Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_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: 2476418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:1014158 original size:31 final size:31
Alignment explanation
Indices: 1014120--1014181 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
1014110 AAGTGTTCTA
*
1014120 TACGAGCTGTAGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTAGCGAGAGGATGAAGCTTTGC
*
1014151 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTAGCGAGAGGATGAAGCTTTGC
1014182 ATGTGCCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTAGCGAGAGGATGAAGCTTTGC
Found at i:1014214 original size:22 final size:22
Alignment explanation
Indices: 1014186--1014236 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1014176 CTTTGCATGT
1014186 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
1014208 GCCATGCACGTCGGAAGAGGTC
1 GCCATGCACGTCGGAAGAGGTC
1014230 GCC-TGCA
1 GCCATGCA
1014237 TGCAGTGGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.22, C:0.29, G:0.35, T:0.14
Consensus pattern (22 bp):
GCCATGCACGTCGGAAGAGGTC
Found at i:1014261 original size:22 final size:23
Alignment explanation
Indices: 1014234--1014277 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1014224 GAGGTCGCCT
**
1014234 GCATGCAGTGGGGAGC-AGGCGA
1 GCATGCAACGGGGAGCAAGGCGA
1014256 GCATGCAACGGGGAGCAAGGCG
1 GCATGCAACGGGGAGCAAGGCG
1014278 CAGGACAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.25, C:0.20, G:0.48, T:0.07
Consensus pattern (23 bp):
GCATGCAACGGGGAGCAAGGCGA
Found at i:1014320 original size:29 final size:29
Alignment explanation
Indices: 1014282--1014369 Score: 113
Period size: 29 Copynumber: 3.0 Consensus size: 29
1014272 AAGGCGCAGG
*
1014282 ACAAGGTCGCCCAGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* * *
1014311 ACCATGTCGCCTGGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* * *
1014340 ACAAGGTTGCCCGGAGGGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
1014369 A
1 A
1014370 TACTGGGAAG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.19, C:0.32, G:0.33, T:0.16
Consensus pattern (29 bp):
ACAAGGTCGCCCGGCGTGCATGGCGACCT
Found at i:1016733 original size:2 final size:2
Alignment explanation
Indices: 1016726--1016756 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1016716 TTAGGTGAAT
1016726 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 T
1016757 CATCAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1020012 original size:24 final size:24
Alignment explanation
Indices: 1019985--1020034 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1019975 TTTATTTTAT
1019985 ATTAATAAAAAGAGATATATATTG
1 ATTAATAAAAAGAGATATATATTG
*
1020009 ATTAATAATAAGAGATATATATTG
1 ATTAATAAAAAGAGATATATATTG
1020033 AT
1 AT
1020035 ACAAATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.12, T:0.36
Consensus pattern (24 bp):
ATTAATAAAAAGAGATATATATTG
Found at i:1028274 original size:21 final size:21
Alignment explanation
Indices: 1028248--1028287 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1028238 CCCCCTTTGA
*
1028248 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
1028269 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
1028288 TGGAGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:1031907 original size:17 final size:17
Alignment explanation
Indices: 1031876--1031908 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1031866 AAATATTATT
1031876 TTATTATTTATTTTAAA
1 TTATTATTTATTTTAAA
1031893 TTATT-TTTATATTTAA
1 TTATTATTTAT-TTTAA
1031909 TAATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTTATTTTAAA
Found at i:1036722 original size:31 final size:31
Alignment explanation
Indices: 1036684--1036775 Score: 109
Period size: 30 Copynumber: 3.0 Consensus size: 31
1036674 GAGTCGAGGG
1036684 TTACCTATGTCTTTC-GAGACATATGGATAGT
1 TTACCTATGTCTTTCGGA-ACATATGGATAGT
** * *
1036715 TTACCTATGTCCGTAGGTACATATGGATAG-
1 TTACCTATGTCTTTCGGAACATATGGATAGT
1036745 TTACCTATGT-TCTTCGGAACATATGGATAGT
1 TTACCTATGTCT-TTCGGAACATATGGATAGT
1036776 GGTCCTTCGG
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
30 25 0.50
31 24 0.48
32 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGAACATATGGATAGT
Found at i:1036804 original size:22 final size:23
Alignment explanation
Indices: 1036756--1036814 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
1036746 TACCTATGTT
* *
1036756 CTTCGGAACATATGGATAGTGGTC
1 CTTCGGGACATATGCATAG-GGTC
1036780 CTTCGGGACATATGCATA-GGTC
1 CTTCGGGACATATGCATAGGGTC
*
1036802 CTTCAGGACATAT
1 CTTCGGGACATAT
1036815 TTCACATGCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 16 0.50
24 16 0.50
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (23 bp):
CTTCGGGACATATGCATAGGGTC
Found at i:1041712 original size:11 final size:10
Alignment explanation
Indices: 1041695--1041752 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
1041685 TTTTTTTAAA
1041695 AAATAATAAT
1 AAATAATAAT
1041705 ATAATAATAAT
1 A-AATAATAAT
*
1041716 AAATAAATAACGA
1 AAAT-AATAA--T
*
1041729 AAATAATAAA
1 AAATAATAAT
1041739 AAATAAT-AT
1 AAATAATAAT
1041748 AAATA
1 AAATA
1041753 TAAAGTATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.14
10 12 0.29
11 15 0.36
12 5 0.12
13 4 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.26
Consensus pattern (10 bp):
AAATAATAAT
Found at i:1042438 original size:37 final size:37
Alignment explanation
Indices: 1042388--1042491 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
1042378 GTGCTTGTGG
* * * * *
1042388 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* * *
1042425 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1042462 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1042492 TGACGAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:1043340 original size:105 final size:105
Alignment explanation
Indices: 1043035--1043559 Score: 738
Period size: 105 Copynumber: 5.0 Consensus size: 105
1043025 GCATTGTTCC
* * ** *
1043035 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
1043099 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1043141 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
1043201 CAACGGTCCCTTCGTCGTGGAGTTAAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1043241 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1043306 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1043346 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTAGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
1043411 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
1043451 AAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGATGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * * * *
1043516 CAGTGGTCCCTTCGTCATGAAGTTGAAATTGTGTTGTCTC
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1043556 GAGT
1 GAGT
1043560 GTCACGATAT
Statistics
Matches: 381, Mismatches: 32, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
100 83 0.22
101 1 0.00
102 7 0.02
104 5 0.01
105 248 0.65
106 37 0.10
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1043819 original size:36 final size:36
Alignment explanation
Indices: 1043766--1043834 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
1043756 AGAGAAATTG
* *
1043766 TCTCAAGGGAGACAAAATTCGTTTCAAGGGAAACTA
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAACTA
*
1043802 TCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
1 TCTCAAGCGAGACAAAATTCATTTCAAGGGAAA
1043835 ATGTTTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (36 bp):
TCTCAAGCGAGACAAAATTCATTTCAAGGGAAACTA
Found at i:1043850 original size:102 final size:103
Alignment explanation
Indices: 1043734--1044054 Score: 484
Period size: 106 Copynumber: 3.1 Consensus size: 103
1043724 TTCGTTAAAT
* ** * *
1043734 TGTTTTCAAAGTTTATGTTTGGAGAGAAATTGTCTCAAGGGAGACAAAA-TTC-GTTTCAAGGGA
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCGAGGGA
* *
1043797 AACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAAA
66 AACTATCTCAAGAGAGAAAAAATTCATTTCAAGGG-AAA
1043836 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTCTGTTTCGAGGG
* *
1043901 AAACTATCTCAAGAGAGAGAAAAAAATCAATTCAAGGGAAA
65 AAACTATCTC-A-AGAGAGAAAAAATTCATTTCAAGGGAAA
1043942 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTCTGTTTCGAGGG
* *
1044007 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
65 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
1044046 TGTTTTCAA
1 TGTTTTCAA
1044055 GAGAACTGTC
Statistics
Matches: 201, Mismatches: 13, Indels: 8
0.91 0.06 0.04
Matches are distributed among these distances:
102 45 0.22
104 36 0.18
105 20 0.10
106 79 0.39
107 21 0.10
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (103 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTCTGTTTCGAGGGA
AACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:1044011 original size:39 final size:39
Alignment explanation
Indices: 1043957--1044031 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
1043947 TCAATGTTTA
* *
1043957 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
1043996 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
1044032 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:1044210 original size:36 final size:36
Alignment explanation
Indices: 1044170--1044283 Score: 104
Period size: 36 Copynumber: 3.2 Consensus size: 36
1044160 CTTTCGAGTG
* *
1044170 AAAACGGTCTCAAGCGAGACAAATCTTATTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTATTTTAAGA
* ** * * * **
1044206 AAAACAATCTTTAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTATTTTAAGA
* *
1044242 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTATTTTAAGA
1044278 AAAACA
1 AAAACA
1044284 AATTTGAGTG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
36 57 0.98
37 1 0.02
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTATTTTAAGA
Found at i:1044261 original size:72 final size:75
Alignment explanation
Indices: 1044124--1044294 Score: 197
Period size: 72 Copynumber: 2.3 Consensus size: 75
1044114 TAAAATCTTC
* * * *
1044124 TTAAAAAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAACCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
1044189 CAAA-TCTTATT
