Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008298.1 Hibiscus syriacus cultivar Beakdansim tig00110984_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: 1334650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:821362 original size:165 final size:165
Alignment explanation
Indices: 821070--821870 Score: 719
Period size: 165 Copynumber: 4.8 Consensus size: 165
821060 GTTTATACGC
* * * * * * * * *
821070 CCTC-AAGCTAAATGAAATCAAACTCGAAGGTC-TTTGGTAGATAGCCCTTCTTGCCTTGAGCTA
1 CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGGAAGATAACCCTTCTCGACTTAAGTTA
* * * *
821133 TGCTGCAAATGATGGTGCCTTTGAGCTGAGTAG-AGTCGAACTTGAAGGTCTTT-GTTGACAGAT
66 TGCTGCAAATGAT-GTGCCTTGGAGCTGAG-CGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGAT
* * * *
821196 AACCCTTCTAGCCTTGAGTTAT-GTCGTAAATGATGTG
129 AACCCTTCTAGACTTAAGTTATACT-GCAAATGATGTG
* * * *
821233 CTCTCGAAGCTAAGTGTAATCGAACTCGAGGGTC-TTTGGAAGATAGCCCTTATCGACTTAAGCT
1 C-CTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGGAAGATAACCCTTCTCGACTTAAGTT
821297 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATA
65 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATA
* * * *
821362 ACCCTTCTCGACTTAAATTATGCTGCAAATGATATG
130 ACCCTTCTAGACTTAAGTTATACTGCAAATGATGTG
* * * * * * * * *
821398 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAG
1 CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGG--A-AGATAACCCTTCTCGACTTAAG
** * * * * *
821463 TTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTC--T--TTGGCAG
63 TTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAG
* *
821524 ATAGCCCTTCTCGACTTAAGTTATACTGCAAATGATGTG
127 ATAACCCTTCTAGACTTAAGTTATACTGCAAATGATGTG
* * * * * * *
821563 CCTTTG-AGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAA
1 CC-TCGAAGCTAAGTGTAATCGAACTCGAAGGTC-TT--TTGGAAGATAACCCTTCTCGACTTAA
* * * **
821627 GTTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTTGG-TCACA
62 GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCA
* * ** *
821691 GATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTTC
126 GATAACCCTTCTAGACTTAAGTTATACTGCAAATGATG-TG
* * * * * **
821732 CCTCGAAGCTAAGTGTAATAGAACTTGAGGGTTTTCGGTTGGCAGATAACCCTTCTTAACTTAAG
1 CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTT---TTGGAAGATAACCCTTCTCGACTTAAG
* * *
821797 TTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGCCTTTGGTGGGCACG
63 TTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCA-G
821862 AT-ACCCTTC
127 ATAACCCTTC
821871 GTCGTGAAGT
Statistics
Matches: 526, Mismatches: 88, Indels: 42
0.80 0.13 0.06
Matches are distributed among these distances:
163 2 0.00
164 90 0.17
165 208 0.40
166 6 0.01
167 3 0.01
168 82 0.16
169 132 0.25
170 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.30
Consensus pattern (165 bp):
CCTCGAAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGGAAGATAACCCTTCTCGACTTAAGTTA
TGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAA
CCCTTCTAGACTTAAGTTATACTGCAAATGATGTG
Found at i:821555 original size:249 final size:249
Alignment explanation
Indices: 821090--821870 Score: 1110
Period size: 249 Copynumber: 3.1 Consensus size: 249
821080 AATGAAATCA
* * * * * *
821090 AACTCGAAGGTCTTTGG-T---AGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGAT-ATGC
* * * * *
821151 CTTTGAGCTGAGTAG-AGTCGAACTTGAAGGTC-TTTGTTGACAGATAACCCTTCTAGCCTTGAG
65 CTTGGAGCTGAG-CGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAG
* * *
821214 TTATG-TCGTAAATGATGTGCTCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGAAGATA
129 TTATGCT-ATAAATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGCAGATA
* *
821278 GCCCTTATCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
193 GCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
*
821335 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAATTATGCTGCAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
*
821400 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTATAGCCTTGAGTT
66 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTT
*
821465 ATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCC
131 ATGCTATAAATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCC
* * *
821530 CTTCTCGACTTAAGTTATACTGCAAATGATGTGCCTTTGAGTTGAGCGTAGTCG
196 CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* *
821584 AACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
1 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
*
821649 TTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTT
66 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTT
* * * * *
821714 ATACTATAAATGATGTTCCCTCGAAGCTAAGTGTAATAGAACTTGAGGGTTTTCGGTTGGCAGAT
131 ATGCTATAAATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAGGG---TC-TTTGGCAGAT
* ** *
821779 AACCCTTCTTAACTTAAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
192 AGCCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
* *
821837 AACTCGAAGGCCTTTGGTGGGCACGAT-ACCCTTC
1 AACTCGAAGGTCTTTGGTTGGCA-GATAACCCTTC
821871 GTCGTGAAGT
Statistics
Matches: 481, Mismatches: 43, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
245 17 0.04
246 1 0.00
247 1 0.00
248 30 0.06
249 339 0.70
250 1 0.00
252 2 0.00
253 87 0.18
254 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.31
Consensus pattern (249 bp):
AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCC
TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTT
ATGCTATAAATGATGTGCCCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCC
CTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
Found at i:821828 original size:333 final size:331
Alignment explanation
Indices: 821103--821853 Score: 782
Period size: 333 Copynumber: 2.3 Consensus size: 331
821093 TCGAAGGTCT
* * * * * *
821103 TTGGTAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGGTGCCTTTGAGCTGAGTAG-A
1 TTGGCAGATAACCCTTCTTACCTTGAGTTATGCTACAAATGAT-GTGCCTTGGAGCTGAGT-GTA
* * * * *
821167 GTCGAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTCGTAAATGATGT
64 GTCGAACTCGAAGGTCTTTG--GACAGATAACCCTTCTAGACTTAAGTTATCTCGCAAATGATGT
* * *
821232 GCTCTCGAAGCTAAGTGTAATCGAACTCGAGGGTCTTTGGAAGATAGCCCTTATCGACTTAAGCT
127 GCTCTCGAAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTATCGACTTAAGCT
* * * **
821297 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATA
192 ATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTGGTTCACAGATA
* * * * * * * * *
821362 ACCCTTCTCGACTTAAATTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
257 ACCCTTCTAGACTTAAATTATACTACAAATGATATCCCTCGAAGCTAAGCGTAATAGAACTCGAA
*
821427 GGTCTTTTGG
322 GGTCTTTCGG
** * * * *
821437 -TCACAGATAACCCTT-ATAGCCTTGAGTTATGCTATAAATGATGTGCCCTCGAAGCTGAGTGTA
1 TTGGCAGATAACCCTTCTTA-CCTTGAGTTATGCTACAAATGATGTG-CCTTGGAGCTGAGTGTA
* * * *
821500 ATCGAACTCGAGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGTTATACT-GCAAATGATGTG
64 GTCGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTAAGTTAT-CTCGCAAATGATGTG
* * * * * * *
821563 C-CTTTG-AGTTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTA
128 CTC-TCGAAGCTAAGCGTAATCGAACTCGAAGGTC--T--TTGGAAGATAACCCTTATCGACTTA
*
821626 AGTTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTTGG-TCAC
188 AGCTATACTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTC-TTTGGTTCAC
* * * * * *
821690 AGATAACCCTTCTAGCCTTGAGTTATACTATAAATGATGTTCCCTCGAAGCTAAGTGTAATAGAA
252 AGATAACCCTTCTAGACTTAAATTATACTACAAATGAT-ATCCCTCGAAGCTAAGCGTAATAGAA
* *
821755 CTTGAGGGT-TTTCGG
316 CTCGAAGGTCTTTCGG
* * *
821770 TTGGCAGATAACCCTTCTTAACTTAAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTTACCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGTGTAGT
*
821835 CGAACTCGAAGGCCTTTGG
66 CGAACTCGAAGGTCTTTGG
821854 TGGGCACGAT
Statistics
Matches: 337, Mismatches: 67, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
329 23 0.07
330 37 0.11
331 3 0.01
332 5 0.01
333 201 0.60
334 66 0.20
335 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (331 bp):
TTGGCAGATAACCCTTCTTACCTTGAGTTATGCTACAAATGATGTGCCTTGGAGCTGAGTGTAGT
CGAACTCGAAGGTCTTTGGACAGATAACCCTTCTAGACTTAAGTTATCTCGCAAATGATGTGCTC
TCGAAGCTAAGCGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTATCGACTTAAGCTATAC
TGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGAAATCGAAGGTCTTTGGTTCACAGATAACCC
TTCTAGACTTAAATTATACTACAAATGATATCCCTCGAAGCTAAGCGTAATAGAACTCGAAGGTC
TTTCGG
Found at i:822224 original size:110 final size:110
Alignment explanation
Indices: 822084--822519 Score: 775
Period size: 110 Copynumber: 4.0 Consensus size: 110
822074 TCGCTGTGAA
*
822084 GTTGTCTCGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
1 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
* *
822149 GTTTGTTGACAGTCAGTCACCCCTTAGCTGTGAAGTTGAGCTTGT
66 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGT
*
822194 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAATTGAAATTGACTCTGAATGAAACTGAAAAGTT
1 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
*
822259 GTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGT
66 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGT
*
822304 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTT
1 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
*
822369 GTTTGTTGACAGTCAGTCGCCCCTTCGTTGTGAAGTTGAGCTTGT
66 GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGT
* *
822414 GTTGTATCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAATTGAAAAGTT
1 GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
