC GAC GAT GAC G
1 GAC GAC GAC GAC GAC GAC GAC GAC GAC GAC G
2187451 GTGATGATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.29, G:0.35, T:0.03
Consensus pattern (3 bp):
GAC
Done.