65 CAAAGT-ATATT
* * *
1044200 TTAAGAAAAACAATCTTTAGTGAAAT-AAAT-CTTCTTTCGAG-AAAAACAGTCTCAAGTGAGAC
1 TTAAGAAAAACAACCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
*
1044262 AAAGTATGTT
66 AAAGTATATT
**
1044272 TTAAGAAAAACAAATTTGAGTGA
1 TTAAGAAAAACAACCTTGAGTGA
1044295 GATAATTATC
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
72 44 0.54
73 12 0.15
75 4 0.05
76 22 0.27
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.27
Consensus pattern (75 bp):
TTAAGAAAAACAACCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
AAAGTATATT
Found at i:1045761 original size:183 final size:183
Alignment explanation
Indices: 1045442--1045976 Score: 878
Period size: 183 Copynumber: 2.9 Consensus size: 183
1045432 CAGGTTTAAC
*
1045442 TGAAGGTTTCATCTCATCACAAAGTCTTT-GACCTGACAAAAGCAGTGGAGCAAACACCGAATTG
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGGA-CTGACAAAAGCAGTGGAGCAAACACCGAATTG
* ** * * *
1045506 CCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCTAGGGATTTTGAGTT
65 CCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
1045570 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAA
129 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAA
* *
1045625 TGAAGGGTTCGTCTCATCACAAAGTCTTTGGACTGACAAAAGCAGTGGAGCAAACACTGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGGACTGACAAAAGCAGTGGAGCAAACACCGAATTGC
* *
1045690 CAAGTGTCTGAGCAGTGTCATAGTTTGAACATAATATATTCATAAAGCCAGGGCTTTCGAGTTTC
66 CAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
*
1045755 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAC
131 CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAA
* * *
1045808 TGAAGGGTTCATCTTATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAATACCGAATTGC
1 TGAAGGGTTCATCTCATCACAAAGTCTTTGGACTGACAAAAGCAGTGGAGCAAACACCGAATTGC
*
1045873 CAAGTGTCCGAGCAGTATCATCA-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
66 CAAGTGTCCGAGCAGTGTCAT-AGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTT
1045937 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
130 CCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
1045977 CGGATTTAAT
Statistics
Matches: 329, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
183 325 0.99
184 4 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (183 bp):
TGAAGGGTTCATCTCATCACAAAGTCTTTGGACTGACAAAAGCAGTGGAGCAAACACCGAATTGC
CAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTC
CTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCAA
Found at i:1051661 original size:14 final size:14
Alignment explanation
Indices: 1051645--1051696 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
1051635 TTTAAAAAAT
*
1051645 AATAATATAATAAT
1 AATAATATAATAAA
*
1051659 AATAA-ATAAAAAA
1 AATAATATAATAAA
* *
1051672 AACGAAAATAATAAA
1 AA-TAATATAATAAA
1051687 AATAATATAA
1 AATAATATAA
1051697 ATATATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 8 0.27
14 13 0.43
15 9 0.30
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAATATAATAAA
Found at i:1051698 original size:18 final size:18
Alignment explanation
Indices: 1051641--1051706 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
1051631 TTTTTTTAAA
1051641 AAATAATAATATAATAATAAT
1 AAATAATAA-A-AATAAT-AT
**
1051662 AAATAA-AAAAA-ACGA-
1 AAATAATAAAAATAATAT
1051677 AAATAATAAAAATAATAT
1 AAATAATAAAAATAATAT
1051695 AAATATATAAAA
1 AAATA-ATAAAA
1051707 TTATAAGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
15 6 0.16
16 6 0.16
17 3 0.08
18 7 0.19
19 7 0.19
20 2 0.05
21 6 0.16
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (18 bp):
AAATAATAAAAATAATAT
Found at i:1051976 original size:18 final size:17
Alignment explanation
Indices: 1051953--1051995 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
1051943 ATATATACAT
1051953 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
1051971 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
1051988 ATAA-AATA
1 ATAATAATA
1051996 TCTATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:1052434 original size:37 final size:37
Alignment explanation
Indices: 1052352--1052449 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
1052342 GTGCTTGTGG
* * * * *
1052352 ATCCTATTTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* * *
1052389 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
*
1052426 ATCCTATTTTTTGGAGTTTGAATC
1 ATCCTATTTTTAGGAGTTTGAATC
1052450 ATAGTAGGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:1058434 original size:32 final size:32
Alignment explanation
Indices: 1058392--1058455 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1058382 AGAAGAGAAG
* * *
1058392 GGAAACAGGGTAAATTACACCATGAGTCATTA
1 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
1058424 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
1 GGAAAAAGGGTAAATTAAACCACGAGTCATTA
1058456 AACTTTACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (32 bp):
GGAAAAAGGGTAAATTAAACCACGAGTCATTA
Found at i:1059213 original size:59 final size:60
Alignment explanation
Indices: 1059150--1059278 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 60
1059140 AATGAATCAT
** * * * * * *
1059150 ATAGTTTGGGAATTAAACTAAAACGTTCGA-AAGTTTAAGGACTAATTTAGAAT-ATAGCC
1 ATAGTTTAAGAATGAAACTAAAACATT-GAGAAGTTTAAGGACCAATTTAAAATGAAAACC
* *
1059209 ATAGTTTAAGAATGAAATTAAAACATTTAGAAGTTTAAGGACCAATTTAAAATGAAAACC
1 ATAGTTTAAGAATGAAACTAAAACATTGAGAAGTTTAAGGACCAATTTAAAATGAAAACC
1059269 ATAGTTTAAG
1 ATAGTTTAAG
1059279 GACATATAAT
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 1 0.02
59 43 0.74
60 14 0.24
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (60 bp):
ATAGTTTAAGAATGAAACTAAAACATTGAGAAGTTTAAGGACCAATTTAAAATGAAAACC
Found at i:1063722 original size:52 final size:47
Alignment explanation
Indices: 1063666--1063843 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 47
1063656 CTTATATCGA
* *
1063666 TGTAAGTGTGTGTTAAATACTGCATTTTTTTTATTTTATTTACTTACACCGG
1 TGTAAGTATGTGTTAAATACTACA----TTTT-TTTTATTTACTTACACCGG
*
1063718 TGTAAGTATGTGTTAAGTACTACATTTTTTTTATTTACTTACACCGG
1 TGTAAGTATGTGTTAAATACTACATTTTTTTTATTTACTTACACCGG
* * * * *
1063765 TGTAAGTATGTGTTAAGTGCAATACTTTTTATTTTATTCACTTACACCAG
1 TGTAAGTATGTGTTAAAT--ACTACATTTT-TTTTATTTACTTACACCGG
*
1063815 T-TAACG-ATGTGTTAAGTTA-TACATTTTTT
1 TGTAA-GTATGTGTTAA-ATACTACATTTTTT
1063844 GTAGTATGAC
Statistics
Matches: 112, Mismatches: 9, Indels: 16
0.82 0.07 0.12
Matches are distributed among these distances:
46 2 0.02
47 44 0.39
48 5 0.04
49 20 0.18
50 20 0.18
52 21 0.19
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.48
Consensus pattern (47 bp):
TGTAAGTATGTGTTAAATACTACATTTTTTTTATTTACTTACACCGG
Found at i:1063843 original size:49 final size:49
Alignment explanation
Indices: 1063693--1063842 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 49
1063683 TACTGCATTT
1063693 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAG-TACTACA
1 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTTA-TACA
*
1063742 -TTTT-TTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTGCAATAC-
1 TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGT--TATACA
* *
1063790 TTTTTATTTTATTCACTTACACCAGT-TAACG-ATGTGTTAAGTTATACA
1 TTTTTATTTTATTTACTTACACCGGTGTAA-GTATGTGTTAAGTTATACA
1063838 TTTTT
1 TTTTT
1063843 TGTAGTATGA
Statistics
Matches: 90, Mismatches: 4, Indels: 15
0.83 0.04 0.14
Matches are distributed among these distances:
47 40 0.44
48 9 0.10
49 21 0.23
50 20 0.22
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (49 bp):
TTTTTATTTTATTTACTTACACCGGTGTAAGTATGTGTTAAGTTATACA
Found at i:1064065 original size:2 final size:2
Alignment explanation
Indices: 1064058--1064085 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1064048 GTCTACATGC
1064058 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
1064086 GGTATATCCA
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:1067700 original size:36 final size:36
Alignment explanation
Indices: 1067620--1067703 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 36
1067610 ATACTTTAAA
* *
1067620 ATTTTGAATTAAATTGAATTCAAATAGAGAAAATAT
1 ATTTTAAATTAAATTGAAGTCAAATAGAGAAAATAT
* *
1067656 ACTCTTTAAATT-AATTGAAGTCAAATAGAGGTATATAT
1 A-T-TTTAAATTAAATTGAAGTCAAATAGA-GAAAATAT
1067694 ATTTTAAATT
1 ATTTTAAATT
1067704 CGAATAGAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
36 9 0.22
37 18 0.44
38 14 0.34
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (36 bp):
ATTTTAAATTAAATTGAAGTCAAATAGAGAAAATAT
Found at i:1072669 original size:116 final size:118
Alignment explanation
Indices: 1072442--1072681 Score: 315
Period size: 116 Copynumber: 2.1 Consensus size: 118
1072432 AGAACCCTCG
* * * * * *
1072442 TTTTTTATATTTTTAATTAAGGCCCTAAGTTTTATAATTTTATAAACTTTTTTAGTTTTTGGCCC
1 TTTTTTATATTTATAATTAAGACCCTAAGTTTTATAATTTCATAAACATGTTTAGTTTTTGACCC
* *
1072507 TCTTTTTTCTATTTCTATTATTAATTTATCCAATTTTAAATTAAATTTAACCA
66 TCTTTTTTCCATTTCTATTATTAATTCATCCAATTTTAAATTAAATTTAACCA
* *
1072560 TTTTTTATATTTAT-ATTTAGAACCCTAATTTTTATAATTTCATAAA-ATGTTTAGTTTTTGACC
1 TTTTTTATATTTATAATTAAG-ACCCTAAGTTTTATAATTTCATAAACATGTTTAGTTTTTGACC
* * * *
1072623 CTC-TTTTTCCATTTCTATTATTTATTCATTCAATTTTGAATTAAATTTAATCA
65 CTCTTTTTTCCATTTCTATTATTAATTCATCCAATTTTAAATTAAATTTAACCA
*
1072676 TGTTTT
1 TTTTTT
1072682 CTTCTTTTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
116 49 0.46
117 22 0.21
118 35 0.33
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.55
Consensus pattern (118 bp):
TTTTTTATATTTATAATTAAGACCCTAAGTTTTATAATTTCATAAACATGTTTAGTTTTTGACCC
TCTTTTTTCCATTTCTATTATTAATTCATCCAATTTTAAATTAAATTTAACCA
Found at i:1076733 original size:4 final size:4
Alignment explanation
Indices: 1076716--1076758 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
1076706 TAAGAAGATA
* *
1076716 ATAC ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1076759 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:1076763 original size:4 final size:4
Alignment explanation
Indices: 1076720--1076783 Score: 65
Period size: 4 Copynumber: 16.0 Consensus size: 4
1076710 AAGATAATAC
* * * * * * *
1076720 ATAT ATAC ATAC ATAC ATAC ATAC ATAC ATAT ATAC ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