822479 GTTTGTTGATC-GTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 GTTTGTTGA-CAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
822520 AACCACCATC
Statistics
Matches: 312, Mismatches: 13, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
110 311 1.00
111 1 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (110 bp):
GTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAAAGTT
GTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGCTTGT
Found at i:825111 original size:5 final size:5
Alignment explanation
Indices: 825101--825134 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
825091 GCAAGTGATG
825101 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
825135 ATGAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:833111 original size:21 final size:20
Alignment explanation
Indices: 833086--833139 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
833076 ATTTTTGGCT
**
833086 CAAAGGATCGATCCTTTTGA
1 CAAAGGATCGATCCCCTTGA
*
833106 CCAAAGGATTGATCCCCTTGA
1 -CAAAGGATCGATCCCCTTGA
*
833127 AAAAGGATCGATC
1 CAAAGGATCGATC
833140 TGTTGAATTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 11 0.39
21 17 0.61
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (20 bp):
CAAAGGATCGATCCCCTTGA
Found at i:833200 original size:20 final size:20
Alignment explanation
Indices: 833162--833200 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
833152 AAACCTTTTG
**
833162 GATCGATCCCTTGAGGAAAT
1 GATCGATCCCTCAAGGAAAT
*
833182 GATCGATCCCTCAATGAAA
1 GATCGATCCCTCAAGGAAA
833201 AGGATTGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (20 bp):
GATCGATCCCTCAAGGAAAT
Found at i:834365 original size:15 final size:14
Alignment explanation
Indices: 834344--834377 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
834334 CATGGAGTCT
834344 CATATCTCATTATCA
1 CATATCTCA-TATCA
*
834359 GATATCTCATATCA
1 CATATCTCATATCA
834373 CATAT
1 CATAT
834378 TCTTGTATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (14 bp):
CATATCTCATATCA
Found at i:834568 original size:6 final size:6
Alignment explanation
Indices: 834557--834586 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
834547 TAACTTCTAG
834557 ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT
834587 GTACATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ACATAT
Found at i:834966 original size:18 final size:19
Alignment explanation
Indices: 834938--834973 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
834928 ATACTTCCCT
834938 AGCTATGGTATCGATACCA
1 AGCTATGGTATCGATACCA
*
834957 AGCT-TGGTATTGATACC
1 AGCTATGGTATCGATACC
834974 CACTATCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (19 bp):
AGCTATGGTATCGATACCA
Found at i:838344 original size:21 final size:21
Alignment explanation
Indices: 838314--838354 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
838304 CCGCGTAAAA
838314 ATGTCCCGAAGGACCACATAG
1 ATGTCCCGAAGGACCACATAG
*
838335 ATGTCTCGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
838355 TAACACATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (21 bp):
ATGTCCCGAAGGACCACATAG
Found at i:838398 original size:14 final size:14
Alignment explanation
Indices: 838379--838405 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
838369 CGAAGGACAC
838379 TCCTTAAAGACCAA
1 TCCTTAAAGACCAA
838393 TCCTTAAAGACCA
1 TCCTTAAAGACCA
838406 CATACATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.30, G:0.07, T:0.22
Consensus pattern (14 bp):
TCCTTAAAGACCAA
Found at i:838675 original size:15 final size:14
Alignment explanation
Indices: 838655--838688 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
838645 CATGAAGTCT
838655 TATATCTCATTATCA
1 TATATCTCA-TATCA
838670 TATATCTCATATCA
1 TATATCTCATATCA
*
838684 CATAT
1 TATAT
838689 TCTTGTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATCTCATATCA
Found at i:845805 original size:25 final size:26
Alignment explanation
Indices: 845751--845805 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
845741 AGATTAGAAC
**
845751 AAAATAAATAAAAGATAAAGAAATTG
1 AAAATAAATAAAAGATAAAGAAATAA
*
845777 AAAATAAA-ATAAGAT-AAGATAATAA
1 AAAATAAATAAAAGATAAAGA-AATAA
845802 AAAA
1 AAAA
845806 ATCAAAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 4 0.16
25 13 0.52
26 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (26 bp):
AAAATAAATAAAAGATAAAGAAATAA
Found at i:858445 original size:30 final size:30
Alignment explanation
Indices: 858411--858469 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
858401 GGAAGTATCA
*
858411 AAAT-CTTCTAACAGGGTTCTATGTTAAGTC
1 AAATCCTTCT-ACAGGATTCTATGTTAAGTC
*
858441 AAATCCTTCTACCGGATTCTATGTTAAGT
1 AAATCCTTCTACAGGATTCTATGTTAAGT
858470 AATTCACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (30 bp):
AAATCCTTCTACAGGATTCTATGTTAAGTC
Found at i:859595 original size:17 final size:18
Alignment explanation
Indices: 859562--859596 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
859552 AAATCTAATT
*
859562 TTTTATCTTATATTTTTA
1 TTTTATCTTATAATTTTA
859580 TTTTAT-TTATAATTTTA
1 TTTTATCTTATAATTTTA
859597 ACTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATCTTATAATTTTA
Found at i:863667 original size:84 final size:84
Alignment explanation
Indices: 863526--863693 Score: 264
Period size: 84 Copynumber: 2.0 Consensus size: 84
863516 TTAAAAAAAA
* * * * *
863526 TAGTTAGATGACCAAAATAGAACAAAAGTTATTGTAGAGATACTAAACATGTAGTTTACTCTTTA
1 TAGTTAGATGACCAAAACAGAACAAAAATGATAGTAGAGATACTAAACATGTAGTTTACCCTTTA
863591 TATTAATTTGTGACGTAAG
66 TATTAATTTGTGACGTAAG
* * *
863610 TAGTTAGATGATCAAAACATAACAAAAATGATAGTAGAGATACTAAACATGTAGTTTACCCTTTC
1 TAGTTAGATGACCAAAACAGAACAAAAATGATAGTAGAGATACTAAACATGTAGTTTACCCTTTA
863675 TATTAATTTGTGACGTAAG
66 TATTAATTTGTGACGTAAG
863694 AACTTACCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 76 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (84 bp):
TAGTTAGATGACCAAAACAGAACAAAAATGATAGTAGAGATACTAAACATGTAGTTTACCCTTTA
TATTAATTTGTGACGTAAG
Found at i:865333 original size:12 final size:12
Alignment explanation
Indices: 865316--865340 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
865306 GTTCTTAAGA
865316 GAAGATAATGAG
1 GAAGATAATGAG
865328 GAAGATAATGAG
1 GAAGATAATGAG
865340 G
1 G
865341 GTGACAGTGG
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:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (12 bp):
GAAGATAATGAG
Found at i:867466 original size:16 final size:16
Alignment explanation
Indices: 867447--867482 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
867437 TTCTTTGCAT
867447 CATCTATAGTTTGAAC
1 CATCTATAGTTTGAAC
867463 CATCTATAGTTTGAAC
1 CATCTATAGTTTGAAC
867479 CATC
1 CATC
867483 ACAACACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (16 bp):
CATCTATAGTTTGAAC
Found at i:869314 original size:17 final size:17
Alignment explanation
Indices: 869271--869321 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
869261 AGAATGTTTA
*
869271 TGAGAGAATTGGAATATG
1 TGAG-GAATTGGAATCTG
869289 TGAAGGAATTGGAATCTG
1 TG-AGGAATTGGAATCTG
*
869307 TGAGGAATTTGAATC
1 TGAGGAATTGGAATC
869322 CAATTCCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 12 0.40
18 16 0.53
19 2 0.07
ACGTcount: A:0.35, C:0.04, G:0.31, T:0.29
Consensus pattern (17 bp):
TGAGGAATTGGAATCTG
Found at i:869925 original size:28 final size:28
Alignment explanation
Indices: 869893--869957 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
869883 TAAACCAGAA
*
869893 CCGACCCGAATATCACATTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
*
869921 TCGACCCGAATATCACACTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAC
869949 CCGACCCGA
1 CCGACCCGA
869958 CTCGACCCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.43, C:0.32, G:0.09, T:0.15
Consensus pattern (28 bp):
CCGACCCGAATATCACACTTAAAAAAAC
Found at i:869992 original size:37 final size:38
Alignment explanation
Indices: 869919--869995 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
869909 ATTTAAAAAA
869919 ACTCGACCCGAATATCACACTTAAAAAAACCCGACCCG
1 ACTCGACCCGAATATCACACTTAAAAAAACCCGACCCG
869957 ACTCGACCCGAATATCACACTT-AAAAAACCCGACCCG
1 ACTCGACCCGAATATCACACTTAAAAAAACCCGACCCG
869994 AC
1 AC
869996 CCGAACAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
37 17 0.44
38 22 0.56
ACGTcount: A:0.39, C:0.38, G:0.10, T:0.13
Consensus pattern (38 bp):
ACTCGACCCGAATATCACACTTAAAAAAACCCGACCCG
Found at i:870572 original size:25 final size:25
Alignment explanation
Indices: 870544--870591 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
870534 AGGATTTTAA
870544 TCCCCCAATTCCAAGGAATTCCAAT
1 TCCCCCAATTCCAAGGAATTCCAAT
* *
870569 TCCCCCAATTTCAAGGGATTCCA
1 TCCCCCAATTCCAAGGAATTCCA
870592 TCCAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.35, G:0.10, T:0.25
Consensus pattern (25 bp):
TCCCCCAATTCCAAGGAATTCCAAT
Found at i:875039 original size:23 final size:21
Alignment explanation
Indices: 875008--875054 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
874998 ATATTGTCAT
875008 AATTTTTATTATAAAATTTAAA
1 AATTTTTATTA-AAAATTTAAA
**
875030 AATTCTTTATTAAACTTTTAAA
1 AATT-TTTATTAAAAATTTAAA
875052 AAT
1 AAT
875055 GTGAAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 15 0.68
23 7 0.32
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTTTATTAAAAATTTAAA
Found at i:876480 original size:17 final size:17
Alignment explanation
Indices: 876460--876498 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
876450 ATACCCGGAA
876460 AAAGTCAACGGCCGGTC