1076768 ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT
1076784 CATTTTAGGG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (4 bp):
ATAT
Found at i:1076775 original size:12 final size:12
Alignment explanation
Indices: 1076716--1076783 Score: 82
Period size: 12 Copynumber: 5.7 Consensus size: 12
1076706 TAAGAAGATA
*
1076716 ATACATATATAC
1 ATACATATATAT
* *
1076728 ATACATACATAC
1 ATACATATATAT
*
1076740 ATACATACATAT
1 ATACATATATAT
1076752 ATACATATATAT
1 ATACATATATAT
*
1076764 ATATATATATAT
1 ATACATATATAT
*
1076776 ATATATAT
1 ATACATAT
1076784 CATTTTAGGG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (12 bp):
ATACATATATAT
Found at i:1082188 original size:344 final size:344
Alignment explanation
Indices: 1081562--1082245 Score: 1259
Period size: 344 Copynumber: 2.0 Consensus size: 344
1081552 CTATCATATT
1081562 TTCTTCTTTATATTATTGAAATTCTTTTTTTGCCCGTGGTTTTTCCCTTTTGGGTTTTAACGTAA
1 TTCTTCTTTATATTATTGAAATTCTTTTTTTGCCCGTGGTTTTTCCCTTTTGGGTTTTAACGTAA
*
1081627 ATTTTGGCGTTCTTTGTTTTTTAATCGTGTTTATTTGTTTGTCGATAATCGTTTTTTTATCATTT
66 ATTTTGGCGTTCTTTGTTTTTCAATCGTGTTTATTTGTTTGTCGATAATCGTTTTTTTATCATTT
*
1081692 CGATATTCCGCTGTTGGATCAAACATCAGGTTCTCGCTATGGCAGGTGAAGATTCAGGATGTTCT
131 CGATATTCCGCTGTTGGATCAAACATCAGGTTCTCGCTATGGCAGGTGAAGATTCAGGATATTCT
1081757 TACACAGTTAGATCTCAACGATACAATAGAAGGATTTGATGAGAAGCCGGAAACATAATGGACGA
196 TACACAGTTAGATCTCAACGATACAATAGAAGGATTTGATGAGAAGCCGGAAACATAATGGACGA
1081822 GTGAGGAAAAACTTAAGGATCCT-AACTTTCTCAGATTCATTTACACTTATCAAATCAAACTTTG
261 GTGAGGAAAAACTTAAGGATCCTAAACTTTCTCAGATTCATTTACACTTATCAAATCAAACTTTG
1081886 CAATATGTGTTAAAAGAAA
326 CAATATGTGTTAAAAGAAA
*
1081905 TTCTTCTTTTATATTATTGAAATTCTTCTTTTTTGCCCGTGGTTTTTCCCTTTTGGGTTTTCACG
1 TTCTTC-TTTATATTATTGAAATTC-T-TTTTTTGCCCGTGGTTTTTCCCTTTTGGGTTTTAACG
1081970 TAAATTTTGGCGTTC-TTGTTTTTCAATCGTG-TTATTTGTTTGTCGATAATCG-TTTTTTATCA
63 TAAATTTTGGCGTTCTTTGTTTTTCAATCGTGTTTATTTGTTTGTCGATAATCGTTTTTTTATCA
*
1082032 TTTCGATATTCCGCTGTTGGATCTAAACATCAGGTTCTCGCTATGGCAGGTGTAGATTCAGGATA
128 TTTCGATATTCCGCTGTTGGATC-AAACATCAGGTTCTCGCTATGGCAGGTGAAGATTCAGGATA
*
1082097 TTCTTACACAGTTAGATCTCAATGATACAATAGAAGGATTTGATGAGAAGCCGGAAACATAATGG
192 TTCTTACACAGTTAGATCTCAACGATACAATAGAAGGATTTGATGAGAAGCCGGAAACATAATGG
1082162 ACGAGTGAGGAAAAACTTAAGGATCCTAAACTTTCTCAGATTCATTTACACTTATCAAATCAAAC
257 ACGAGTGAGGAAAAACTTAAGGATCCTAAACTTTCTCAGATTCATTTACACTTATCAAATCAAAC
1082227 TTTGCAATATGTGTTAAAA
322 TTTGCAATATGTGTTAAAA
1082246 TAAAAAATAG
Statistics
Matches: 331, Mismatches: 5, Indels: 8
0.96 0.01 0.02
Matches are distributed among these distances:
343 39 0.12
344 169 0.51
345 72 0.22
346 51 0.15
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (344 bp):
TTCTTCTTTATATTATTGAAATTCTTTTTTTGCCCGTGGTTTTTCCCTTTTGGGTTTTAACGTAA
ATTTTGGCGTTCTTTGTTTTTCAATCGTGTTTATTTGTTTGTCGATAATCGTTTTTTTATCATTT
CGATATTCCGCTGTTGGATCAAACATCAGGTTCTCGCTATGGCAGGTGAAGATTCAGGATATTCT
TACACAGTTAGATCTCAACGATACAATAGAAGGATTTGATGAGAAGCCGGAAACATAATGGACGA
GTGAGGAAAAACTTAAGGATCCTAAACTTTCTCAGATTCATTTACACTTATCAAATCAAACTTTG
CAATATGTGTTAAAAGAAA
Found at i:1084103 original size:19 final size:19
Alignment explanation
Indices: 1084072--1084117 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
1084062 TATGAGTTGT
1084072 ATTTATGTAAGAAATGATGA
1 ATTTAT-TAAGAAATGATGA
1084092 ATTTATTAAGAAATGATGA
1 ATTTATTAAGAAATGATGA
1084111 ATTTATT
1 ATTTATT
1084118 TCTGACTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.41
Consensus pattern (19 bp):
ATTTATTAAGAAATGATGA
Found at i:1086141 original size:25 final size:24
Alignment explanation
Indices: 1086092--1086145 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
1086082 AATGTGCCCG
*
1086092 ATATATACATGAATAAAACATGTA
1 ATATATACATGAATAAAACAAGTA
*
1086116 ATATGTACAT-AATATAATACAAGTA
1 ATATATACATGAATA-AA-ACAAGTA
1086141 ATATA
1 ATATA
1086146 AAATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.16
24 11 0.44
25 10 0.40
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.31
Consensus pattern (24 bp):
ATATATACATGAATAAAACAAGTA
Found at i:1089148 original size:656 final size:657
Alignment explanation
Indices: 1087847--1089158 Score: 2150
Period size: 656 Copynumber: 2.0 Consensus size: 657
1087837 ATAATTACAC
1087847 ATTTGATCATCAATACTTGTATATTCAATCAATTTGGTTGGATTCTATTGAAAATAAATTTGAGA
1 ATTTGATCATCAATACTTGTATATTCAATCAATTTGGTTGGATTCTATTGAAAATAAATTTGAGA
* * *
1087912 TAACATGTATCTGTGGAGATTGATTCTAGGTCTTTAGGTTGGAAGTGGAGGGTCTAAGCAACTAG
66 TAACATGTATCTGTGGAGATTGAATCTAGGTCTTTAAGTTGGAAGTGGAGGGCCTAAGCAACTAG
* * *
1087977 ACCAAATGCTTTAATTGATTAATTTAGGGTAAATTATAGTAAATACCACCCAACTATAACCCCTT
131 ACCAAATGCTTCAATTGATTAATTTAGGGTAAATTATACTAAAGACCACCCAACTATAACCCCTT
** *
1088042 TTTCATTTCGACCACCATTTTTGAATTCTTGTCAATTAGATTACCCATATTAAATGCATTCATAG
196 TTTCATTTCGACCACCATTTTTGAATTCTTGTCAATTAGACCACCAATATTAAATGCATTCATAG
*
1088107 ACCAACTGGTATATTACATTTAGTCCTCGATATTTATACATTCTTTAGTTTGGTCATAATTTTAA
261 ACCAACTGGGATATTACATTTAGTCCTCGATATTTATACATTCTTTAGTTTGGTCATAATTTTAA
*
1088172 TTCAATTTGATAAATTTAACTTCCAATTAGTGTTAACATGTGTCACTACTAGATTGGAGGATATT
326 TTCAATTTGATAAATTTAACCTCCAATTAGTGTTAACATGTGTCACTACTAGATTGGAGGATATT
* * * *
1088237 ATTAATTGTAATTGTTTATTTTATTTTATTTTGTATTGAATCGGGTTGTGACACGTGTCACCATC
391 ATTAATTGTAATTATTTATATTA-TTTATTTTGTATCGAATCGGGTGGTGACACG-GTCACCATC
1088302 TTATTGGATACAAAATGTTGAAAATTTTCAACTTGCTCGGGTGGATCTAACCAACACCCCACAAC
454 TTATTGGATACAAAATGTTGAAAATTTTCAACTTGCTCGGGTGGATCTAACCAACACCCCACAAC
*
1088367 TCCTTTAGGAGCATACCAAAACCGTTGAGTTGAGTCCCTCAATTGGTATTGTATTCCAACATTAT
519 CCCTTTAGGAGCATACCAAAACCGTTGAGTTGAGTCCCTCAATTGGTATTGTATTCCAACATTAT
* *
1088432 ATATGTAATATGTTCAAACTAATGGTAGAGAAAAATAAGAAACTAACATATATTTAAAAAAAGTA
584 ATATATAATATGTTCAAACCAATGGTAGAGAAAAATAAGAAACTAACATATATTT-AAAAAAGTA
1088497 AAATTTATCA
648 AAATTTATCA
1088507 ATTTGATCATCAATACTTGTATATTCAATC-ATTTGGTTGGATTCTATTGAAAATAAATTTGAGA
1 ATTTGATCATCAATACTTGTATATTCAATCAATTTGGTTGGATTCTATTGAAAATAAATTTGAGA
*
1088571 TAACATGTATTTGTGGAGATTGAATCTAGGTCTTTAAGTTGGAAGTGGA-GGCCTAAGCAACTAG
66 TAACATGTATCTGTGGAGATTGAATCTAGGTCTTTAAGTTGGAAGTGGAGGGCCTAAGCAACTAG
*
1088635 ACCAAATGCTTCAATTGATTAATTTATGGTAAATTATACTAAAGACCACCCAACTATAACCCCTT
131 ACCAAATGCTTCAATTGATTAATTTAGGGTAAATTATACTAAAGACCACCCAACTATAACCCCTT
1088700 TTTCATTTCGACCACCATTTTTGAATTCTTGTCAATTAGACCACTCAACTATTTAAATGCATTCA
196 TTTCATTTCGACCACCATTTTTGAATTCTTGTCAATTAGACCAC-CAA-TA-TTAAATGCATTC-
1088765 ATCAGACCAACTGGGATAATTACACATTTAGTCCTC-A-A-TTATACATTCTTTAGTTTGGTCAT
257 AT-AGACCAACTGGGAT-ATT--ACATTTAGTCCTCGATATTTATACATTCTTTAGTTTGGTCAT
1088827 AATTTTAATTCAATTTGATAAATTTAACCTCCAATTAGGTGTT-A-ATGTGTCACTACTAGATTG
318 AATTTTAATTCAATTTGATAAATTTAACCTCCAATTA-GTGTTAACATGTGTCACTACTAGATTG
1088890 G-GAGATATTTTATTAATT-TAATTATTTA-ATTA-TTATTTTGTATCGAATCGGGTGGTGACAC
382 GAG-GATA--TTATTAATTGTAATTATTTATATTATTTATTTTGTATCGAATCGGGTGGTGACAC
*
1088951 -GTCACCATCTTATT-GATACAAAATGTTGAAAATTTTC-ACTTTCTCGGGTGGATCTAACCAAC
444 GGTCACCATCTTATTGGATACAAAATGTTGAAAATTTTCAACTTGCTCGGGTGGATCTAACCAAC
* *
1089013 ACCCCACAACCCCTTTAGGAGCATACCAAAACTGTTGAGTTGAGTCCCTCAATTGGTATTGTGTT
509 ACCCCACAACCCCTTTAGGAGCATACCAAAACCGTTGAGTTGAGTCCCTCAATTGGTATTGTATT
* *
1089078 CCAACATTTTATATATAATATGTTCTAACCAATGGTAGAGAAAAATAAGAAAC-AACATATATTT
574 CCAACATTATATATATAATATGTTCAAACCAATGGTAGAGAAAAATAAGAAACTAACATATA-TT
1089142 TAAAAAAGTAAAATTTA
638 TAAAAAAGTAAAATTTA
1089159 AATTCTATAT
Statistics
Matches: 614, Mismatches: 25, Indels: 31
0.92 0.04 0.05
Matches are distributed among these distances:
655 24 0.04
656 138 0.22
657 23 0.04
658 131 0.21
659 82 0.13
660 59 0.10
661 13 0.02
662 29 0.05
663 83 0.14
664 18 0.03
665 1 0.00
666 13 0.02
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (657 bp):
ATTTGATCATCAATACTTGTATATTCAATCAATTTGGTTGGATTCTATTGAAAATAAATTTGAGA
TAACATGTATCTGTGGAGATTGAATCTAGGTCTTTAAGTTGGAAGTGGAGGGCCTAAGCAACTAG
ACCAAATGCTTCAATTGATTAATTTAGGGTAAATTATACTAAAGACCACCCAACTATAACCCCTT
TTTCATTTCGACCACCATTTTTGAATTCTTGTCAATTAGACCACCAATATTAAATGCATTCATAG
ACCAACTGGGATATTACATTTAGTCCTCGATATTTATACATTCTTTAGTTTGGTCATAATTTTAA
TTCAATTTGATAAATTTAACCTCCAATTAGTGTTAACATGTGTCACTACTAGATTGGAGGATATT
ATTAATTGTAATTATTTATATTATTTATTTTGTATCGAATCGGGTGGTGACACGGTCACCATCTT
ATTGGATACAAAATGTTGAAAATTTTCAACTTGCTCGGGTGGATCTAACCAACACCCCACAACCC
CTTTAGGAGCATACCAAAACCGTTGAGTTGAGTCCCTCAATTGGTATTGTATTCCAACATTATAT
ATATAATATGTTCAAACCAATGGTAGAGAAAAATAAGAAACTAACATATATTTAAAAAAGTAAAA
TTTATCA
Found at i:1091051 original size:24 final size:24
Alignment explanation
Indices: 1091017--1091064 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1091007 CTCATACGAT
*
1091017 ATATTTTCTAACATAAAATTTTAC
1 ATATTTCCTAACATAAAATTTTAC
1091041 ATATTTCCTAACATAAAATTTTAC
1 ATATTTCCTAACATAAAATTTTAC
1091065 GTTATTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTCCTAACATAAAATTTTAC
Found at i:1091899 original size:3 final size:3
Alignment explanation
Indices: 1091891--1091928 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1091881 ATCCCTCCTT
1091891 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1091929 ACAACTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:1099736 original size:18 final size:18
Alignment explanation
Indices: 1099709--1099754 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
1099699 AGTAGGGATG
* *
1099709 TTTAAATAATCGAACTAA
1 TTTAATTAATCGAACGAA
*
1099727 TTTAATTAATCGATCGAA
1 TTTAATTAATCGAACGAA
*
1099745 TTGAATTAAT
1 TTTAATTAAT
1099755 TTGGTTTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.39
Consensus pattern (18 bp):
TTTAATTAATCGAACGAA
Found at i:1100059 original size:183 final size:183
Alignment explanation
Indices: 1099855--1100204 Score: 571
Period size: 183 Copynumber: 1.9 Consensus size: 183
1099845 ATTAAATTTT
* * * *
1099855 AAATTTTAAATATATTATATATAACATATG-GTTCAGTCCAAACAATTTAAAAC-CAAATTAATA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAACTC-AATTAATA
1099918 ATTTAAGATAT-AATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAAT
65 ATTTAAGAT-TCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAATTATATAAAAT
*
1099982 TTTTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTTTTAATTAA
128 TTTTATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTTAATTAA
*
1100038 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACCATTTAAAACTCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
* *
1100103 TTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATCTGAAATTTT
66 TTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
1100168 TATTTTATAATTATATATTATTTAAATTTATTATAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAA
1100205 CTTTTTAAAA
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
183 83 0.54
184 71 0.46
185 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAACATATGAGCTAAGCCCAAACAATTTAAAACTCAATTAATAA
TTTAAGATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAATTGTTTTTTTAATTAA
Found at i:1100371 original size:27 final size:30
Alignment explanation
Indices: 1100318--1100373 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
1100308 TAATATTTTC
*
1100318 GAAAAAAAATTCGGTTTGATTAACGGTTAAA
1 GAAAAAAAATTCGGTTTAATT-ACGGTTAAA
1100349 GAAAAAAAA-TCGG-TTAATT-CGGTTA
1 GAAAAAAAATTCGGTTTAATTACGGTTA
1100374 TGATTAATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 6 0.25
29 5 0.21
30 4 0.17
31 9 0.38
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (30 bp):
GAAAAAAAATTCGGTTTAATTACGGTTAAA
Found at i:1101082 original size:31 final size:31
Alignment explanation
Indices: 1101047--1101168 Score: 199
Period size: 31 Copynumber: 3.9 Consensus size: 31
1101037 TCATACCTGA
1101047 CGTTTACTTTTTGTTTCATTTTAGTACCCAT
1 CGTTTACTTTTTGTTTCATTTTAGTACCCAT
1101078 CGTTTACTTTTTGTTTCATTTTAGTACCCAT
1 CGTTTACTTTTTGTTTCATTTTAGTACCCAT
*
1101109 CTTTTACTTTTTGTTTCATTTTAGTACCTCAT
1 CGTTTACTTTTTGTTTCATTTTAGTACC-CAT
* * *
1101141 TGTTAACTATTTGTTTCATTTTAGTACC
1 CGTTTACTTTTTGTTTCATTTTAGTACC
1101169 TAAATTTTTA
Statistics
Matches: 85, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
31 58 0.68
32 27 0.32
ACGTcount: A:0.17, C:0.18, G:0.09, T:0.56
Consensus pattern (31 bp):
CGTTTACTTTTTGTTTCATTTTAGTACCCAT
Found at i:1101117 original size:62 final size:63
Alignment explanation
Indices: 1101049--1101168 Score: 206
Period size: 63 Copynumber: 1.9 Consensus size: 63
1101039 ATACCTGACG
* *
1101049 TTTACTTTTTGTTTCATTTTAGTACC-CATCGTTTACTTTTTGTTTCATTTTAGTACCCATCT
1 TTTACTTTTTGTTTCATTTTAGTACCTCATCGTTAACTATTTGTTTCATTTTAGTACCCATCT
*
1101111 TTTACTTTTTGTTTCATTTTAGTACCTCATTGTTAACTATTTGTTTCATTTTAGTACC
1 TTTACTTTTTGTTTCATTTTAGTACCTCATCGTTAACTATTTGTTTCATTTTAGTACC
1101169 TAAATTTTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
62 26 0.48
63 28 0.52
ACGTcount: A:0.17, C:0.17, G:0.08, T:0.57
Consensus pattern (63 bp):
TTTACTTTTTGTTTCATTTTAGTACCTCATCGTTAACTATTTGTTTCATTTTAGTACCCATCT
Found at i:1101754 original size:43 final size:42
Alignment explanation
Indices: 1101597--1102133 Score: 275
Period size: 43 Copynumber: 12.3 Consensus size: 42
1101587 TTTTTTCATT
* *** *
1101597 TTTATAATT-AGGCTCCTAATTTTTAAATTTTATTTTTTACC
1 TTTATAATTGAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
* * * * * * *
1101638 TTTATAATTAATG-TTCTAACTTTATTCAATCTCACTTTTTATC
1 TTTATAATTGAGGCTCCTAA-TTT-TTTAATCCCATTTTTTAAC
* ** ** *
1101681 TTTATAATTGGAGTCT-CTAATTTTACAATCCTTTTTTTTCAC
1 TTTATAATT-GAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
* *
1101723 ATTTATAATTGAGGCTCCTATTTTTTTAATCCCACTTTTTAAC
1 -TTTATAATTGAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
* *
1101766 TTTATAATTGAGGC-CCTTAATTTTTTTAATCTCACTTTCTTCCTTTTTTACC
1 TTTATAATTGAGGCTCC-TAA-TTTTTTAA--T--C---C--CATTTTTTAAC
*
1101818 TTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAAC
1 TTTATAATTGAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
* * * * * *
1101860 TTTATAATTGAGGC-CCTTATGATTTCTCAATCTCACTTTCTATC
1 TTTATAATTGAGGCTCC-TA--ATTTTTTAATCCCATTTTTTAAC
* * * * * * *
1101904 TTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACC
1 TTTATAATTGAGGCTCCTAA-TTTTTT-AATCCCATTTTTTAAC
* * *
1101948 TTTATAATTGAGACCCCTAATTTTTTAATCTCACTTTTTTAAC
1 TTTATAATTGAGGCTCCTAATTTTTTAATCCCA-TTTTTTAAC
* * * *
1101991 TTTATAATTGAGAC-CCTTAAGTTTTTTCAATCTC-TCTTTCTACC
1 TTTATAATTGAGGCTCC-TAA-TTTTTT-AATCCCAT-TTTTTAAC
* * * * *
1102035 TTTATAATTGAGG-TCCCTAAGTTTTTTCAGTCTCA-ATTATACC
1 TTTATAATTGAGGCT-CCTAA-TTTTTT-AATCCCATTTTTTAAC
* * *
1102078 TTTATAATTGAGGCTCCTAATTTTTTTATCTCAATTTTT-AC
1 TTTATAATTGAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
*
1102119 ATTTATAATTAAGGC
1 -TTTATAATTGAGGC
1102134 CTTTAATTAT
Statistics
Matches: 399, Mismatches: 61, Indels: 71
0.75 0.11 0.13
Matches are distributed among these distances:
41 24 0.06
42 95 0.24
43 120 0.30
44 109 0.27
45 12 0.03
47 2 0.01
49 1 0.00
50 1 0.00
51 8 0.02
52 25 0.06
53 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.49
Consensus pattern (42 bp):
TTTATAATTGAGGCTCCTAATTTTTTAATCCCATTTTTTAAC
Found at i:1101822 original size:94 final size:95
Alignment explanation
Indices: 1101714--1101900 Score: 288
Period size: 94 Copynumber: 2.0 Consensus size: 95
1101704 TACAATCCTT
* *
1101714 TTTTTTCACATTTATAATTGAGGCTCCTATTTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
1 TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
* *
1101779 CCCTTA-ATTTTTTTAATCTCACTTTCTTCC
66 CCCTTATA-TTTCTCAATCTCACTTTCTTCC
* *
1101809 TTTTTT-ACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGG
1 TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
1101873 CCCTTATGATTTCTCAATCTCACTTTCT
66 CCCTTAT-ATTTCTCAATCTCACTTTCT
1101901 ATCTTTACAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
94 60 0.71
95 23 0.27
96 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.50
Consensus pattern (95 bp):
TTTTTTCACATTTATAATTGAGGCCCCTAATTTTTTAATCCCACTTTTTAACTTTATAATTGAGG
CCCTTATATTTCTCAATCTCACTTTCTTCC
Found at i:1101934 original size:44 final size:44
Alignment explanation
Indices: 1101814--1102134 Score: 332
Period size: 44 Copynumber: 7.4 Consensus size: 44
1101804 CTTCCTTTTT
* * *
1101814 TACCTTTATAATTGAGGCCCCTAA-TTTTTT-AATCCCATTTTT
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* * * * *
1101856 TAACTTTATAATTGAGGCCCTTATGATTTCTCAATCTCACTTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* * * *
1101900 TATCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* *
1101944 TACCTTTATAATTGAGACCCCTAA-TTTTTT-AATCTCACTTTTT
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCAC-TTTC
* * * *
1101987 TAACTTTATAATTGAGACCCTTAAGTTTTTTCAATCTCTCTTTC
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* * * *
1102031 TACCTTTATAATTGAGGTCCCTAAGTTTTTTCAGTCTCA-ATTA
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* * * *
1102074 TACCTTTATAATTGAGGCTCCTAA-TTTTTT-TATCTCAATTTT
1 TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
* *
1102116 TACATTTATAATTAAGGCC
1 TACCTTTATAATTGAGGCC
1102135 TTTAATTATT
Statistics
Matches: 230, Mismatches: 43, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
41 5 0.02
42 52 0.23
43 59 0.26
44 107 0.47
45 7 0.03
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.46
Consensus pattern (44 bp):
TACCTTTATAATTGAGGCCCCTAAGTTTTTTCAATCTCACTTTC
Found at i:1102014 original size:87 final size:84
Alignment explanation
Indices: 1101810--1102134 Score: 328
Period size: 87 Copynumber: 3.8 Consensus size: 84
1101800 CTTTCTTCCT
* * * *
1101810 TTTTTACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGGCC
1 TTTTTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCAATTTCTACCTTTATAATTGAGGCC
* * *
1101875 CTTATGATTTCTCAATCTCAC
66 CCTA--ATTTTTTAATCTCAC
* * * * *
1101896 TTTCTATCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGA
1 TTTTTACCTTTATAATTGAGGCCCCTAA-TTTTTT-AATCTCAATTTCTACCTTTATAATTGAGG
1101961 CCCCTAATTTTTTAATCTCAC
64 CCCCTAATTTTTTAATCTCAC
* * * **
1101982 TTTTTTAACTTTATAATTGAGACCCTTAAGTTTTTTCAATCTCTCTTTCTACCTTTATAATTGAG
1 -TTTTTACCTTTATAATTGAGGCCCCTAA-TTTTTT-AATCTCAATTTCTACCTTTATAATTGAG
* *
1102047 GTCCCTAAGTTTTTTCAGTCTCA-
63 GCCCCTAA-TTTTTT-AATCTCAC
* * * * * * *
1102070 ATTATACCTTTATAATTGAGGCTCCTAATTTTTTTATCTCAATTTTTACATTTATAATTAAGGCC
1 TTTTTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCAATTTCTACCTTTATAATTGAGGCC
1102135 TTTAATTATT
Statistics
Matches: 198, Mismatches: 36, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
85 24 0.12
86 43 0.22
87 90 0.45
88 35 0.18
89 6 0.03
ACGTcount: A:0.26, C:0.20, G:0.08, T:0.47
Consensus pattern (84 bp):
TTTTTACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCAATTTCTACCTTTATAATTGAGGCC
CCTAATTTTTTAATCTCAC
Found at i:1102030 original size:131 final size:129
Alignment explanation
Indices: 1101814--1102128 Score: 452
Period size: 131 Copynumber: 2.4 Consensus size: 129
1101804 CTTCCTTTTT
* *
1101814 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCCCATTTTTTAACTTTATAATTGAGGCCCTTA
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAACTTTATAATTGAGACCCTTA
* * *
1101879 TGATTTCTCAATCTCACTTTCTATCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTTC
66 AGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAA-TTA
*
1101944 TACCTTTATAATTGAGACCCCTAATTTTTTAATCTCACTTTTTTAACTTTATAATTGAGACCCTT
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCA-TTTTTTAACTTTATAATTGAGACCCTT
* * * * * * *
1102009 AAGTTTTTTCAATCTCTCTTTCTACCTTTATAATTGAGGTCCCTAAGTTTTTTCAGTCTCAATTA
65 AAGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTA
* * *
1102074 TACCTTTATAATTGAGGCTCCTAATTTTTTTATCTCAATTTTT-ACATTTATAATT
1 TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAAC-TTTATAATT
1102129 AAGGCCTTTA
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
128 2 0.01
129 14 0.08
130 71 0.43
131 79 0.48
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.47
Consensus pattern (129 bp):
TACCTTTATAATTGAGGCCCCTAATTTTTTAATCTCATTTTTTAACTTTATAATTGAGACCCTTA
AGATTTCTCAATCTCACTTTCTACCTTTACAATTAAGGCCCCTAAGTTTTTTCAATCTCAATTA
Found at i:1106030 original size:14 final size:15
Alignment explanation
Indices: 1106011--1106039 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1106001 TGTTAGGTTG
1106011 GGCTGTGTTT-TATA
1 GGCTGTGTTTCTATA
1106025 GGCTGTGTTTCTATA
1 GGCTGTGTTTCTATA
1106040 TAGTCATCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.48
Consensus pattern (15 bp):
GGCTGTGTTTCTATA
Found at i:1110295 original size:26 final size:26
Alignment explanation