1 AAAGTCAACGGCCGGTC
*
876477 AAAGTCAACGGCTGGTC
1 AAAGTCAACGGCCGGTC
876494 AAAGT
1 AAAGT
876499 TCTGGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.15
Consensus pattern (17 bp):
AAAGTCAACGGCCGGTC
Found at i:882234 original size:18 final size:18
Alignment explanation
Indices: 882211--882254 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
882201 ATGTAACCCC
882211 CTAGACCCGGCCTGAACG
1 CTAGACCCGGCCTGAACG
882229 CTAGACCCGGCCTGAACG
1 CTAGACCCGGCCTGAACG
882247 CTAGACCC
1 CTAGACCC
882255 AAACCTAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.23, C:0.41, G:0.25, T:0.11
Consensus pattern (18 bp):
CTAGACCCGGCCTGAACG
Found at i:883668 original size:17 final size:19
Alignment explanation
Indices: 883646--883685 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
883636 GTGATCAACG
883646 ACGGTCAAC-T-CCGGTCA
1 ACGGTCAACATGCCGGTCA
*
883663 ACGGTCAACATGTCGGTCA
1 ACGGTCAACATGCCGGTCA
883682 ACGG
1 ACGG
883686 GTCGGGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 1 0.05
19 10 0.50
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (19 bp):
ACGGTCAACATGCCGGTCA
Found at i:883695 original size:13 final size:13
Alignment explanation
Indices: 883677--883701 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
883667 TCAACATGTC
883677 GGTCAACGGGTCG
1 GGTCAACGGGTCG
883690 GGTCAACGGGTC
1 GGTCAACGGGTC
883702 AGGTTGGGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.44, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:884508 original size:28 final size:28
Alignment explanation
Indices: 884465--884538 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
884455 GTTGTTATAA
* *
884465 ACAATTTGTTTCTAAATTACAA-AAAGG
1 ACAAATTGTTTATAAATTACAATAAAGG
* *
884492 ATAAAGTTGTTTATAAATGACAATAAAGG
1 ACAAA-TTGTTTATAAATTACAATAAAGG
* *
884521 GCAAATTTTTTATAAATT
1 ACAAATTGTTTATAAATT
884539 TTAATGATTC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.08
28 26 0.70
29 8 0.22
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (28 bp):
ACAAATTGTTTATAAATTACAATAAAGG
Found at i:885084 original size:119 final size:119
Alignment explanation
Indices: 884873--885118 Score: 476
Period size: 119 Copynumber: 2.1 Consensus size: 119
884863 AAGTTAAAAA
*
884873 ACTATAAAAGATGGTTGTATTTATAATTGTTTGATGCATAAATAATTTTCAACATTAATAGATAA
1 ACTATAAAAGATGGTTGTATTTATAATTGTTTGATGCATAAATAATTTTCAACATTAATAGAAAA
884938 TCATAATTTATTTTTTAAGTATTTTCTATGTTTAAACTTTTATCCAGACTCTAC
66 TCATAATTTATTTTTTAAGTATTTTCTATGTTTAAACTTTTATCCAGACTCTAC
884992 ACTATAAAAGATGGTTGTATTTATAATTGTTTGATGCATAAATAATTTTCAACATTAATAGAAAA
1 ACTATAAAAGATGGTTGTATTTATAATTGTTTGATGCATAAATAATTTTCAACATTAATAGAAAA
885057 TCATAATTTATTTTTTAAGTATTTTCTATGTTTAAACTTTTATCCAGACTCTAC
66 TCATAATTTATTTTTTAAGTATTTTCTATGTTTAAACTTTTATCCAGACTCTAC
885111 ACTA-AAAA
1 ACTATAAAA
885119 TATAGGCTTC
Statistics
Matches: 126, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 4 0.03
119 122 0.97
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (119 bp):
ACTATAAAAGATGGTTGTATTTATAATTGTTTGATGCATAAATAATTTTCAACATTAATAGAAAA
TCATAATTTATTTTTTAAGTATTTTCTATGTTTAAACTTTTATCCAGACTCTAC
Found at i:889659 original size:21 final size:24
Alignment explanation
Indices: 889632--889687 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
889622 CATAATTATT
889632 CGTGTCACAAAGGAAA-A-A-AAA
1 CGTGTCACAAAGGAAATAGATAAA
* *
889653 TGTGTCACGAA-GAAATAGATAAA
1 CGTGTCACAAAGGAAATAGATAAA
889676 CGTGTCACAAAG
1 CGTGTCACAAAG
889688 ACAAAGAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
20 4 0.15
21 10 0.37
22 1 0.04
23 12 0.44
ACGTcount: A:0.48, C:0.14, G:0.21, T:0.16
Consensus pattern (24 bp):
CGTGTCACAAAGGAAATAGATAAA
Found at i:892168 original size:3 final size:3
Alignment explanation
Indices: 892162--892219 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
892152 TTAGTTTTTT
* * *
892162 TTA TTA TTA TTAA TTA CTA TTA TTA TTA TCT- TTA TTT TTA TTA ATA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
892208 TTA TTA TTA TTA
1 TTA TTA TTA TTA
892220 CATGCCCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
2 1 0.02
3 41 0.89
4 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:892210 original size:27 final size:28
Alignment explanation
Indices: 892165--892217 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
892155 GTTTTTTTTA
*
892165 TTATTATTAATTACTATTATTATTATCT
1 TTATTATTAATTAATATTATTATTATCT
*
892193 TTATT-TTTATTAATATTATTATTAT
1 TTATTATTAATTAATATTATTATTAT
892218 TACATGCCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (28 bp):
TTATTATTAATTAATATTATTATTATCT
Found at i:893510 original size:31 final size:28
Alignment explanation
Indices: 893438--893511 Score: 76
Period size: 31 Copynumber: 2.5 Consensus size: 28
893428 CTAATTTTAA
*
893438 TATTTTCATTTATTTTTAATTACAAGTTT
1 TATTTT-ATTTATTTTTAAATACAAGTTT
* *
893467 TATTGTTTTTTATATTTTAAATATATAGTTT
1 TATT-TTATTTAT-TTTTAAATACA-AGTTT
893498 TAATTTTATTTATT
1 T-ATTTTATTTATT
893512 CATTGTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
29 9 0.24
30 12 0.32
31 13 0.35
32 3 0.08
ACGTcount: A:0.28, C:0.03, G:0.04, T:0.65
Consensus pattern (28 bp):
TATTTTATTTATTTTTAAATACAAGTTT
Found at i:893560 original size:15 final size:14
Alignment explanation
Indices: 893522--893568 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
893512 CATTGTTTAG
893522 TTATAT-TTTAATT
1 TTATATATTTAATT
* *
893535 TTATATGTTTATTT
1 TTATATATTTAATT
893549 TTAATATATTTAATT
1 TT-ATATATTTAATT
893564 ATTAT
1 -TTAT
893569 TACTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 6 0.21
14 8 0.29
15 12 0.43
16 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:905084 original size:3 final size:3
Alignment explanation
Indices: 905078--905103 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
905068 AAAAAGAAGA
905078 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
905104 AAAGGAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:906147 original size:22 final size:22
Alignment explanation
Indices: 906086--906148 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
906076 ATAACTACAT
* * *
906086 TTTTCAAAGATGATATATTCTC
1 TTTTCAAAGAAGATAGATTATC
*
906108 TCTTCAAA-AATGATAGATTATC
1 TTTTCAAAGAA-GATAGATTATC
*
906130 TTTTCAAAGAAGAAAGATT
1 TTTTCAAAGAAGATAGATT
906149 TATTGGATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 30 0.91
23 2 0.06
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTTCAAAGAAGATAGATTATC
Found at i:906709 original size:123 final size:123
Alignment explanation
Indices: 906457--907038 Score: 823
Period size: 123 Copynumber: 4.8 Consensus size: 123
906447 TACGAGGTAG
*
906457 AGTTCATAATGAGAAGAACTCATCTGAAG-A--AGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* * * *** * *
906519 ACCTTTTGCTCGAATCCAT--C--ATTCA-ATGGATCAACATACATTTTTCCAGAGAA
66 ACCTTTTACTCGATTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
906572 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
*
906637 ACCTTTTACAT-GATTCTATCACAGAAGGAGATAGATCATCATACACTTTTCCAGAGAA
66 ACCTTTTAC-TCGATTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
*
906695 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAAAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
*
906760 ACTTTTTACTCGATTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
66 ACCTTTTACTCGATTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
*
906818 AGTTCATAATGAAAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* * * * * *
906883 ACTTTTTACTCGATTCTATCACAGAAGGAGATATATCAGCAT-CAACATTTTCAAAAGGA
66 ACCTTTTACTCGATTCTATCACAGAAGGAGATAGATCAACATAC-AC-TTTTCCAGAGAA
906942 A-TTCATAATGAGAAGAACTCATCTGAA-AA--AGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
* * * **
907003 ACCTTTTGCTAGATTTTATCACAGAAAAAGATAGAT
66 ACCTTTTACTCGATTCTATCACAGAAGGAGATAGAT
907039 TATCATCCCC
Statistics
Matches: 427, Mismatches: 28, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
115 29 0.07
116 1 0.00
118 45 0.11
119 1 0.00
120 62 0.15
122 6 0.01
123 273 0.64
124 10 0.02
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
ACCTTTTACTCGATTCTATCACAGAAGGAGATAGATCAACATACACTTTTCCAGAGAA
Found at i:907252 original size:3 final size:3
Alignment explanation
Indices: 907232--907310 Score: 76
Period size: 3 Copynumber: 27.0 Consensus size: 3
907222 ATTTAGTTTT
*
907232 TTA TT- TTA TT- TT- TTA TTA TTA TTTA TTA CTA TTA TTA TTA TCT-
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA
* * *
907275 TTA TTT TTA TTA TTT TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
907311 CAGGCCCAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
2 7 0.11
3 52 0.83
4 4 0.06
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:908537 original size:31 final size:29
Alignment explanation
Indices: 908467--908538 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
908457 ATTTTAATAT
* *
908467 TTTTATTTATTTTTAATTACAAGTTTTAT
1 TTTTATTTATTTTTAAATACAAGTTTTAA
* *
908496 TGTTTTTTTATATTTTAAATATATAGTTTTAA
1 T-TTTATTTAT-TTTTAAATACA-AGTTTTAA
908528 TTTTATTTATT
1 TTTTATTTATT
908539 CATTGTTTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 9 0.26
31 17 0.49
32 8 0.23
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTATTTATTTTTAAATACAAGTTTTAA
Found at i:908567 original size:13 final size:13
Alignment explanation
Indices: 908549--908595 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 13
908539 CATTGTTTAG
908549 TTATATTTTAATT
1 TTATATTTTAATT
908562 TTATATTTTAATTT
1 TTATATTTTAA-TT
908576 TTAATATATTTAATT
1 TT-ATAT-TTTAATT