Indices: 1110265--1110327 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1110255 TGCTTACAGG
1110265 ACACATGCAAAGTTAGTTTACATCAA
1 ACACATGCAAAGTTAGTTTACATCAA
1110291 ACACATGCAAAGTTAGTTTACATCAA
1 ACACATGCAAAGTTAGTTTACATCAA
1110317 ACACATGCAAA
1 ACACATGCAAA
1110328 AGAAGAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (26 bp):
ACACATGCAAAGTTAGTTTACATCAA
Found at i:1120144 original size:6 final size:6
Alignment explanation
Indices: 1120123--1120178 Score: 76
Period size: 6 Copynumber: 8.7 Consensus size: 6
1120113 TGGCTACTAT
1120123 GGAAGGG GGAAGGG GGAAGG GGAAGG GGAAGGGG GGAAGG GGAAGG GGAAGG
1 GGAA-GG GGAA-GG GGAAGG GGAAGG GGAA--GG GGAAGG GGAAGG GGAAGG
1120175 GGAA
1 GGAA
1120179 AAAAGATGGG
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
6 30 0.64
7 11 0.23
8 6 0.13
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGAAGG
Found at i:1120148 original size:20 final size:19
Alignment explanation
Indices: 1120123--1120176 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 19
1120113 TGGCTACTAT
1120123 GGAAGGGGGAAGGGGGAAGG
1 GGAA-GGGGAAGGGGGAAGG
1120143 GGAAGGGGAAGGGGGGAAGG
1 GGAAGGGGAA-GGGGGAAGG
1120163 GGAAGGGGAAGGGG
1 GGAAGGGGAAGGGG
1120177 AAAAAAGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.30, C:0.00, G:0.70, T:0.00
Consensus pattern (19 bp):
GGAAGGGGAAGGGGGAAGG
Found at i:1120164 original size:26 final size:26
Alignment explanation
Indices: 1120124--1120178 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 26
1120114 GGCTACTATG
1120124 GAAGGGGGAAGGGGGAAGGGGAAGGG
1 GAAGGGGGAAGGGGGAAGGGGAAGGG
1120150 GAAGGGGGGAA-GGGGAAGGGGAAGGG
1 GAA-GGGGGAAGGGGGAAGGGGAAGGG
1120176 GAA
1 GAA
1120179 AAAAGATGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (26 bp):
GAAGGGGGAAGGGGGAAGGGGAAGGG
Found at i:1128947 original size:180 final size:179
Alignment explanation
Indices: 1128647--1128997 Score: 557
Period size: 180 Copynumber: 2.0 Consensus size: 179
1128637 AAGTGTTAGA
1128647 AAAAAAAGGTGAATTACTTTGATAGATTTAATATTTATATTAATATTAGAGTACTTTTAATTATT
1 AAAAAAAGGTGAATTACTTTGATAGATTTAATATTTATATTAATATTAGAGTACTTTTAATTATT
* * *
1128712 GAAAATTAAAATAATATTATTTATTTTGAATATTAGCAGGATAAATAACTTTTGAATATGTCAAT
66 GAAAATTAAAATAATATTATTTAATTTAAATATTAGCAGGATAAATAACTTTTGAATATATCAAT
*
1128777 TTAAAAAGGTATTTATTATATTTTAAACTTTGAGTATTAAAGTTTGATAG
131 TTAAAAAGGTA-TTATTATATTTTAAACTTTGAATATTAAAGTTTGATAG
*
1128827 AAAAAATGGTGAATTACTTTGATAGATTTAATATTTATATTAA-ATTCAGAGT-CTTTTTTAATT
1 AAAAAAAGGTGAATTACTTTGATAGATTTAATATTTATATTAATATT-AGAGTAC--TTTTAATT
* *
1128890 ATTGTAAATTAAAA-AATATTATTTAATTTAAATATTAGCATGATAAAT-ACTTTTTGAATATAT
63 ATTGAAAATTAAAATAATATTATTTAATTTAAATATTAGCAGGATAAATAAC-TTTTGAATATAT
*
1128953 CAATTTAAAAAGGTATTATTATCTTTTAAACTTTGAATATTAAAG
127 CAATTTAAAAAGGTATTATTATATTTTAAACTTTGAATATTAAAG
1128998 AAAATTATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
179 34 0.21
180 104 0.65
181 21 0.13
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (179 bp):
AAAAAAAGGTGAATTACTTTGATAGATTTAATATTTATATTAATATTAGAGTACTTTTAATTATT
GAAAATTAAAATAATATTATTTAATTTAAATATTAGCAGGATAAATAACTTTTGAATATATCAAT
TTAAAAAGGTATTATTATATTTTAAACTTTGAATATTAAAGTTTGATAG
Found at i:1129604 original size:80 final size:79
Alignment explanation
Indices: 1129466--1129626 Score: 259
Period size: 80 Copynumber: 2.0 Consensus size: 79
1129456 AATAAAAAGA
* *
1129466 GTATTTTTTATTTCCTTTTAACTCTCTTTTGTTTTAAAAAAATTTAATTCCTTATTTTATTTTCT
1 GTATTTTTTATTTCCTTTCAACTATCTTTTGTTTTAAAAAAATTTAATTCCTTATTTTATTTTCT
*
1129531 CATGTTCGAATTTC
66 CAAGTTCGAATTTC
* * *
1129545 GTATATTTTTATTTCCTTTCAATTATCTTTTGTTTTAAAGAAATTTAATTCCTTCTTTTATTTTC
1 GTAT-TTTTTATTTCCTTTCAACTATCTTTTGTTTTAAAAAAATTTAATTCCTTATTTTATTTTC
1129610 TCAAGTTCGAATTTC
65 TCAAGTTCGAATTTC
1129625 GT
1 GT
1129627 CTCGGATTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
79 4 0.05
80 71 0.95
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (79 bp):
GTATTTTTTATTTCCTTTCAACTATCTTTTGTTTTAAAAAAATTTAATTCCTTATTTTATTTTCT
CAAGTTCGAATTTC
Found at i:1133199 original size:15 final size:15
Alignment explanation
Indices: 1133179--1133213 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1133169 ACAACTTGAG
1133179 GGTCATGTTGTTATA
1 GGTCATGTTGTTATA
*
1133194 GGTCATGTTGTTCTA
1 GGTCATGTTGTTATA
1133209 GGTCA
1 GGTCA
1133214 AGAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (15 bp):
GGTCATGTTGTTATA
Found at i:1138805 original size:115 final size:116
Alignment explanation
Indices: 1138634--1138864 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 116
1138624 AGCATTGTCC
1138634 TCAATGCTGAAAGAGAACTATACTAAATATAAACTATATGCCATGCAATGAAATACAACTAAATG
1 TCAATGCTGAAAGAGAACTATACTAAATATAAACTATATGCCATGCAATGAAATACAACTAAATG
1138699 AGAATGAATGTAAGAGAGGTACCTCAATGAGTGCGTGGTGTTGCCTTGGAG
66 AGAATGAATGTAAGAGAGGTACCTCAATGAGTGCGTGGTGTTGCCTTGGAG
1138750 TCAATGCTGAAAGAGAACTATACT-AATATAAACTATATGCCATGCAATGAAATACAACTAAATG
1 TCAATGCTGAAAGAGAACTATACTAAATATAAACTATATGCCATGCAATGAAATACAACTAAATG
1138814 AGAATGAATGTAAGAGAGGTACCTCAATGAGTGCGTGGTGTTGCCTTGGAG
66 AGAATGAATGTAAGAGAGGTACCTCAATGAGTGCGTGGTGTTGCCTTGGAG
1138865 GTGCTAGCAG
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 91 0.79
116 24 0.21
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.25
Consensus pattern (116 bp):
TCAATGCTGAAAGAGAACTATACTAAATATAAACTATATGCCATGCAATGAAATACAACTAAATG
AGAATGAATGTAAGAGAGGTACCTCAATGAGTGCGTGGTGTTGCCTTGGAG
Found at i:1140351 original size:19 final size:20
Alignment explanation
Indices: 1140329--1140372 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1140319 GAGAAAAAGT
*
1140329 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAAAGAAAGAG
*
1140348 AAAAATTAATAAAGAAAGAG
1 AAAAGTTAATAAAGAAAGAG
1140368 AAAAG
1 AAAAG
1140373 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.14
Consensus pattern (20 bp):
AAAAGTTAATAAAGAAAGAG
Found at i:1147283 original size:24 final size:24
Alignment explanation
Indices: 1147239--1147288 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1147229 ATAAAGAACT
*
1147239 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAATAAACCATTA
*
1147263 AAAATAAAGTTAAA-ACAACCATTA
1 AAAATAAACTTAAATA-AACCATTA
1147287 AA
1 AA
1147289 TCAACCACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.62, C:0.12, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAATAAACCATTA
Found at i:1156206 original size:20 final size:20
Alignment explanation
Indices: 1156190--1156253 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
1156180 AAGAGTATTA
*
1156190 ATACCAAGGATAGAGTATCG
1 ATACCAAGGGTAGAGTATCG
1156210 ATACCAAGGGTAGAGTATCG
1 ATACCAAGGGTAGAGTATCG
*
1156230 GTACCAAGGGTAGAGTATCG
1 ATACCAAGGGTAGAGTATCG
1156250 ATAC
1 ATAC
1156254 TCCCAATAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (20 bp):
ATACCAAGGGTAGAGTATCG
Found at i:1166422 original size:22 final size:21
Alignment explanation
Indices: 1166392--1166445 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
1166382 CGACCCAAAC
*
1166392 CTAAAAAAATTGTGTACTTTT
1 CTAAAAAAATTGTGTAATTTT
*
1166413 CTTTAAAAAAA-CGTGTAATTTT
1 C--TAAAAAAATTGTGTAATTTT
1166435 CTAAAAAAATT
1 CTAAAAAAATT
1166446 ACCCGGCTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 8 0.30
21 1 0.04
22 10 0.37
23 8 0.30
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.39
Consensus pattern (21 bp):
CTAAAAAAATTGTGTAATTTT
Found at i:1166550 original size:16 final size:16
Alignment explanation
Indices: 1166531--1166561 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1166521 AAAATATAAA
1166531 ATATAATGGATTATTT
1 ATATAATGGATTATTT
*
1166547 ATATTATGGATTATT
1 ATATAATGGATTATT
1166562 AGATTTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (16 bp):
ATATAATGGATTATTT
Found at i:1168556 original size:23 final size:23
Alignment explanation
Indices: 1168504--1168559 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
1168494 ATTTGTGAAT
*
1168504 ATATTCATTTAACGTTCACGAAC
1 ATATTTATTTAACGTTCACGAAC
*
1168527 ATATTTATTTAACGTTCGCGAAC
1 ATATTTATTTAACGTTCACGAAC
*
1168550 ATGTTTATTT
1 ATATTTATTT
1168560 CGTGTACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (23 bp):
ATATTTATTTAACGTTCACGAAC
Found at i:1174126 original size:4 final size:4
Alignment explanation
Indices: 1174119--1174406 Score: 220
Period size: 4 Copynumber: 72.2 Consensus size: 4
1174109 CACACACATA
* * * *
1174119 CTCT CTCT CTCT CCCT CTCT CTCT TTCC CTCT CTCC CTCAT -TCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTC-T CTCT CTCT
* * * * *
1174167 CTCC CTCT CCCT CTCT CTCT CCCT CTCT CTCT CTCT CCCT CCCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * *
1174215 CTCT CCCT CCCT CCCT CTCT CTCC CTCC CTCC CTCC CTCT CTCC CTCC
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * * * * * *
1174263 CTCC CTCG CTCT CTCC CTCC CTCC CTCT CGCT CGC- CTCC CTCC CTCG
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * * *
1174310 CTCC CTCC CTCC CTCC CTCC CTCT CTCT CTCC CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * *
1174358 CCCT CCCT CTCT CTCT CTCC CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1174406 C
1 C
1174407 GTGTGATTAC
Statistics
Matches: 245, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
3 3 0.01
4 242 0.99
ACGTcount: A:0.00, C:0.61, G:0.01, T:0.38
Consensus pattern (4 bp):
CTCT
Found at i:1174140 original size:16 final size:16
Alignment explanation
Indices: 1174119--1174406 Score: 264
Period size: 16 Copynumber: 18.7 Consensus size: 16
1174109 CACACACATA
1174119 CTCTCTCTCTCTCCCT
1 CTCTCTCTCTCTCCCT
1174135 CTCTCTCT-T-TCCCT
1 CTCTCTCTCTCTCCCT
*
1174149 CTCTC-C-CTCAT-TCT
1 CTCTCTCTCTC-TCCCT
*
1174163 CTCTCTCCCTCTCCCT
1 CTCTCTCTCTCTCCCT
* *
1174179 CTCTCTCTCCCTCTCT
1 CTCTCTCTCTCTCCCT
*
1174195 CTCTCTCTCCCTCCCT
1 CTCTCTCTCTCTCCCT
*
1174211 CTCTCTCTCCCTCCCT
1 CTCTCTCTCTCTCCCT
1174227 C-C-CTCTCTCTCCCT
1 CTCTCTCTCTCTCCCT
1174241 C-C-CTC-C-CTCCCT
1 CTCTCTCTCTCTCCCT
* *
1174253 CTCTCCCTCCCTCCCT
1 CTCTCTCTCTCTCCCT
* *
1174269 CGCTCTCTCCCTCCCT
1 CTCTCTCTCTCTCCCT
*
1174285 C-C-CTCTCGCTCGCCT
1 CTCTCTCTCTCTC-CCT
* * *
1174300 CCCTCCCTCGCTCCCT
1 CTCTCTCTCTCTCCCT
* * *
1174316 CCCTCCCTCCCTCCCT
1 CTCTCTCTCTCTCCCT
*
1174332 CTCTCTCTC-C-CTCT
1 CTCTCTCTCTCTCCCT