908591 ATTAT
1 -TTAT
908596 TACTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 11 0.37
14 4 0.13
15 8 0.27
16 7 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATTTTAATT
Found at i:908596 original size:3 final size:3
Alignment explanation
Indices: 908588--908620 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
908578 AATATATTTA
*
908588 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
908621 TAGTCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:911302 original size:21 final size:22
Alignment explanation
Indices: 911276--911320 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
911266 ATTTCCTGAC
*
911276 CCTCAAT-CCCTAATTTTTCAT
1 CCTCAATCCCCCAATTTTTCAT
911297 CCTCAATCCCCCAATTTTTCAT
1 CCTCAATCCCCCAATTTTTCAT
911319 CC
1 CC
911321 AAGACCATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.22, C:0.40, G:0.00, T:0.38
Consensus pattern (22 bp):
CCTCAATCCCCCAATTTTTCAT
Found at i:915622 original size:45 final size:46
Alignment explanation
Indices: 915569--915655 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
915559 TATTTTATTT
* *
915569 ACTTACACCAGTGT-AATAATGTGTTGAGTGCTACA-TTTTTTATCC
1 ACTTACACCAGTGTAAAT-ATATGTTAAGTGCTACACTTTTTTATCC
*
915614 ACTTACACCGGTGTAAATATATGTTAAGTGCTACACTTTTTT
1 ACTTACACCAGTGTAAATATATGTTAAGTGCTACACTTTTTT
915656 GTAGTATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
45 28 0.76
46 9 0.24
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (46 bp):
ACTTACACCAGTGTAAATATATGTTAAGTGCTACACTTTTTTATCC
Found at i:916458 original size:30 final size:30
Alignment explanation
Indices: 916403--916460 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
916393 AAACAATCAA
916403 AATATTATTATTTTATATATATTTAATATT
1 AATATTATTATTTTATATATATTTAATATT
916433 AATA-TATTATTTTAGTATCAT-TTTAATA
1 AATATTATTATTTTA-TAT-ATATTTAATA
916461 AAAGTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 10 0.38
30 14 0.54
31 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (30 bp):
AATATTATTATTTTATATATATTTAATATT
Found at i:917184 original size:22 final size:22
Alignment explanation
Indices: 917165--917216 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
917155 TATCAATATT
917165 TATTAATATTTCTAATAATATAA
1 TATT-ATATTTCTAATAATATAA
* *
917188 TATTATATTTTTAATATTATAA
1 TATTATATTTCTAATAATATAA
*
917210 TAATATA
1 TATTATA
917217 CTCAATTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATTATATTTCTAATAATATAA
Found at i:917359 original size:27 final size:28
Alignment explanation
Indices: 917313--917365 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
917303 AATTTCATAG
917313 AAATAATATTATTAAAATA-TTAATAAT
1 AAATAATATTATTAAAATATTTAATAAT
* * *
917340 AAATAATTTTATTTATATATTTAATA
1 AAATAATATTATTAAAATATTTAATA
917366 TTAATAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AAATAATATTATTAAAATATTTAATAAT
Found at i:919621 original size:5 final size:6
Alignment explanation
Indices: 919606--919631 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
919596 GGATATTTCG
919606 AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AA
919632 CTTGCTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:919894 original size:53 final size:53
Alignment explanation
Indices: 919804--919960 Score: 278
Period size: 53 Copynumber: 3.0 Consensus size: 53
919794 TTTCTCTGTT
* * *
919804 TACGAGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCC
1 TACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACC
*
919857 TACGGGTTCTCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACC
1 TACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACC
919910 TACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTA
1 TACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTA
919961 GTGTGATTCT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 100 1.00
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (53 bp):
TACGGGTTCACTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTACC
Found at i:920461 original size:42 final size:42
Alignment explanation
Indices: 920338--920466 Score: 181
Period size: 42 Copynumber: 3.1 Consensus size: 42
920328 AAGGCTTAAA
* * **
920338 ATGGCCCGAAA-GACTT-ATCATCTTGCTCGAAAGACTTACAA
1 ATGGCCC-AAATGATTTAATCATCATGCTCGAAAGACTTACTG
* *
920379 ATGACCCGAATGATTTAATCATCATGCTCGAAAGACTTACTG
1 ATGGCCCAAATGATTTAATCATCATGCTCGAAAGACTTACTG
920421 ATGGCCCAAATGATTTAATCATCATGCTCGAAAGACTTACTG
1 ATGGCCCAAATGATTTAATCATCATGCTCGAAAGACTTACTG
920463 ATGG
1 ATGG
920467 ATTTGCTTCA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 2 0.03
41 10 0.13
42 66 0.85
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (42 bp):
ATGGCCCAAATGATTTAATCATCATGCTCGAAAGACTTACTG
Found at i:920552 original size:42 final size:42
Alignment explanation
Indices: 920505--920587 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
920495 TTACAAAATA
* * * *
920505 CCCGAAGGATTTAATCATCAGGCTCGAAATATTTACTGATGG
1 CCCGAAGAACTTAATCATCAGGCTCGAAAGACTTACTGATGG
* *
920547 CCCGAAGAACTTCATCATCATGCTCGAAAGACTTACTGATG
1 CCCGAAGAACTTAATCATCAGGCTCGAAAGACTTACTGATG
920588 CCACTTACTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
CCCGAAGAACTTAATCATCAGGCTCGAAAGACTTACTGATGG
Found at i:920688 original size:42 final size:42
Alignment explanation
Indices: 920640--920732 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
920630 TTACAAATTA
*
920640 CCCTAAGGATTTAATCATCATGCTCAAAAGACTTACCGATGG
1 CCCTAAGGATTTAAGCATCATGCTCAAAAGACTTACCGATGG
* **
920682 CCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAGGATTTAAGCATCATGCTCAAAAGACTTACCGATGG
*
920724 CCCGAAGGA
1 CCCTAAGGA
920733 CTTACTAAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
CCCTAAGGATTTAAGCATCATGCTCAAAAGACTTACCGATGG
Found at i:920701 original size:135 final size:135
Alignment explanation
Indices: 920455--920722 Score: 392
Period size: 135 Copynumber: 2.0 Consensus size: 135
920445 TGCTCGAAAG
920455 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAAATACCCGAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAAATACCCGAAGGATTTAAT
* * * * * *
920520 CATCAGGCTCGAAATATTTACTGATGGCCCGAAGAACTTCATCATCATGCTCGAAAGACTTACTG
66 CATCAGGCTCAAAAGACTTACCGATGGCCCGAAGAACTTAAGCATCATGCTCGAAAGACTTACTG
920585 ATGCC
131 ATGCC
* * * * *
920590 ACTTACTGATGGGTTTGCTTCACTGCTCTTCTGTGAAGGCTTACAAATTACCCTAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAAATACCCGAAGGATTTAAT
* * * * *
920655 CATCATGCTCAAAAGACTTACCGATGGCCCTAAGGATTTAAGCATCATGCTCGAAAGACTTATTG
66 CATCAGGCTCAAAAGACTTACCGATGGCCCGAAGAACTTAAGCATCATGCTCGAAAGACTTACTG
920720 ATG
131 ATG
920723 GCCCGAAGGA
Statistics
Matches: 117, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
135 117 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (135 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAAATACCCGAAGGATTTAAT
CATCAGGCTCAAAAGACTTACCGATGGCCCGAAGAACTTAAGCATCATGCTCGAAAGACTTACTG
ATGCC
Found at i:930585 original size:19 final size:19
Alignment explanation
Indices: 930563--930678 Score: 81
Period size: 19 Copynumber: 5.6 Consensus size: 19
930553 TTCTCCCTCG
930563 TTTTTACTATGTGCTCTCCT
1 TTTTTACTATGTGCTCT-CT
* *
930583 TTTTCTATGTCTA-GTTCCCTCT
1 TTTT-TA---CTATGTGCTCTCT
930605 TTTTTACTATGTGCTCTCT
1 TTTTTACTATGTGCTCTCT
* *
930624 TTTTTTCTATGTCTGGTCCCCTCT
1 TTTTTACTATG--T-G--CTCTCT
*
930648 TTTTTACTCTGTGCTCTCT
1 TTTTTACTATGTGCTCTCT
*
930667 TTTTTTCTATGT
1 TTTTTACTATGT
930679 CTGGTCCCCC
Statistics
Matches: 75, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.04
19 32 0.43
20 4 0.05
21 6 0.08
22 8 0.11
23 5 0.07
24 17 0.23
ACGTcount: A:0.08, C:0.24, G:0.10, T:0.58
Consensus pattern (19 bp):
TTTTTACTATGTGCTCTCT
Found at i:930593 original size:43 final size:44
Alignment explanation
Indices: 930545--930695 Score: 200
Period size: 43 Copynumber: 3.5 Consensus size: 44
930535 CCCTTTTCTG
* *
930545 TATGTCTATTCTCCCTCGTTTTTACTATGTGCTCTC-CTTTTTC
1 TATGTCTAGTCTCCCTCTTTTTTACTATGTGCTCTCTCTTTTTC
*
930588 TATGTCTAGT-TCCCTCTTTTTTACTATGTGCTCTCTTTTTTTC
1 TATGTCTAGTCTCCCTCTTTTTTACTATGTGCTCTCTCTTTTTC
* * *
930631 TATGTCTGGTC-CCCTCTTTTTTACTCTGTGCTCTCTTTTTTTC
1 TATGTCTAGTCTCCCTCTTTTTTACTATGTGCTCTCTCTTTTTC
* * *
930674 TATGTCTGGTCCCCCTCCTTTT
1 TATGTCTAGTCTCCCTCTTTTT
930696 CGTAATAGCC
Statistics
Matches: 99, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
42 24 0.24
43 66 0.67
44 9 0.09
ACGTcount: A:0.07, C:0.28, G:0.11, T:0.54
Consensus pattern (44 bp):
TATGTCTAGTCTCCCTCTTTTTTACTATGTGCTCTCTCTTTTTC
Found at i:930614 original size:24 final size:22
Alignment explanation
Indices: 930556--930686 Score: 75
Period size: 19 Copynumber: 6.2 Consensus size: 22
930546 ATGTCTATTC
*
930556 TCCCTCGTTTTTACTATG--TG
1 TCCCTCTTTTTTACTATGTCTG
* *
930576 -CTCTCCTTTTT-CTATGTCTAG
1 TCCCTCTTTTTTACTATGTCT-G
930597 TTCCCTCTTTTTTACTATG--TG
1 -TCCCTCTTTTTTACTATGTCTG
* *
930618 -CTCTCTTTTTTTCTATGTCTGG
1 TCCCTCTTTTTTACTATGTCT-G
*
930640 TCCCCTCTTTTTTACTCTG--TG
1 T-CCCTCTTTTTTACTATGTCTG
* *
930661 -CTCTCTTTTTTTCTATGTCTGG
1 TCCCTCTTTTTTACTATGTCT-G
930683 TCCC
1 TCCC
930687 CCTCCTTTTC
Statistics
Matches: 83, Mismatches: 13, Indels: 27
0.67 0.11 0.22
Matches are distributed among these distances:
18 5 0.06
19 38 0.46
20 1 0.01
21 5 0.06
22 4 0.05
23 11 0.13
24 19 0.23
ACGTcount: A:0.07, C:0.27, G:0.11, T:0.54
Consensus pattern (22 bp):
TCCCTCTTTTTTACTATGTCTG
Found at i:933671 original size:27 final size:27
Alignment explanation
Indices: 933622--933695 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