1174346 CTCTCTCTCTCTCCCT
1 CTCTCTCTCTCTCCCT
1174362 CCCTCTCTCTCTCTCCCT
1 --CTCTCTCTCTCTCCCT
*
1174380 CTCTCTCTCTCTCTCT
1 CTCTCTCTCTCTCCCT
1174396 CTCTCTCTCTC
1 CTCTCTCTCTC
1174407 GTGTGATTAC
Statistics
Matches: 237, Mismatches: 18, Indels: 34
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.03
13 4 0.02
14 55 0.23
15 13 0.05
16 134 0.57
17 8 0.03
18 16 0.07
ACGTcount: A:0.00, C:0.61, G:0.01, T:0.38
Consensus pattern (16 bp):
CTCTCTCTCTCTCCCT
Found at i:1183075 original size:20 final size:20
Alignment explanation
Indices: 1183050--1183096 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
1183040 CATGAGTTAT
*
1183050 ATATATGTTTATATGTTTTG
1 ATATATGTTTATATGATTTG
*
1183070 ATATATGTTTGTATGATTTG
1 ATATATGTTTATATGATTTG
1183090 ATATATG
1 ATATATG
1183097 CTATCTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.17, T:0.55
Consensus pattern (20 bp):
ATATATGTTTATATGATTTG
Found at i:1183338 original size:30 final size:30
Alignment explanation
Indices: 1183285--1183345 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1183275 AGTCGAGGGT
* *
1183285 TACCTATGTCCTCCGGGACATATGGACAGG
1 TACCTATGTCCTCCGGAAAATATGGACAGG
* * *
1183315 TACCTATGTTCTTCGGAAAATATGGATAGG
1 TACCTATGTCCTCCGGAAAATATGGACAGG
1183345 T
1 T
1183346 CCTTCAGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (30 bp):
TACCTATGTCCTCCGGAAAATATGGACAGG
Found at i:1185600 original size:63 final size:62
Alignment explanation
Indices: 1185525--1185683 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
1185515 TTTGTTGAAG
** ** * * *
1185525 GTGCATCGATGCATATTAAGTGCATCGATGCATTAATTTTAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
** **
1185588 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
1185651 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
1185684 GCCTCCATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 82 0.99
64 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:1187254 original size:149 final size:149
Alignment explanation
Indices: 1187081--1187395 Score: 596
Period size: 149 Copynumber: 2.1 Consensus size: 149
1187071 GAGTCGAGGG
1187081 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1187146 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
1187211 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
1187230 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1187295 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTTCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
1187360 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1187379 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
1187396 TGCAATTATA
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 162 0.99
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:1187396 original size:23 final size:23
Alignment explanation
Indices: 1187363--1187407 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1187353 ATTATTATAT
*
1187363 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
1187386 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
1187408 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1190841 original size:63 final size:62
Alignment explanation
Indices: 1190766--1190924 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
1190756 TTTGTTGAAG
** ** * * *
1190766 GTGCATCGATGCATATTAAGTGCATCGATGCATTAATTTTAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
** **
1190829 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
1190892 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
1190925 GCCTCCATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 82 0.99
64 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:1192496 original size:149 final size:149
Alignment explanation
Indices: 1192323--1192628 Score: 594
Period size: 149 Copynumber: 2.1 Consensus size: 149
1192313 GAGTCGAGGG
1192323 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1192388 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAATATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
1192453 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1192472 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1192537 ACTTGATCCCTAATATATGTATATGATTCTTAAGGAATAATATGTGGTTCTTATGGACATTATTA
66 ACTTGATCCCTAATATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
1192602 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1192621 TCTACGCG
1 TCTACGCG
1192629 ACACTTCGGT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 155 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAATATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:1196090 original size:63 final size:62
Alignment explanation
Indices: 1196015--1196173 Score: 192
Period size: 63 Copynumber: 2.5 Consensus size: 62
1196005 TTTGTTGAAG
** ** * * *
1196015 GTGCATCGATGCATATTAAGTGCATCGATGCATTAATTTTAATACAAACATCGAATGTCGTCA
1 GTGCATCGATGCATA-GGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
** **
1196078 GTGCATCGATGCATAAGGAGTGCATCGATGCATTTCTAATAAAATGAACATCGAATGCCCTCA
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
1196141 GTGCATCGATGCATCAGGAGTGCATCGATGCAT
1 GTGCATCGATGCAT-AGGAGTGCATCGATGCAT
1196174 GCCTCCATTA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 82 0.99
64 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (62 bp):
GTGCATCGATGCATAGGAGTGCATCGATGCATTAATAATAAAACAAACATCGAATGCCCTCA
Found at i:1197746 original size:149 final size:149
Alignment explanation
Indices: 1197572--1197877 Score: 585
Period size: 149 Copynumber: 2.1 Consensus size: 149
1197562 GAGTCGAGGG
1197572 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1197637 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCATTATGGACATTATTA
1197702 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
1197721 TCTACGCGGTCCTTCTGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
1197786 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTTATTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCATTATGGACATTATTA
1197851 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1197870 TCTACGCG
1 TCTACGCG
1197878 ACACTTCGGT
Statistics
Matches: 154, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 154 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCATTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:1198602 original size:20 final size:20
Alignment explanation
Indices: 1198577--1198678 Score: 116
Period size: 20 Copynumber: 5.0 Consensus size: 20
1198567 GTGTTACAAT
1198577 GCGATACTGACTATCGCAAC
1 GCGATACTGACTATCGCAAC
*
1198597 GCGATACTGACTATCGCAAT
1 GCGATACTGACTATCGCAAC
* * *
1198617 GGGATAAT-ACAAAATCGCAAC
1 GCGATACTGAC--TATCGCAAC
*
1198638 GCGATACTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
* *
1198658 GCGATTCTGACTTTCGCAAC
1 GCGATACTGACTATCGCAAC
1198678 G
1 G
1198679 AGATTCTGAA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.75
21 13 0.19
22 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (20 bp):
GCGATACTGACTATCGCAAC
Found at i:1198683 original size:20 final size:20
Alignment explanation
Indices: 1198631--1198687 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
1198621 TAATACAAAA
*
1198631 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
1198651 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
*
1198671 TCGCAACGAGATTCTGA
1 TCGCAACGCGATTCTGA
1198688 AAATCATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:1198935 original size:20 final size:20
Alignment explanation
Indices: 1198910--1198965 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
1198900 CAACGGGGAA
1198910 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
1198930 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
1198950 ATCGCAACGAGAAAAT
1 ATCGCAACGCGAAAAT
1198966 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:1199025 original size:19 final size:19
Alignment explanation
Indices: 1198984--1199048 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
1198974 GAAATGAAAA
1198984 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
1199000 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
1199017 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1199036 TCGCATTGCGATT
1 TCGCATTGCGATT
1199049 CTCTCGTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 26 0.62
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1200681 original size:41 final size:42
Alignment explanation
Indices: 1200627--1200718 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
1200617 CCTCTTCAAC
* *
1200627 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
1200668 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
1200710 GATGACAGG
1 GATGACAGG
1200719 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:1200683 original size:21 final size:21
Alignment explanation
Indices: 1200654--1200714 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
1200644 GAACGGTGGG
*
1200654 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
1200675 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
1200696 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
1200715 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:1201079 original size:20 final size:20
Alignment explanation
Indices: 1201054--1201106 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1201044 GAAGAATAGT
*
1201054 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAA
*
1201074 TTACTTTCGCAACGCGAAAA
1 TTACTTTCGCAACACGAAAA
* *
1201094 TGACTATCGCAAC
1 TTACTTTCGCAAC
1201107 GCGGAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAA
Found at i:1201107 original size:20 final size:20
Alignment explanation
Indices: 1201060--1201166 Score: 108
Period size: 20 Copynumber: 5.4 Consensus size: 20
1201050 TAGTTTACTT
* * * *
1201060 TCGCAACACGAAACTTACTT
1 TCGCAACGCGAAAATGACTA
1201080 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
* *
1201100 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* *
1201120 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGAAAATGACTA
* **
1201140 TCGCAATGCG-AAATGAAAA
1 TCGCAACGCGAAAATGACTA
1201159 TCGCAACG
1 TCGCAACG
1201167 ACAAAATCGC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
19 13 0.17
20 63 0.83
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:1201174 original size:14 final size:14
Alignment explanation
Indices: 1201155--1201213 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1201145 ATGCGAAATG
1201155 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1201169 AAAATCGCAATGCGAAATA
1 AAAATCGCAA--CG--A-C
1201188 AAAATCGCAACGAC
1 AAAATCGCAACGAC
1201202 AAAATCGCAACG
1 AAAATCGCAACG
1201214 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.51, C:0.24, G:0.15, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1201181 original size:33 final size:33
Alignment explanation
Indices: 1201139--1201229 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 33
1201129 GGAAATGGCT
*
1201139 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1201172 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATAAAAATCGCAACGACAAA
* * *
1201205 ATCGCAACGCGAAACACAAATCGCA
1 ATCGCAATGCGAAATAAAAATCGCA
1201230 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATAAAAATCGCAACGACAAA
Found at i:1201227 original size:19 final size:17
Alignment explanation
Indices: 1201139--1201229 Score: 68
Period size: 19 Copynumber: 5.4 Consensus size: 17
1201129 GGAAATGGCT
*
1201139 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAA-CAAA
1201158 ATCGCAA-CG--ACAAA
1 ATCGCAAGCGAAACAAA
*
1201172 ATCGCAATGCGAAATAAAA
1 ATCGCAA-GCGAAA-CAAA
1201191 ATCGCAA-CG--ACAAA
1 ATCGCAAGCGAAACAAA
1201205 ATCGCAACGCGAAACACAA
1 ATCGCAA-GCGAAACA-AA
1201224 ATCGCA
1 ATCGCA
1201230 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 4 0.07
17 4 0.07
18 4 0.07
19 25 0.42
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.11
Consensus pattern (17 bp):
ATCGCAAGCGAAACAAA
Found at i:1201247 original size:19 final size:19
Alignment explanation
Indices: 1201225--1201341 Score: 101
Period size: 19 Copynumber: 6.6 Consensus size: 19
1201215 GAAACACAAA
1201225 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1201244 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1201260 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1201277 TCGCATTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1201293 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
1201310 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
1201329 TCTGCATTGCGAT
1 TC-GCATTGCGAT
1201342 AGTCATTTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 21
0.73 0.07 0.19
Matches are distributed among these distances:
14 12 0.15
15 6 0.08
16 8 0.10
17 8 0.10
18 6 0.08
19 29 0.37
20 10 0.13
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1201266 original size:14 final size:14
Alignment explanation
Indices: 1201247--1201305 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
1201237 TTTCATTTCG
1201247 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1201261 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1201278 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1201294 CGTTGCGATTTT
1 CGTTGCGATTTT
1201306 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 18 0.47
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1201272 original size:33 final size:33
Alignment explanation
Indices: 1201230--1201321 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
1201220 ACAAATCGCA
*
1201230 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1201263 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
1201296 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
1201322 AGCCATTTCT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:1201337 original size:20 final size:19
Alignment explanation
Indices: 1201306--1201349 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
1201296 TTGCGATTTT
1201306 CATTTCGCATTGCGATAGC
1 CATTTCGCATTGCGATAGC
*
1201325 CATTTCTGCATTGCGATAGT
1 CATTTC-GCATTGCGATAGC
1201345 CATTT
1 CATTT
1201350 TCGTGTTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.39
Consensus pattern (19 bp):
CATTTCGCATTGCGATAGC
Found at i:1203351 original size:14 final size:14
Alignment explanation
Indices: 1203332--1203371 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1203322 AATAAAATCG
*
1203332 CGTTGCGATTTTTT
1 CGTTGCGATTTTGT
1203346 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1203360 CATTGCGATTTT
1 CGTTGCGATTTT
1203372 CATTTCGCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.10, C:0.15, G:0.23, T:0.53
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1203603 original size:22 final size:22
Alignment explanation
Indices: 1203576--1203619 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1203566 GATGGAGATA
1203576 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1203598 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1203620 TGAGAGAGTG
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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1203876 original size:41 final size:41
Alignment explanation
Indices: 1203826--1203903 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1203816 CGAAAGTCAG
*
1203826 TATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
1 TATCACGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
*
1203867 TATCACGTTGCGATAGTCAGTATCGCGTTGCGATTTT
1 TATCACGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
1203904 CCAAATTCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (41 bp):
TATCACGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTAT
Found at i:1203900 original size:20 final size:20
Alignment explanation
Indices: 1203806--1203900 Score: 111
Period size: 20 Copynumber: 4.7 Consensus size: 20
1203796 GATTATGTAT
* *
1203806 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
1203826 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
1203846 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
*
1203867 TATCACGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
1203887 TATCGCGTTGCGAT
1 TATCGCGTTGCGAT
1203901 TTTCCAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.05
20 46 0.72
21 13 0.20
22 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:1203918 original size:21 final size:21
Alignment explanation
Indices: 1203889--1203982 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
1203879 ATAGTCAGTA
*
1203889 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1203910 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
1203931 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * **
1203952 TCGCATTCCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
1203972 TCGCATTGCGA
1 TCGCATTGCGA
1203983 ATTGGGAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
20 16 0.24
21 51 0.76
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1203919 original size:41 final size:41
Alignment explanation
Indices: 1203828--1203963 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
1203818 AAAGTCAGTA
* * ** *
1203828 TCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT-GTATT
1 TCGCATTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT
* *
1203868 ATCACGTTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT
1 -TCGCATTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT
** * *
1203910 TCGCATTGCGATTTTCCA-AATTCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATAGT-CAGTA-TCGCGTTGCGATTTTCCAAAT
*
1203952 TCGCATTCCGAT
1 TCGCATTGCGAT
1203964 TTACTTATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
41 45 0.56
42 35 0.44
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (41 bp):
TCGCATTGCGATAGTCAGTATCGCGTTGCGATTTTCCAAAT
Found at i:1204045 original size:21 final size:21
Alignment explanation
Indices: 1203982--1204039 Score: 107
Period size: 21 Copynumber: 2.7 Consensus size: 21
1203972 TCGCATTGCG
1203982 AATTGGGAAAATCGCAACGCGA
1 AATT-GGAAAATCGCAACGCGA
1204004 AATTGGAAAATCGCAACGCGA
1 AATTGGAAAATCGCAACGCGA
1204025 AATTGGAAAATCGCA
1 AATTGGAAAATCGCA
1204040 TTGCGATAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 32 0.89
22 4 0.11
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (21 bp):
AATTGGAAAATCGCAACGCGA
Found at i:1206568 original size:19 final size:20
Alignment explanation
Indices: 1206522--1206561 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1206512 ATTTTCATTT
* *
1206522 ATAATTTTTTTTATTTTAAA
1 ATAATTTTTTATATGTTAAA
1206542 ATAATTTTTTATATGTTAAA
1 ATAATTTTTTATATGTTAAA
1206562 GTATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
ATAATTTTTTATATGTTAAA
Found at i:1207091 original size:36 final size:38
Alignment explanation
Indices: 1207038--1207115 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 38
1207028 TGCTTACATC
1207038 AAAAGAATAAGAATCTA-TT-A-AATATTTAAATATTAA
1 AAAAGAATAAGAATCTATTTAACAATATTT-AATATTAA
*
1207074 AAAAG-ATAAAGACTCTATTTAACTAATATTTAATATTAA
1 AAAAGAAT-AAGAATCTATTTAAC-AATATTTAATATTAA
1207113 AAA
1 AAA
1207116 GACCTAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
35 2 0.06
36 13 0.36
37 2 0.06
38 1 0.03
39 11 0.31
40 7 0.19
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (38 bp):
AAAAGAATAAGAATCTATTTAACAATATTTAATATTAA
Found at i:1209666 original size:20 final size:20
Alignment explanation
Indices: 1209641--1209687 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1209631 TGCATGAGTT
*
1209641 ATATATGTTTATATGTTTTG
1 ATATATGTTTATATGATTTG
* *
1209661 ATATATATTTGTATGATTTG
1 ATATATGTTTATATGATTTG
1209681 ATATATG
1 ATATATG
1209688 CTATCTGATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (20 bp):
ATATATGTTTATATGATTTG
Found at i:1209909 original size:30 final size:30
Alignment explanation
Indices: 1209873--1209933 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1209863 AGTCGAGGGT
*
1209873 TACCTATGTCCTCCGGGACATATGGACAGG
1 TACCTATGTCCTCCGGAACATATGGACAGG
* * *
1209903 TACCTATGTTCTTCGGAACATATGGATAGG
1 TACCTATGTCCTCCGGAACATATGGACAGG
1209933 T
1 T
1209934 CCTTCGGGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
TACCTATGTCCTCCGGAACATATGGACAGG
Found at i:1221930 original size:21 final size:17
Alignment explanation
Indices: 1221906--1221954 Score: 53
Period size: 21 Copynumber: 2.6 Consensus size: 17
1221896 GCGTAGAATG
1221906 TGTCCCGAATGACCACTTAGA
1 TGTCCCGAA-GACCAC-T--A