933612 CTGAATTTAT
933622 TAAAATGATTGAAATACAC-TTGAGCTC
1 TAAAATGATTGAAATAC-CTTTGAGCTC
* *
933649 TAAAATGATTGAAATACCTTTGAGTTT
1 TAAAATGATTGAAATACCTTTGAGCTC
*
933676 TAAAGTGACTT-AAATACCTT
1 TAAAATGA-TTGAAATACCTT
933696 CATGACTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.93
28 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (27 bp):
TAAAATGATTGAAATACCTTTGAGCTC
Found at i:941526 original size:2 final size:2
Alignment explanation
Indices: 941521--941549 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
941511 AAAAAATTAA
941521 AT AT AT 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 AT AT A
941550 AATAATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:943476 original size:25 final size:26
Alignment explanation
Indices: 943448--943500 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
943438 TTGAAGTCTT
*
943448 TAATTATTCACTTTTGCAATAAA-AA
1 TAATTATTCACTTTTGAAATAAATAA
943473 TAATTATTCACTTTTGAAATAAATAA
1 TAATTATTCACTTTTGAAATAAATAA
943499 TA
1 TA
943501 CCATATCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (26 bp):
TAATTATTCACTTTTGAAATAAATAA
Found at i:954544 original size:44 final size:44
Alignment explanation
Indices: 954481--954568 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
954471 CAAACTTTTA
*
954481 GTATTATATTAACAAATAATTGTTTAATTAAAAGTACCATAAAC
1 GTATTATATTAACAAATAATTATTTAATTAAAAGTACCATAAAC
*
954525 GTATTATATTAACAAATAATTATTTAATTAAAAGTAGCATAAAC
1 GTATTATATTAACAAATAATTATTTAATTAAAAGTACCATAAAC
954569 ACCATACCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (44 bp):
GTATTATATTAACAAATAATTATTTAATTAAAAGTACCATAAAC
Found at i:957249 original size:43 final size:39
Alignment explanation
Indices: 957188--957300 Score: 111
Period size: 40 Copynumber: 2.8 Consensus size: 39
957178 AAGGGTGATA
*
957188 ACACGACTCATACGTGATGAAGAGTTCTGGTTATCAAAGGT-TG
1 ACACGGCTCATACGTGATGAAGAGTTCTGG---TC--AGGTATG
* * * *
957231 ACACGGCTCCTACGTGATGAGGAGATCAGGTCAGGTGATG
1 ACACGGCTCATACGTGATGAAGAGTTCTGGTCAGGT-ATG
*
957271 ACACGGCTCATACGTAATGAAGAGTTCTGG
1 ACACGGCTCATACGTGATGAAGAGTTCTGG
957301 CCATCTAAAG
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
38 4 0.07
40 29 0.50
43 25 0.43
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (39 bp):
ACACGGCTCATACGTGATGAAGAGTTCTGGTCAGGTATG
Found at i:957298 original size:135 final size:129
Alignment explanation
Indices: 957056--957340 Score: 358
Period size: 135 Copynumber: 2.2 Consensus size: 129
957046 GGGGACGACT
* * * *
957056 CGACTCATACGCGATGAAGAATTCGGGTCGTCTAAGGGTGACACGGCTCCTATATGATAAGGAGA
1 CGACTCATACGTGATGAAGAATTCGGGTCATCAAAGGGTGACACGGCTCCTACATGATAAGGAGA
* * *
957121 TCTGGTCAAGGGATGACACTGCTCATACGTGATGAAGAGTTCTTGGCCATCTTTAGTAAGGGTGA
66 TCAGGTCAAGGGATGACACGGCTCATACGTAATGAAGAGTTC-TGGCCATC--TA--AA-GGTGA
957186 TAACA
125 TAACA
* * * * * *
957191 CGACTCATACGTGATGAAGAGTTCTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGA
1 CGACTCATACGTGATGAAGAATTCGGGTCATCAAAGGGTGACACGGCTCCTACATGATAAGGAGA
957256 TCAGGTC-AGGTGATGACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
66 TCAGGTCAAGG-GATGACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
* *
957320 CGATTCCTACGTGAT-AAGAAT
1 CGACTCATACGTGATGAAGAAT
957341 GGTTGTTTAT
Statistics
Matches: 133, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
128 5 0.04
129 23 0.17
130 2 0.02
132 2 0.02
134 11 0.08
135 90 0.68
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (129 bp):
CGACTCATACGTGATGAAGAATTCGGGTCATCAAAGGGTGACACGGCTCCTACATGATAAGGAGA
TCAGGTCAAGGGATGACACGGCTCATACGTAATGAAGAGTTCTGGCCATCTAAAGGTGATAACA
Found at i:957396 original size:14 final size:14
Alignment explanation
Indices: 957377--957412 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
957367 CCTACGCGAT
*
957377 GAGGATGGTTGGTC
1 GAGGATGGTTGCTC
957391 GAGGATGGTTGCTC
1 GAGGATGGTTGCTC
*
957405 GGGGATGG
1 GAGGATGG
957413 CACTGCTCAT
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:0.14, C:0.08, G:0.53, T:0.25
Consensus pattern (14 bp):
GAGGATGGTTGCTC
Found at i:957683 original size:66 final size:65
Alignment explanation
Indices: 957582--957738 Score: 172
Period size: 66 Copynumber: 2.4 Consensus size: 65
957572 AGGGATTTTG
** * ** * * *
957582 GTTTCAAAAGAAACCGACTCAGAGATAATGCTTCAAAA-AAAGTTGTCTCAAAAGAGATAAAATT
1 GTTTCAAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAA-TTGTCTCAAAAGAGACAAAA-C
957646 TT
64 TT
* * *
957648 GTTTCCAAATAAACAAACTCAAAGATTTTTCTTCAAAAGAAATTGTCTCAAGAGAGACAAAACTT
1 GTTTCAAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAATTGTCTCAAAAGAGACAAAACTT
* *
957713 GTTTTAAAAGAAACAATCTCAAAGAT
1 GTTTCAAAAGAAACAAACTCAAAGAT
957739 GATCAATATT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
65 24 0.32
66 48 0.64
67 3 0.04
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.27
Consensus pattern (65 bp):
GTTTCAAAAGAAACAAACTCAAAGATTTTTCTTCAAAAGAAATTGTCTCAAAAGAGACAAAACTT
Found at i:958455 original size:25 final size:24
Alignment explanation
Indices: 958394--958455 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
958384 CACACTCGAA
*
958394 TTGTGCGATGCCTTATCAAGGGAT
1 TTGTGCGATGCCTTATCAAAGGAT
*
958418 TTGCGCGATGCCTTATCAAAGGAT
1 TTGTGCGATGCCTTATCAAAGGAT
958442 TTGTGCGATCGCCT
1 TTGTGCGAT-GCCT
958456 CAGCTGCACA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 30 0.88
25 4 0.12
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.32
Consensus pattern (24 bp):
TTGTGCGATGCCTTATCAAAGGAT
Found at i:959097 original size:38 final size:40
Alignment explanation
Indices: 958995--959098 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 40
958985 TTTCTCTTTG
* *
958995 CTTCTTTTTTTTTTTACTTTTTGTTGCTCTTTTTTATTTT
1 CTTCTTTTTTTTTTTACTCTTTGTTGCTATTTTTTATTTT
*
959035 CTTTCTTTCTTTTCTCTTTGCTCTTTGTTGCTATTTTTTATTTT
1 C-TTCTTT-TTTT-T-TTTACTCTTTGTTGCTATTTTTTATTTT
*
959079 C-TCTTTTCTTTTTT-CTCTTT
1 CTTCTTTTTTTTTTTACTCTTT
959099 CTGTTCTGAT
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
38 6 0.11
39 3 0.05
40 2 0.04
41 9 0.16
42 9 0.16
43 1 0.02
44 26 0.46
ACGTcount: A:0.04, C:0.17, G:0.05, T:0.74
Consensus pattern (40 bp):
CTTCTTTTTTTTTTTACTCTTTGTTGCTATTTTTTATTTT
Found at i:961269 original size:63 final size:63
Alignment explanation
Indices: 961163--961384 Score: 267
Period size: 63 Copynumber: 3.6 Consensus size: 63
961153 ATTTATGATG
* * *
961163 ATCATGCAGAATGCAAAGATACAAATGCAGATGCAAAAGTGATGATCCTCTTAAATACAATGC
1 ATCATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTTAAATACAATGA
*
961226 ATTATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTC-T--A-ACAATGA
1 ATCATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTTAAATACAATGA
* * * * * *
961285 ATCATGCAGAATGCGAAGATGTAAATGCAGATGCAAAATTGATAATCCCCTGAAATGA-AATGT
1 ATCATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTTAAAT-ACAATGA
* * *
961348 ATCATGAAGAATGTGAAA-ATGCAAATACAGATGCAAA
1 ATCATGCAGAATG-CAAAGATGCAAATGCAGATGCAAA
961385 GATGCAAATG
Statistics
Matches: 137, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
59 51 0.37
60 1 0.01
62 2 0.01
63 80 0.58
64 3 0.02
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.23
Consensus pattern (63 bp):
ATCATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTTAAATACAATGA
Found at i:961380 original size:122 final size:122
Alignment explanation
Indices: 961163--961384 Score: 304
Period size: 122 Copynumber: 1.8 Consensus size: 122
961153 ATTTATGATG
* * *
961163 ATCATGCAGAATGCAAAGATACAAATGCAGATGCAAAAGTGATGATCCTCTTAAATACAATGCAT
1 ATCATGCAGAATGCAAAGATACAAATGCAGATGCAAAAGTGATAATCCCCTGAAATACAATGCAT
* * *
961228 TATGCAGAATGCAAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTAACAATGA
66 CATGAAGAATGCAAAGATGCAAATACAGATGCAAAATTGATGATCCTCTAACAATGA
* ** * *
961285 ATCATGCAGAATGCGAAGATGTAAATGCAGATGCAAAATTGATAATCCCCTGAAATGA-AATGTA
1 ATCATGCAGAATGCAAAGATACAAATGCAGATGCAAAAGTGATAATCCCCTGAAAT-ACAATGCA
*
961349 TCATGAAGAATGTGAAA-ATGCAAATACAGATGCAAA
65 TCATGAAGAATG-CAAAGATGCAAATACAGATGCAAA
961385 GATGCAAATG
Statistics
Matches: 86, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
122 82 0.95
123 4 0.05
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.23
Consensus pattern (122 bp):
ATCATGCAGAATGCAAAGATACAAATGCAGATGCAAAAGTGATAATCCCCTGAAATACAATGCAT
CATGAAGAATGCAAAGATGCAAATACAGATGCAAAATTGATGATCCTCTAACAATGA
Found at i:961391 original size:20 final size:20
Alignment explanation
Indices: 961366--961404 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
961356 GAATGTGAAA
961366 ATGCAAATACAGATGCAAAG
1 ATGCAAATACAGATGCAAAG
* *
961386 ATGCAAATGCATATGCAAA
1 ATGCAAATACAGATGCAAA
961405 AATGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (20 bp):
ATGCAAATACAGATGCAAAG
Found at i:963876 original size:32 final size:32
Alignment explanation
Indices: 963772--963895 Score: 128
Period size: 31 Copynumber: 3.9 Consensus size: 32
963762 ATCCTCGACA
* ** * *
963772 ACTGTCCATAGGTTCTGAAGAACCTAGGTGA-
1 ACTGTCCATATGTTCCAAAGAACATAGGTAAT
**
963803 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCAAAGAACATAGGTAAT
*
963834 ACTGTCCATATGTCTCGAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCAAAGAACATAGGTAAT
* *
963866 TCTGTCCATATGTTCCATAGAACATAGGTA
1 ACTGTCCATATGTTCCAAAGAACATAGGTA
963896 CCCTCGAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
30 1 0.01
31 50 0.64
32 27 0.35
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
ACTGTCCATATGTTCCAAAGAACATAGGTAAT
Found at i:969074 original size:32 final size:32
Alignment explanation