1221927 TGTCCCGAAGAACCACTA
1 TGTCCCGAAG-ACCACTA
1221945 TGTCCCGAAG
1 TGTCCCGAAG
1221955 GACCTCGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 11 0.41
20 2 0.07
21 14 0.52
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (17 bp):
TGTCCCGAAGACCACTA
Found at i:1231434 original size:18 final size:18
Alignment explanation
Indices: 1231393--1231427 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1231383 GAGTGTCTAT
1231393 AATATTAAAATGATTTAC
1 AATATTAAAATGATTTAC
*
1231411 AATATTAAAATGGTTTA
1 AATATTAAAATGATTTA
1231428 ATATATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (18 bp):
AATATTAAAATGATTTAC
Found at i:1231653 original size:28 final size:28
Alignment explanation
Indices: 1231621--1231704 Score: 105
Period size: 28 Copynumber: 3.0 Consensus size: 28
1231611 ACTTAACTTT
1231621 AGGAGATTAATTTAAATTTATAAAATTA
1 AGGAGATTAATTTAAATTTATAAAATTA
* * * *
1231649 AGGAGATAAACTTAAAATTATAAAATTTT
1 AGGAGATTAATTTAAATTTATAAAA-TTA
* *
1231678 AGAAGATTAATATAAATTTATAAAATT
1 AGGAGATTAATTTAAATTTATAAAATT
1231705 CTAGAGAACG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.52, C:0.01, G:0.10, T:0.37
Consensus pattern (28 bp):
AGGAGATTAATTTAAATTTATAAAATTA
Found at i:1231684 original size:29 final size:28
Alignment explanation
Indices: 1231618--1231709 Score: 96
Period size: 29 Copynumber: 3.2 Consensus size: 28
1231608 TAAACTTAAC
*
1231618 TTTAGGAGATTAATTTAAATTTATAAAA-
1 TTTAGAAGATTAA-TTAAATTTATAAAAT
* * * *
1231646 TTAAGGAGATAAACTTAAAATTATAAAAT
1 TTTAGAAGATTAA-TTAAATTTATAAAAT
1231675 TTTAGAAGATTAATATAAATTTATAAAAT
1 TTTAGAAGATTAAT-TAAATTTATAAAAT
*
1231704 TCTAGA
1 TTTAGA
1231710 GAACGAAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
28 25 0.47
29 28 0.53
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (28 bp):
TTTAGAAGATTAATTAAATTTATAAAAT
Found at i:1245253 original size:23 final size:24
Alignment explanation
Indices: 1245223--1245267 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
1245213 AGTTGATCGC
1245223 TTCAAACAGTT-AAATGAGATAAA
1 TTCAAACAGTTAAAATGAGATAAA
1245246 TTCAAACAGTTAAAATGAGATA
1 TTCAAACAGTTAAAATGAGATA
1245268 GACAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.51, C:0.09, G:0.13, T:0.27
Consensus pattern (24 bp):
TTCAAACAGTTAAAATGAGATAAA
Found at i:1252037 original size:185 final size:185
Alignment explanation
Indices: 1251725--1252094 Score: 740
Period size: 185 Copynumber: 2.0 Consensus size: 185
1251715 TTGTGGTTTT
1251725 GAAGCTAATATATCAAGTACTTGTGGGTTAAAAGAATATCTCTCAGGGTGTGTTTGGTTGGGAAA
1 GAAGCTAATATATCAAGTACTTGTGGGTTAAAAGAATATCTCTCAGGGTGTGTTTGGTTGGGAAA
1251790 ATGTGAGATTCTCATGGGAATGGAATTCACATTCTCCCGTTTGGTTAGTCTGGAATATCATTCCC
66 ATGTGAGATTCTCATGGGAATGGAATTCACATTCTCCCGTTTGGTTAGTCTGGAATATCATTCCC
1251855 GATAATCTTACATTACCAATAGTGAATTTTTTTTGGTATATTATCGGGAATGTTA
131 GATAATCTTACATTACCAATAGTGAATTTTTTTTGGTATATTATCGGGAATGTTA
1251910 GAAGCTAATATATCAAGTACTTGTGGGTTAAAAGAATATCTCTCAGGGTGTGTTTGGTTGGGAAA
1 GAAGCTAATATATCAAGTACTTGTGGGTTAAAAGAATATCTCTCAGGGTGTGTTTGGTTGGGAAA
1251975 ATGTGAGATTCTCATGGGAATGGAATTCACATTCTCCCGTTTGGTTAGTCTGGAATATCATTCCC
66 ATGTGAGATTCTCATGGGAATGGAATTCACATTCTCCCGTTTGGTTAGTCTGGAATATCATTCCC
1252040 GATAATCTTACATTACCAATAGTGAATTTTTTTTGGTATATTATCGGGAATGTTA
131 GATAATCTTACATTACCAATAGTGAATTTTTTTTGGTATATTATCGGGAATGTTA
1252095 TTACCTCCCT
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
185 185 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (185 bp):
GAAGCTAATATATCAAGTACTTGTGGGTTAAAAGAATATCTCTCAGGGTGTGTTTGGTTGGGAAA
ATGTGAGATTCTCATGGGAATGGAATTCACATTCTCCCGTTTGGTTAGTCTGGAATATCATTCCC
GATAATCTTACATTACCAATAGTGAATTTTTTTTGGTATATTATCGGGAATGTTA
Found at i:1257710 original size:20 final size:20
Alignment explanation
Indices: 1257685--1257730 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1257675 GATTGTTATA
*
1257685 GTGATCTTATTGATCGTCAG
1 GTGATCTTATTGATCGCCAG
1257705 GTGATCTTATTGATCGCCAG
1 GTGATCTTATTGATCGCCAG
1257725 GTGATC
1 GTGATC
1257731 CAAACGATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (20 bp):
GTGATCTTATTGATCGCCAG
Found at i:1258090 original size:21 final size:21
Alignment explanation
Indices: 1258041--1258079 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1258031 ATTATTTATT
1258041 ATAT-ATATTTAATGATTTGG
1 ATATGATATTTAATGATTTGG
*
1258061 ATTTGATATTTAATGATTT
1 ATATGATATTTAATGATTT
1258080 AGTAATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (21 bp):
ATATGATATTTAATGATTTGG
Found at i:1258094 original size:16 final size:16
Alignment explanation
Indices: 1258073--1258104 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1258063 TTGATATTTA
1258073 ATGATTTAGTAATGAT
1 ATGATTTAGTAATGAT
*
1258089 ATGATTTAGTTATGAT
1 ATGATTTAGTAATGAT
1258105 TACTGTAACA
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:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (16 bp):
ATGATTTAGTAATGAT
Found at i:1259977 original size:2 final size:2
Alignment explanation
Indices: 1259970--1260012 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
1259960 CATGCATACC
*
1259970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1260012 T
1 T
1260013 TAATGTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1261286 original size:24 final size:24
Alignment explanation
Indices: 1261259--1261350 Score: 114
Period size: 24 Copynumber: 3.8 Consensus size: 24
1261249 TTTAAATATT
*
1261259 TAATCATTATTAAATAATTATTAG
1 TAATCATTATTAAATCATTATTAG
* *
1261283 TAATCGTTATTAAATCATGATTAG
1 TAATCATTATTAAATCATTATTAG
* *
1261307 TAATTATTA-TAAGTTCATTATTAG
1 TAATCATTATTAA-ATCATTATTAG
*
1261331 TAATCATTACTAAATCATTA
1 TAATCATTATTAAATCATTA
1261351 GTGTCAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
23 3 0.05
24 51 0.89
25 3 0.05
ACGTcount: A:0.41, C:0.08, G:0.07, T:0.45
Consensus pattern (24 bp):
TAATCATTATTAAATCATTATTAG
Found at i:1261384 original size:59 final size:60
Alignment explanation
Indices: 1261321--1261451 Score: 210
Period size: 60 Copynumber: 2.2 Consensus size: 60
1261311 TATTATAAGT
* *
1261321 TCATTATTAGTAATCATTACTAAATCATT-AGTGTCAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAATAAA
*
1261380 TCATTATTAGGAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAATAAA
1 TCATTATTAGTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAATAAA
* *
1261440 TAATTAGTAGTA
1 TCATTATTAGTA
1261452 TCGGTACTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
59 28 0.43
60 37 0.57
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.38
Consensus pattern (60 bp):
TCATTATTAGTAATCATTACTAAATCATTAAATATCAAATCATTAAATATTAATAATAAA
Found at i:1261416 original size:21 final size:21
Alignment explanation
Indices: 1261356--1261417 Score: 54
Period size: 24 Copynumber: 2.8 Consensus size: 21
1261346 CATTAGTGTC
*
1261356 AAATCATTAAATATTAATAAT
1 AAATCATTAAATATCAATAAT
* *
1261377 AAATCATTATTAGGA-ATCATTACT
1 AAATCATTA--A--ATATCAATAAT
1261401 AAATCATTAAATATCAA
1 AAATCATTAAATATCAA
1261418 ATCATTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 1 0.03
23 1 0.03
24 15 0.47
25 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.03, T:0.35
Consensus pattern (21 bp):
AAATCATTAAATATCAATAAT
Found at i:1261421 original size:15 final size:15
Alignment explanation
Indices: 1261401--1261429 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1261391 AATCATTACT
1261401 AAATCATTAAATATC
1 AAATCATTAAATATC
1261416 AAATCATTAAATAT
1 AAATCATTAAATAT
1261430 TAATAATAAA
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:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATCATTAAATATC
Found at i:1262221 original size:14 final size:14
Alignment explanation
Indices: 1262202--1262232 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1262192 CTCGACAAAG
1262202 CAAAACTCTATAAT
1 CAAAACTCTATAAT
1262216 CAAAACTCTATAAT
1 CAAAACTCTATAAT
1262230 CAA
1 CAA
1262233 TGAACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (14 bp):
CAAAACTCTATAAT
Found at i:1273144 original size:64 final size:63
Alignment explanation
Indices: 1273011--1273147 Score: 168
Period size: 64 Copynumber: 2.2 Consensus size: 63
1273001 TACAGAGTGT
* * * *
1273011 ATCGATGCACAGGGAGTGCATCGATGCACCCATATTAATGGAAACATCGAATGTAATTGGTGC
1 ATCGATGCACAAGGAGTGCATCGATGCACCCATATAAATGAAAACATCGAAGGTAATTGGTGC
* * * * *
1273074 ACCGATGCATAAGGAGTGCATCTATGCATCCCCT-TAAAATGAAAACATCGAAGGTGATTGGTGC
1 ATCGATGCACAAGGAGTGCATCGATGCA-CCCATAT-AAATGAAAACATCGAAGGTAATTGGTGC
1273138 ATCGATGCAC
1 ATCGATGCAC
1273148 TGTTGAATGC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
63 25 0.41
64 36 0.59
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (63 bp):
ATCGATGCACAAGGAGTGCATCGATGCACCCATATAAATGAAAACATCGAAGGTAATTGGTGC
Found at i:1283747 original size:50 final size:51
Alignment explanation
Indices: 1283643--1283748 Score: 171
Period size: 50 Copynumber: 2.1 Consensus size: 51
1283633 ATTTTGGTTT
1283643 TTTCTTTATGATTTCTTAATAAATTGTGATTAGAACCTTCGATTTTAATTATA
1 TTTCTTTATGATTTCTTAATAAA-T-TGATTAGAACCTTCGATTTTAATTATA
1283696 TTTCTTTATGATTTCTTTAATAAA-TGATTAGAACC-TCGATTTTAATTATA
1 TTTCTTTATGATTTC-TTAATAAATTGATTAGAACCTTCGATTTTAATTATA
1283746 TTT
1 TTT
1283749 TCAATTAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
50 18 0.35
51 11 0.21
53 15 0.29
54 8 0.15
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.52
Consensus pattern (51 bp):
TTTCTTTATGATTTCTTAATAAATTGATTAGAACCTTCGATTTTAATTATA
Found at i:1283860 original size:4 final size:4
Alignment explanation
Indices: 1283851--1283890 Score: 53
Period size: 4 Copynumber: 9.2 Consensus size: 4
1283841 TGGCAGCACA
1283851 TATT TATT TATT TATT TATTT TAACTT TATT TATT TATT T
1 TATT TATT TATT TATT TA-TT T-A-TT TATT TATT TATT T
1283891 TAAGGAACCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
4 25 0.76
5 4 0.12
6 4 0.12
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:1283881 original size:19 final size:19
Alignment explanation
Indices: 1283857--1283893 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
1283847 CACATATTTA
1283857 TTTATTTATTTATTTTAAC
1 TTTATTTATTTATTTTAAC
1283876 TTTATTTATTTATTTTAA
1 TTTATTTATTTATTTTAA
1283894 GGAACCTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTATTTATTTATTTTAAC
Done.