Indices: 968970--969093 Score: 128
Period size: 31 Copynumber: 3.9 Consensus size: 32
968960 ATCCTCGGCA
* ** * *
968970 ACTGTCCATAGGTTCTGAAGAACCTAGGTGA-
1 ACTGTCCATATGTTCCAAAGAACATAGGTAAT
**
969001 ACTGTCCATATGTTCCTTAGAACATAGGT-AT
1 ACTGTCCATATGTTCCAAAGAACATAGGTAAT
*
969032 ACTGTCCATATGTCTCGAAAG-ACATAGGTAAT
1 ACTGTCCATATGT-TCCAAAGAACATAGGTAAT
* *
969064 TCTGTCCATATGTTCCATAGAACATAGGTA
1 ACTGTCCATATGTTCCAAAGAACATAGGTA
969094 CCCTCGAATC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
30 1 0.01
31 50 0.64
32 27 0.35
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (32 bp):
ACTGTCCATATGTTCCAAAGAACATAGGTAAT
Found at i:969842 original size:64 final size:64
Alignment explanation
Indices: 969691--969847 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
969681 TAATGAAGGT
** * ** *
969691 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTTGTTTATTAAAGAG
* * *
969755 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTATT-TATT-TTAAA
1 ATGCATCGATGCACTACC-AATGCATCGATGCA-TAAAATGCATTCGATGT-TTGT-TTATTAAA
969816 -AG
62 GAG
969818 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACCAATGCATCGAT
969848 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
63 4 0.05
64 65 0.84
65 8 0.10
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTTGTTTATTAAAGAG
Found at i:974072 original size:29 final size:29
Alignment explanation
Indices: 974040--974102 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
974030 TTAATCATAT
974040 TTTAGTCCCTTAAGTTTCTATTTTTACTA
1 TTTAGTCCCTTAAGTTTCTATTTTTACTA
* * * * *
974069 TTTAATCCTTTAAGTTTCTGTTTTTGCTC
1 TTTAGTCCCTTAAGTTTCTATTTTTACTA
974098 TTTAG
1 TTTAG
974103 CCTTTTAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.16, G:0.10, T:0.57
Consensus pattern (29 bp):
TTTAGTCCCTTAAGTTTCTATTTTTACTA
Found at i:974109 original size:29 final size:29
Alignment explanation
Indices: 974049--974129 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
974039 TTTTAGTCCC
* *
974049 TTAAGTTTCTATTTTTACTATTTAATCCT
1 TTAAGTTTCTGTTTTTACTATTTAAGCCT
* *
974078 TTAAGTTTCTGTTTTTGCTCTTT-AGCCTT
1 TTAAGTTTCTGTTTTTACTATTTAAGCC-T
*
974107 TTAAATTTCTG-TTTTAGCTATTT
1 TTAAGTTTCTGTTTTTA-CTATTT
974130 TCAAGCTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 7 0.16
29 36 0.84
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.59
Consensus pattern (29 bp):
TTAAGTTTCTGTTTTTACTATTTAAGCCT
Found at i:977225 original size:120 final size:117
Alignment explanation
Indices: 977036--977280 Score: 343
Period size: 120 Copynumber: 2.1 Consensus size: 117
977026 GAATTAAATT
977036 TAAAAATGAGGTCAATATTTTTATTTTTATTTTTTACAATTATTTTAAAATAATAATATATAAAT
1 TAAAAATGAGGTCAATATTTTTATTTTTATTTTTTACAATTATTTTAAAATAATAATATATAAAT
977101 TATATTAAAA-ATAAAATTGTATTAAAATTATTT-AGAGAACCCAAATCACAAAA
66 TATATTAAAATATAAAA-T-TATTAAAATTATTTAAGA-AACCCAAATCACAAAA
* * *
977154 TAAAAATGAGTTTAATATTTTTATTTACATTGTTTTTTACAATTATTTT-AAATAATAATATATA
1 TAAAAATGAGGTCAATATTTTTATTT---TTATTTTTTACAATTATTTTAAAATAATAATATATA
* ** *
977218 AATTATATTAAAATTATAAAATTATTTAAATTATTTAAGAAATTCAAATCATAAAA
63 AATTATATTAAAA-TATAAAATTATTAAAATTATTTAAGAAACCCAAATCACAAAA
977274 TAAAAAT
1 TAAAAAT
977281 AAAAATAATT
Statistics
Matches: 114, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
118 24 0.21
120 61 0.54
121 23 0.20
122 6 0.05
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (117 bp):
TAAAAATGAGGTCAATATTTTTATTTTTATTTTTTACAATTATTTTAAAATAATAATATATAAAT
TATATTAAAATATAAAATTATTAAAATTATTTAAGAAACCCAAATCACAAAA
Found at i:977248 original size:17 final size:20
Alignment explanation
Indices: 977212--977251 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
977202 TAAATAATAA
977212 TATATAAATTATATTAAAAT
1 TATATAAATTATATTAAAAT
977232 TATA-AAATTAT-TT-AAAT
1 TATATAAATTATATTAAAAT
977249 TAT
1 TAT
977252 TTAAGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 2 0.10
19 7 0.35
20 4 0.20
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TATATAAATTATATTAAAAT
Found at i:983766 original size:31 final size:31
Alignment explanation
Indices: 983728--983824 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 31
983718 AGTGCTCGAC
*
983728 TCGACTCGTGCCCGTTAAGAAAATTTGTTGT
1 TCGACTCGTGCTCGTTAAGAAAATTTGTTGT
*
983759 TCGACTCGTTGCTCGCTAAGTTTGTTAAAA-TT-TTGT
1 TCGACTCG-TGCTCGTTAA----G--AAAATTTGTTGT
*
983795 TCGACTCGTGGTCGTTAAGAAAATTTGTTG
1 TCGACTCGTGCTCGTTAAGAAAATTTGTTG
983825 CTCGTTAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
29 4 0.08
30 2 0.04
31 12 0.23
32 8 0.15
35 8 0.15
36 13 0.25
37 2 0.04
38 4 0.08
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (31 bp):
TCGACTCGTGCTCGTTAAGAAAATTTGTTGT
Found at i:984573 original size:14 final size:15
Alignment explanation
Indices: 984554--984582 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
984544 GTTACCCCTT
984554 TTAA-TTTTTAAATA
1 TTAATTTTTTAAATA
984568 TTAATTTTTTAAATA
1 TTAATTTTTTAAATA
984583 AAAACCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTTTTTAAATA
Found at i:986791 original size:30 final size:30
Alignment explanation
Indices: 986757--986839 Score: 148
Period size: 30 Copynumber: 2.8 Consensus size: 30
986747 TTACAAAAAC
986757 TTAAAGGACTAAAATAGCAAAAATAGAAAT
1 TTAAAGGACTAAAATAGCAAAAATAGAAAT
*
986787 TTAAAGGACTAAAATAGAAAAAATAGAAAT
1 TTAAAGGACTAAAATAGCAAAAATAGAAAT
*
986817 TTAAAGGATTAAAATAGCAAAAA
1 TTAAAGGACTAAAATAGCAAAAA
986840 CAAATAAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.61, C:0.05, G:0.13, T:0.20
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAGAAAT
Found at i:987258 original size:23 final size:23
Alignment explanation
Indices: 987232--987328 Score: 176
Period size: 23 Copynumber: 4.2 Consensus size: 23
987222 CGTCGTTTTG
*
987232 GTGGCCAAATATAAGGGCGAGGC
1 GTGGCCAAATATAAGGGCGAAGC
987255 GTGGCCAAATATAAGGGCGAAGC
1 GTGGCCAAATATAAGGGCGAAGC
987278 GTGGCCAAATATAAGGGCGAAGC
1 GTGGCCAAATATAAGGGCGAAGC
987301 GTGGCCAAATATAAGGGCGAAGC
1 GTGGCCAAATATAAGGGCGAAGC
*
987324 ATGGC
1 GTGGC
987329 TAAAATCAAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 72 1.00
ACGTcount: A:0.33, C:0.18, G:0.36, T:0.13
Consensus pattern (23 bp):
GTGGCCAAATATAAGGGCGAAGC
Found at i:988757 original size:131 final size:131
Alignment explanation
Indices: 988516--988766 Score: 351
Period size: 131 Copynumber: 1.9 Consensus size: 131
988506 ATGACACTGC
* * *
988516 TCATACGTGATGAAGAGTTCTGGTCGTCTAAGGGTGACACGACTCCTATATGATGAGGAGATATG
1 TCATACGTGATGAAGAGTACTGGTCATCTAAGGGTGACACGACTCCTACATGATGAGGAGATATG
* * * *
988581 GTCGGTGGATGACACGATTCCTACGTGACGAGGATGGCATACCATCTTTAGGGATGATAACATGG
66 GTCGGAGGATGACACGATTCCTACGCGACGAGGATAGCAGACCATCTTTAGGGATGATAACATGG
988646 T
131 T
* * * *
988647 TCATACGTGATGAGGA-TGACTGGTTATCTAAGGGTGACACGACTCCTACATGATGATGAGATCT
1 TCATACGTGATGAAGAGT-ACTGGTCATCTAAGGGTGACACGACTCCTACATGATGAGGAGATAT
* * * *
988711 GGTCGGAGGATGACACGGTTCCTACGCGATGAGGATAGTAGGCCATCTTTAGGGAT
65 GGTCGGAGGATGACACGATTCCTACGCGACGAGGATAGCAGACCATCTTTAGGGAT
988767 TTTTGTTTCA
Statistics
Matches: 104, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
130 1 0.01
131 103 0.99
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (131 bp):
TCATACGTGATGAAGAGTACTGGTCATCTAAGGGTGACACGACTCCTACATGATGAGGAGATATG
GTCGGAGGATGACACGATTCCTACGCGACGAGGATAGCAGACCATCTTTAGGGATGATAACATGG
T
Found at i:988914 original size:66 final size:66
Alignment explanation
Indices: 988770--988964 Score: 214
Period size: 66 Copynumber: 2.9 Consensus size: 66
988760 TAGGGATTTT
* * * *
988770 TGTTTCAAGAAAAACCGTCTCAAGAGAGACAAACTTGTTTCAAGGGAAACAAACTCAAAGATGAT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGTTTCAAGGGAAACAAACTCAAAGATCAT
988835 A
66 A
* * * *
988836 TGTTCCAAGAGAAACTGTCTCAAGAGAGACAAAATTCGTTTCGAGGGAAACGATCTCAAAGATCA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-GTTTCAAGGGAAACAAACTCAAAGATCA
*
988901 -G
65 TA
* * ** * *
988902 TGTTTCATGAGAAA-TGGTCTCAAGGGAGACAAAATTTGTTTCAACAGAAATAGACTCAAAGAT
1 TGTTTCAAGAGAAACT-GTCTCAAGAGAGACAAAA-TTGTTTCAAGGGAAACAAACTCAAAGAT
988965 TATAAATTTT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
65 1 0.01
66 80 0.75
67 26 0.24
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.23
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTGTTTCAAGGGAAACAAACTCAAAGATCAT
A
Found at i:989142 original size:36 final size:37
Alignment explanation
Indices: 989099--989170 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 37
989089 TTTGTATTCC
*
989099 GAGAGAAACTGTCTCAAGTGAGACAAAA-TTTGTTTT
1 GAGAGAAACTGTCTCAAGCGAGACAAAATTTTGTTTT
*
989135 GAGAGAAATTGTCTCAAGCGAGACAAAATTTTGTTT
1 GAGAGAAACTGTCTCAAGCGAGACAAAATTTTGTTT
989171 CGACTAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 26 0.79
37 7 0.21
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (37 bp):
GAGAGAAACTGTCTCAAGCGAGACAAAATTTTGTTTT
Found at i:992515 original size:23 final size:23
Alignment explanation
Indices: 992480--992523 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
992470 ATTGTAGCAA
* * *
992480 ATGGATATGTCTTGGCAAATTGG
1 ATGGAAATATCTTGGAAAATTGG
992503 ATGGAAATATCTTGGAAAATT
1 ATGGAAATATCTTGGAAAATT
992524 AAATTGTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (23 bp):
ATGGAAATATCTTGGAAAATTGG
Found at i:993738 original size:23 final size:23
Alignment explanation
Indices: 993703--993746 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
993693 ATGGTAGCAA
* * *
993703 ATGGATATGTCTTGGCAAATTGG
1 ATGGAAATATCTTGGAAAATTGG
993726 ATGGAAATATCTTGGAAAATT
1 ATGGAAATATCTTGGAAAATT
993747 AAATTGTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.07, G:0.25, T:0.34
Consensus pattern (23 bp):
ATGGAAATATCTTGGAAAATTGG
Found at i:995277 original size:20 final size:20
Alignment explanation
Indices: 995249--995289 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
995239 TTCCACCACG
995249 TGCAACTATATACTCCTAAA
1 TGCAACTATATACTCCTAAA
* *
995269 TGCATCTATATGCTCCTAAA
1 TGCAACTATATACTCCTAAA
995289 T
1 T
995290 AGGCTCTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (20 bp):
TGCAACTATATACTCCTAAA
Found at i:1005513 original size:30 final size:30
Alignment explanation
Indices: 1005476--1005617 Score: 196
Period size: 30 Copynumber: 4.8 Consensus size: 30
1005466 TTACAGAAAC
*
1005476 TTAAAGGACTAAAATAGCAAAAACAAAAAT
1 TTAAAGGACTAAAATAGCAAAAATAAAAAT
* *
1005506 TTGAAGGACTAAAATAGC-AAAATAGAAAT
1 TTAAAGGACTAAAATAGCAAAAATAAAAAT
* * * *
1005535 GTAAAGGAATAAAATAGAAAAAATATAAAT
1 TTAAAGGACTAAAATAGCAAAAATAAAAAT
* *
1005565 TTAAAGGACTAAAATAGAAAAAATAGAAAT
1 TTAAAGGACTAAAATAGCAAAAATAAAAAT
1005595 TTAAAGGACTAAAATAGCAAAAA
1 TTAAAGGACTAAAATAGCAAAAA
1005618 CAAATAAACC
Statistics
Matches: 99, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
29 23 0.23
30 76 0.77
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.19
Consensus pattern (30 bp):
TTAAAGGACTAAAATAGCAAAAATAAAAAT
Found at i:1005540 original size:59 final size:60
Alignment explanation
Indices: 1005477--1005621 Score: 220
Period size: 59 Copynumber: 2.4 Consensus size: 60
1005467 TACAGAAACT
* *
1005477 TAAAGGACTAAAATAGCAAAAACAAAAATTTGAAGGACTAAAATAG-CAAAATAGAAATG
1 TAAAGGACTAAAATAGCAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAATG
* * * * *
1005536 TAAAGGAATAAAATAGAAAAAATATAAATTTAAAGGACTAAAATAGAAAAAATAGAAATT
1 TAAAGGACTAAAATAGCAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAATG
1005596 TAAAGGACTAAAATAGCAAAAACAAA
1 TAAAGGACTAAAATAGCAAAAACAAA
1005622 TAAACCAGAA
Statistics
Matches: 74, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 41 0.55
60 33 0.45
ACGTcount: A:0.63, C:0.06, G:0.13, T:0.18
Consensus pattern (60 bp):
TAAAGGACTAAAATAGCAAAAACAAAAATTTAAAGGACTAAAATAGAAAAAATAGAAATG
Found at i:1007149 original size:3 final size:3
Alignment explanation
Indices: 1007141--1007177 Score: 58
Period size: 3 Copynumber: 12.3 Consensus size: 3
1007131 AATTAGAATA
1007141 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT A
1007178 TTTTTATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1007178 original size:9 final size:10
Alignment explanation
Indices: 1007137--1007178 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
1007127 ATGTAATTAG
*
1007137 AATAAATAAT
1 AATATATAAT
1007147 AATA-ATAAT
1 AATATATAAT
1007156 AATA-ATAAT
1 AATATATAAT
1007165 AATATA-AAT
1 AATATATAAT
1007174 AATAT
1 AATAT
1007179 TTTTATAGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 26 0.84
10 5 0.16
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AATATATAAT
Found at i:1007805 original size:21 final size:20
Alignment explanation
Indices: 1007732--1007806 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 20
1007722 ATACCTGTCC
1007732 ATATATTATTTTTTTAAGTTAA
1 ATATATTATTTTTTTAA--TAA
*
1007754 ATCTA-TATTTTTGTTGAATAA
1 ATATATTATTTTT-TT-AATAA
*
1007775 A-AGTAATATTTTTTATAATAA
1 ATA-TATTATTTTTT-TAATAA
1007796 ATATATTATTT
1 ATATATTATTT
1007807 CAGGTCGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
21 27 0.61
22 15 0.34
23 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (20 bp):
ATATATTATTTTTTTAATAA
Found at i:1012942 original size:31 final size:31
Alignment explanation
Indices: 1012867--1012962 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
1012857 GAACCTCGAC
* * *
1012867 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTTTCCATATGTCCCGAAGAACATAGGTA
* **
1012898 AACTTTCCATATGTTCCTTAGAACATAGGTA
1 AACTTTCCATATGTCCCGAAGAACATAGGTA
*
1012929 AACTGTT-CGTATGTCCCGAAGAACATAGGTA
1 AACT-TTCCATATGTCCCGAAGAACATAGGTA
1012960 AAC
1 AAC
1012963 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
31 52 0.96
32 2 0.04
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (31 bp):
AACTTTCCATATGTCCCGAAGAACATAGGTA
Found at i:1013852 original size:20 final size:20
Alignment explanation
Indices: 1013827--1013881 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1013817 CTCAAACTGG
1013827 GGTATAGATACCCTGCCTAT
1 GGTATAGATACCCTGCCTAT
1013847 GGTATAGATACCCTGCCTAT
1 GGTATAGATACCCTGCCTAT
*
1013867 GGTATACATACCCTG
1 GGTATAGATACCCTG
1013882 TCAACATTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (20 bp):
GGTATAGATACCCTGCCTAT
Found at i:1017607 original size:12 final size:12
Alignment explanation
Indices: 1017586--1017631 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
1017576 ACTATACGGT
1017586 ATGAACAGTACC
1 ATGAACAGTACC
*
1017598 ATGAATAGTACC
1 ATGAACAGTACC
*
1017610 GTGAACAGTA--
1 ATGAACAGTACC
*
1017620 ATGAATAGTACC
1 ATGAACAGTACC
1017632 CTACTACAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
10 8 0.30
12 19 0.70
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:1017626 original size:22 final size:23
Alignment explanation
Indices: 1017587--1017631 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1017577 CTATACGGTA
1017587 TGAACAGTACCATGAATAGTACCG
1 TGAACAGTA-CATGAATAGTACCG
1017611 TGAACAGTA-ATGAATAGTACC
1 TGAACAGTACATGAATAGTACC
1017632 CTACTACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (23 bp):
TGAACAGTACATGAATAGTACCG
Found at i:1018413 original size:31 final size:31
Alignment explanation
Indices: 1018359--1018453 Score: 136
Period size: 31 Copynumber: 3.1 Consensus size: 31
1018349 GAACCTCGGC
* *
1018359 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
* * **
1018390 AACTTTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
1018421 AACTGTCCATATGTCCCGAAGAACATAGGTA
1 AACTGTCCATATGTCCCGAAGAACATAGGTA
1018452 AA
1 AA
1018454 TCCTCGACTC
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATATGTCCCGAAGAACATAGGTA
Found at i:1019364 original size:20 final size:20
Alignment explanation
Indices: 1019341--1019415 Score: 132
Period size: 20 Copynumber: 3.8 Consensus size: 20
1019331 CCCTAACTGG
*
1019341 GGTATAGATACCCTGTCTAT
1 GGTATAGATACCCTGCCTAT
1019361 GGTATAGATACCCTGCCTAT
1 GGTATAGATACCCTGCCTAT
*
1019381 GGTATACATACCCTGCCTAT
1 GGTATAGATACCCTGCCTAT
1019401 GGTATAGATACCCTG
1 GGTATAGATACCCTG
1019416 TCAACATTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (20 bp):
GGTATAGATACCCTGCCTAT
Found at i:1021772 original size:17 final size:18
Alignment explanation
Indices: 1021730--1021811 Score: 96
Period size: 18 Copynumber: 4.7 Consensus size: 18
1021720 TGTTTATGGG
*
1021730 GGAATTTGAATCTGTGAA
1 GGAATTGGAATCTGTGAA
1021748 GGAATTGGAATCTGT-AA
1 GGAATTGGAATCTGTGAA
* *
1021765 GTAATTGGAATCTATGAA
1 GGAATTGGAATCTGTGAA
* * *
1021783 GGAATTGGAATTTAT-CA
1 GGAATTGGAATCTGTGAA
1021800 GGAATTGGAATC
1 GGAATTGGAATC
1021812 CAATTCCATA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
17 27 0.48
18 29 0.52
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:1021777 original size:35 final size:35
Alignment explanation
Indices: 1021730--1021811 Score: 110
Period size: 35 Copynumber: 2.3 Consensus size: 35
1021720 TGTTTATGGG
* * *
1021730 GGAATTTGAATCTGTGAAGGAATTGGAATCTGTAA
1 GGAATTGGAATCTATGAAGGAATTGGAATCTATAA
* * *
1021765 GTAATTGGAATCTATGAAGGAATTGGAATTTATCA
1 GGAATTGGAATCTATGAAGGAATTGGAATCTATAA
1021800 GGAATTGGAATC
1 GGAATTGGAATC
1021812 CAATTCCATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.32
Consensus pattern (35 bp):
GGAATTGGAATCTATGAAGGAATTGGAATCTATAA
Found at i:1022408 original size:32 final size:33
Alignment explanation
Indices: 1022337--1022420 Score: 143
Period size: 33 Copynumber: 2.6 Consensus size: 33
1022327 ACCCTAGCCC
*
1022337 AAACCCGACCCGACCCGAATATCACATTTAAAA
1 AAACCCGACCCGACCCGAATATCACACTTAAAA
*
1022370 AAACCCGTCCCGACCCGAATATCACACTT-AAA
1 AAACCCGACCCGACCCGAATATCACACTTAAAA
1022402 AAACCCGACCCGACCCGAA
1 AAACCCGACCCGACCCGAA
1022421 CAAAATAAAG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 21 0.44
33 27 0.56
ACGTcount: A:0.39, C:0.38, G:0.11, T:0.12
Consensus pattern (33 bp):
AAACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:1025753 original size:169 final size:170
Alignment explanation
Indices: 1025454--1025792 Score: 599
Period size: 169 Copynumber: 2.0 Consensus size: 170
1025444 AAAATGTCAC
1025454 GTTAGCATTCTGTTACTGTAACAACCATTTGTTAATTACTGTTAACGTCGAGTGACCATTTTATA
1 GTTAGCATTCTGTTACTGTAACAACCATTTGTTAATTACTGTTAACGTCGAGTGACCATTTTATA
*
1025519 ACAAAACGATAACGTTAATGACCGATTTGTAACTTTTCAAAAATTAGTGGTGAAAAAGAACATTT
66 ACAAAACGATAACATTAATGACCGATTTGTAACTTTTCAAAAATTAGTGGTGAAAAAGAACATTT
1025584 ACCCAAACATTAGTGACCACTAGCATAGTTTACCCATAAT
131 ACCCAAACATTAGTGACCACTAGCATAGTTTACCCATAAT
* * * * *
1025624 GTTAGCATTTTGTTACTGTAGCAACGATTTGTTAATTACTGTTAACGTTGAGTGACCATTTTGTA
1 GTTAGCATTCTGTTACTGTAACAACCATTTGTTAATTACTGTTAACGTCGAGTGACCATTTTATA
*
1025689 AC-AAACGATAACATTAATGATCGATTTGTAACTTTTCAAAAATTAGTGGTGAAAAAGAACATTT
66 ACAAAACGATAACATTAATGACCGATTTGTAACTTTTCAAAAATTAGTGGTGAAAAAGAACATTT
*
1025753 ACCTAAACATTAGTGACCACTAGCATAGTTTACCCATAAT
131 ACCCAAACATTAGTGACCACTAGCATAGTTTACCCATAAT
1025793 TATTTAATGG
Statistics
Matches: 161, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
169 99 0.61
170 62 0.39
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (170 bp):
GTTAGCATTCTGTTACTGTAACAACCATTTGTTAATTACTGTTAACGTCGAGTGACCATTTTATA
ACAAAACGATAACATTAATGACCGATTTGTAACTTTTCAAAAATTAGTGGTGAAAAAGAACATTT
ACCCAAACATTAGTGACCACTAGCATAGTTTACCCATAAT
Found at i:1025825 original size:15 final size:16
Alignment explanation
Indices: 1025805--1025848 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
1025795 TTTAATGGTG
1025805 AAGTAATCAAAA-TGA
1 AAGTAATCAAAAGTGA
1025820 AAGTAATTCAAAAGTTGA
1 AAGTAA-TCAAAAG-TGA
*
1025838 GAGTAATCAAA
1 AAGTAATCAAA
1025849 TTTTAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 6 0.24
16 6 0.24
17 5 0.20
18 8 0.32
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.23
Consensus pattern (16 bp):
AAGTAATCAAAAGTGA
Found at i:1027302 original size:23 final size:23
Alignment explanation
Indices: 1027251--1027303 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1027241 TTAATATCTC
1027251 TATTT-ATAAAAAATTAATTAAA
1 TATTTCATAAAAAATTAATTAAA
*
1027273 TATTTTCATAAAAAA-TAATTAAT
1 TA-TTTCATAAAAAATTAATTAAA
1027296 TCATTTCA
1 T-ATTTCA
1027304 CCCAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 16 0.59
24 9 0.33
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
TATTTCATAAAAAATTAATTAAA
Found at i:1027490 original size:15 final size:15
Alignment explanation
Indices: 1027466--1027495 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1027456 CAAATTTTTC
*
1027466 ATTTTTCTTTCAAAT
1 ATTTTCCTTTCAAAT
1027481 ATTTTCCTTTCAAAT
1 ATTTTCCTTTCAAAT
1027496 CTTCGATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTCCTTTCAAAT
Found at i:1030660 original size:21 final size:21
Alignment explanation
Indices: 1030636--1030675 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1030626 AAGACTTTAT
1030636 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1030657 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1030676 AAATAGTTTT
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:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1036268 original size:26 final size:28
Alignment explanation
Indices: 1036239--1036291 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
1036229 AAATCAATTG
1036239 GCTAAA-TTTT-TAGAGTCTTGTTTTGA
1 GCTAAACTTTTATAGAGTCTTGTTTTGA
*
1036265 GCTAAACGTTTTATAGAGTCTTTTTTT
1 GCTAAAC-TTTTATAGAGTCTTGTTTT
1036292 ATTTAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 4 0.17
29 13 0.57
ACGTcount: A:0.23, C:0.09, G:0.17, T:0.51
Consensus pattern (28 bp):
GCTAAACTTTTATAGAGTCTTGTTTTGA
Found at i:1036699 original size:21 final size:21
Alignment explanation
Indices: 1036675--1036720 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1036665 AGTAATGTAC
1036675 CGATCCACTACATTGATGCAT
1 CGATCCACTACATTGATGCAT
***
1036696 CGATGTGCTACATTGATGCAT
1 CGATCCACTACATTGATGCAT
1036717 CGAT
1 CGAT
1036721 GCGCACACCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (21 bp):
CGATCCACTACATTGATGCAT
Found at i:1036721 original size:21 final size:21
Alignment explanation
Indices: 1036682--1036721 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1036672 TACCGATCCA
1036682 CTACATTGATGCATCGATGTG
1 CTACATTGATGCATCGATGTG
1036703 CTACATTGATGCATCGATG
1 CTACATTGATGCATCGATG
1036722 CGCACACCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.33
Consensus pattern (21 bp):
CTACATTGATGCATCGATGTG
Found at i:1036858 original size:64 final size:65
Alignment explanation
Indices: 1036734--1036869 Score: 177
Period size: 64 Copynumber: 2.1 Consensus size: 65
1036724 CACACCCATT
* * ** **
1036734 TCGAATGCATTTTGTTTACCGATGCACAAGTCATGCATCGATGCACTCTTGAATATTTTG-AACA
1 TCGAATGCATTTTGTGTACCAATGCACAAACCATGCATCGATGCACTCCAGAATATTTTGAAACA
**
1036798 TCGAATGCATTTTGTGTACCAATGCACAAACCATGCATCGATGCACTCCAGGCTCA-TTTGAAAC
1 TCGAATGCATTTTGTGTACCAATGCACAAACCATGCATCGATGCACTCCAGAAT-ATTTTGAAAC
1036862 A
65 A
1036863 TCGAATG
1 TCGAATG
1036870 TAATTAGTGC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
64 50 0.81
65 12 0.19
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCAATGCACAAACCATGCATCGATGCACTCCAGAATATTTTGAAACA
Found at i:1040883 original size:22 final size:22
Alignment explanation
Indices: 1040858--1040916 Score: 91
Period size: 22 Copynumber: 2.7 Consensus size: 22
1040848 GCGAAATTTT
*
1040858 TCCCGAAAGACCTATGTATATG
1 TCCCGAATGACCTATGTATATG
*
1040880 TCCCGAATGACCTCTGTATATG
1 TCCCGAATGACCTATGTATATG
*
1040902 TCCTGAATGACCTAT
1 TCCCGAATGACCTAT
1040917 ATAACCCTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (22 bp):
TCCCGAATGACCTATGTATATG
Found at i:1041621 original size:15 final size:15
Alignment explanation
Indices: 1041601--1041629 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1041591 ATACCTCCCT
1041601 TATGGTATCGGTACC
1 TATGGTATCGGTACC
1041616 TATGGTATCGGTAC
1 TATGGTATCGGTAC
1041630 TTCATTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (15 bp):
TATGGTATCGGTACC
Found at i:1042246 original size:2 final size:2
Alignment explanation
Indices: 1042239--1042271 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1042229 TTCCCACGTG
1042239 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1042272 CCTCTATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1046342 original size:23 final size:22
Alignment explanation
Indices: 1046316--1046392 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
1046306 ACCCACTATA
1046316 GGGTATCGATACTACCCTTGCTG
1 GGGTATCGATACTACCC-TGCTG
* **
1046339 GGGTATCGATACCAAGC--CT-
1 GGGTATCGATACTACCCTGCTG
*
1046358 GGGTATTGATACTACCCTAGCTG
1 GGGTATCGATACTACCCT-GCTG
1046381 GGGTATCGATAC
1 GGGTATCGATAC
1046393 GAAGCCTAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
19 13 0.31
20 2 0.05
22 2 0.05
23 25 0.60
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.27
Consensus pattern (22 bp):
GGGTATCGATACTACCCTGCTG
Found at i:1046363 original size:19 final size:19
Alignment explanation
Indices: 1046339--1046414 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
1046329 ACCCTTGCTG
1046339 GGGTATCGATACCAAGCCT
1 GGGTATCGATACCAAGCCT
* *
1046358 GGGTATTGATACTACCCTAG-CT
1 GGGTATCG--A-TA-CCAAGCCT
*
1046380 GGGGTATCGATACGAAGCCT
1 -GGGTATCGATACCAAGCCT
* *
1046400 AGGTATCGGTACCAA
1 GGGTATCGATACCAA
1046415 AATTACATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 22 0.51
20 4 0.09
21 2 0.05
22 4 0.09
23 11 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (19 bp):
GGGTATCGATACCAAGCCT
Found at i:1046363 original size:42 final size:42
Alignment explanation
Indices: 1046316--1046407 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
1046306 ACCCACTATA
*
1046316 GGGTATCGATACTACCCTTGCTGGGGTATCGATACCAAGCCT
1 GGGTATCGATACTACCCTAGCTGGGGTATCGATACCAAGCCT
* *
1046358 GGGTATTGATACTACCCTAGCTGGGGTATCGATACGAAGCCT
1 GGGTATCGATACTACCCTAGCTGGGGTATCGATACCAAGCCT
*
1046400 AGGTATCG
1 GGGTATCG
1046408 GTACCAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (42 bp):
GGGTATCGATACTACCCTAGCTGGGGTATCGATACCAAGCCT
Found at i:1046472 original size:15 final size:15
Alignment explanation
Indices: 1046452--1046480 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1046442 ATACCTCCCT
1046452 TATGGTATCGATACC
1 TATGGTATCGATACC
1046467 TATGGTATCGATAC
1 TATGGTATCGATAC
1046481 TACCTTCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (15 bp):
TATGGTATCGATACC
Found at i:1047902 original size:24 final size:23
Alignment explanation
Indices: 1047861--1047911 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
1047851 AACATCTATA
* * *
1047861 TTCATGAAAAATAGTTAAGTCTT
1 TTCATGAAAAAAAATTAAGTCAT
*
1047884 TTCATGAAAAAAAAATTAATTCAT
1 TTCATG-AAAAAAAATTAAGTCAT
1047908 TTCA
1 TTCA
1047912 CTCAAAAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.45, C:0.10, G:0.08, T:0.37
Consensus pattern (23 bp):
TTCATGAAAAAAAATTAAGTCAT
Found at i:1053949 original size:21 final size:21
Alignment explanation
Indices: 1053897--1053937 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1053887 CGTGTAGAAA
* *
1053897 TGTAGTATTTAGTGTTTAGGT
1 TGTAGGATTTAGAGTTTAGGT
*
1053918 TGTAGGGTTTAGAGTTTAGG
1 TGTAGGATTTAGAGTTTAGG
1053938 CTTTATGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (21 bp):
TGTAGGATTTAGAGTTTAGGT
Found at i:1054084 original size:7 final size:7
Alignment explanation
Indices: 1054074--1054210 Score: 50
Period size: 7 Copynumber: 18.9 Consensus size: 7
1054064 TAGGGTGTAG
1054074 GGTTTAA
1 GGTTTAA
1054081 GGTTTATA
1 GGTTTA-A
1054089 -GTTTAA
1 GGTTTAA
1054095 GGTTTTAA
1 GG-TTTAA
* *
1054103 AGTTTAT
1 GGTTTAA
1054110 GGTTT-A
1 GGTTTAA
1054116 GAGTTT-A
1 G-GTTTAA
*
1054123 -GTATTTA
1 GGT-TTAA
* *
1054130 GGTCTAG
1 GGTTTAA
1054137 GGTTTAA
1 GGTTTAA
*
1054144 GGTTTCAT
1 GGTTT-AA
*
1054152 GGTCTAA
1 GGTTTAA
1054159 GGTGTGT-A
1 GGT-T-TAA
*
1054167 GGCTATAA
1 GG-TTTAA
1054175 GGTTTAA
1 GGTTTAA
* *
1054182 AGTTTCAT
1 GGTTT-AA
1054190 GGTTTAA
1 GGTTTAA
*
1054197 GGATTAAA
1 GG-TTTAA
1054205 GGTTTA
1 GGTTTA
1054211 GAGTGTAGAG
Statistics
Matches: 95, Mismatches: 21, Indels: 28
0.66 0.15 0.19
Matches are distributed among these distances:
5 2 0.02
6 4 0.04
7 56 0.59
8 31 0.33
9 2 0.02
ACGTcount: A:0.26, C:0.04, G:0.27, T:0.43
Consensus pattern (7 bp):
GGTTTAA
Found at i:1054092 original size:14 final size:14
Alignment explanation
Indices: 1054075--1054122 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
1054065 AGGGTGTAGG
*
1054075 GTTTAAGGTTTATA
1 GTTTAAGGTTTAAA
1054089 GTTTAAGGTTTTAAA
1 GTTTAAGG-TTTAAA
* *
1054104 GTTTATGGTTTAGA
1 GTTTAAGGTTTAAA
1054118 GTTTA
1 GTTTA
1054123 GTATTTAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (14 bp):
GTTTAAGGTTTAAA
Done.