Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 49 of 128
Found at i:15522466 original size:13 final size:13
Alignment explanation
Indices: 15522450--15522474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15522440 TAACCACTTC
15522450 AATTAATTAATTT
1 AATTAATTAATTT
15522463 AATTAATTAATT
1 AATTAATTAATT
15522475 AAAACCCAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTAATTAATTT
Found at i:15523844 original size:28 final size:27
Alignment explanation
Indices: 15523811--15523877 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
15523801 CTTCCTTTAC
* *
15523811 GTTCGCCACAAGGGCA-TCTTGTTTAGAG
1 GTTCGCCACAA-GGCATTCCT-TTAAGAG
15523839 GTTCGCCACTAAGGCATTCCTTTAAGAG
1 GTTCGCCAC-AAGGCATTCCTTTAAGAG
*
15523867 GTTTGCCACAA
1 GTTCGCCACAA
15523878 AAAGCTCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 2 0.06
28 27 0.79
29 5 0.15
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (27 bp):
GTTCGCCACAAGGCATTCCTTTAAGAG
Found at i:15525434 original size:20 final size:20
Alignment explanation
Indices: 15525409--15525446 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15525399 GTTAGCCATA
*
15525409 TTCATATATATATATGTATT
1 TTCATACATATATATGTATT
15525429 TTCATACATATATATGTA
1 TTCATACATATATATGTA
15525447 CATACGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.08, G:0.05, T:0.50
Consensus pattern (20 bp):
TTCATACATATATATGTATT
Found at i:15529444 original size:14 final size:14
Alignment explanation
Indices: 15529425--15529465 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
15529415 GATGCTCCAG
15529425 ACGTCATCACGGGT
1 ACGTCATCACGGGT
*
15529439 ACGTCATCACTGGT
1 ACGTCATCACGGGT
*
15529453 ACTTCATCACGGG
1 ACGTCATCACGGG
15529466 ACTGCATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.24
Consensus pattern (14 bp):
ACGTCATCACGGGT
Found at i:15538665 original size:43 final size:43
Alignment explanation
Indices: 15538611--15538698 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
15538601 ATATGGATAA
15538611 CATTAAAAAAAAATTAACTAAAGGAAGAGGCGAATGGAAATAT
1 CATTAAAAAAAAATTAACTAAAGGAAGAGGCGAATGGAAATAT
*
15538654 CATTAAAAAAAATTTAACTAAAGGAAGAGGCGAATGGAAATAT
1 CATTAAAAAAAAATTAACTAAAGGAAGAGGCGAATGGAAATAT
15538697 CA
1 CA
15538699 CCTAGGTACC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.55, C:0.08, G:0.18, T:0.19
Consensus pattern (43 bp):
CATTAAAAAAAAATTAACTAAAGGAAGAGGCGAATGGAAATAT
Found at i:15561366 original size:14 final size:14
Alignment explanation
Indices: 15561347--15561374 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15561337 ATGACATTTT
15561347 GACATTTAAAAATC
1 GACATTTAAAAATC
15561361 GACATTTAAAAATC
1 GACATTTAAAAATC
15561375 AATAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (14 bp):
GACATTTAAAAATC
Found at i:15563682 original size:28 final size:27
Alignment explanation
Indices: 15563638--15563690 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
15563628 ATATTTATAT
*
15563638 TATATTATTTTAATATTTAATAATTTTA
1 TATATTATTTTAATATTGAA-AATTTTA
*
15563666 TATATT-TTTTATCTATTGAAAATTT
1 TATATTATTTTA-ATATTGAAAATTT
15563691 NNNNNNNNNN
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (27 bp):
TATATTATTTTAATATTGAAAATTTTA
Found at i:15564696 original size:19 final size:19
Alignment explanation
Indices: 15564661--15564733 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
15564651 ATTCAATTTA
15564661 AAATAAA-TAT-TTA-ATT
1 AAATAAATTATATTAGATT
15564677 AAATAAATTATATTAGATT
1 AAATAAATTATATTAGATT
* * * * *
15564696 ATATGAATAATATTTTGTTTT
1 AAATAAATTATA-TTAG-ATT
15564717 AAATAAATTATA-TAGAT
1 AAATAAATTATATTAGAT
15564734 ATTTAATTCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
16 7 0.17
17 3 0.07
18 4 0.10
19 14 0.33
20 3 0.07
21 11 0.26
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.45
Consensus pattern (19 bp):
AAATAAATTATATTAGATT
Found at i:15564846 original size:23 final size:23
Alignment explanation
Indices: 15564811--15564857 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15564801 TACACAATTT
15564811 ATCTATTTCATTTAACTTAAAGA
1 ATCTATTTCATTTAACTTAAAGA
* * *
15564834 ATCTTTTTTATTTAAGTTAAAGA
1 ATCTATTTCATTTAACTTAAAGA
15564857 A
1 A
15564858 ATTATCACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (23 bp):
ATCTATTTCATTTAACTTAAAGA
Found at i:15564985 original size:173 final size:168
Alignment explanation
Indices: 15564759--15565099 Score: 475
Period size: 173 Copynumber: 2.0 Consensus size: 168
15564749 AGAAATTTAA
*
15564759 AAAAAAAGATTAATACTTAATTAAATAAATCAATTAATCAATTACACAATTTATCTATTTCATTT
1 AAAAAAAGATAAATACTTAATTAAATAAATCAATTAATCAATTACACAATTTATCTATTTCATTT
* *
15564824 AACTTAAAGAATCTTTTTTATTTAAGTTAAAGAAATTATCACATTTAAAAAACAAGTATGTTTTT
66 AACATAAAGAA--TTTTTTATTTAACTTAAAGAAATTATCACA--TAAAAAA-AAGTATGTTTTT
15564889 CATATTAGATCAATTATCTATTCAATAAAATTAAGTGTTATTT
126 CATATTAGATCAATTATCTATTCAATAAAATTAAGTGTTATTT
* * * * * * * *
15564932 AAAAATAGATAAATATTTAATTAAATATATTAATTAATCTATTAGATAATTTATCTATTTGATTT
1 AAAAAAAGATAAATACTTAATTAAATAAATCAATTAATCAATTACACAATTTATCTATTTCATTT
* * *
15564997 AACATAAATAATTTTTTATTTAACTTAAAGAAATTATCACATATAAAAAAGTATTTTTTTCATAT
66 AACATAAAGAATTTTTTATTTAACTTAAAGAAATTATCACATAAAAAAAAGTATGTTTTTCATAT
* * * *
15565062 TAGATCAATTTTCTATTTAATAAAATTAATTTTTATTT
131 TAGATCAATTATCTATTCAATAAAATTAAGTGTTATTT
15565100 TCAGATTACT
Statistics
Matches: 150, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
168 50 0.33
169 6 0.04
171 29 0.19
173 65 0.43
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (168 bp):
AAAAAAAGATAAATACTTAATTAAATAAATCAATTAATCAATTACACAATTTATCTATTTCATTT
AACATAAAGAATTTTTTATTTAACTTAAAGAAATTATCACATAAAAAAAAGTATGTTTTTCATAT
TAGATCAATTATCTATTCAATAAAATTAAGTGTTATTT
Found at i:15565259 original size:19 final size:19
Alignment explanation
Indices: 15565231--15565272 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
15565221 AAAGTAGAAC
15565231 AAAAATAAATACAAA-ATTA
1 AAAAATAAAT-CAAATATTA
15565250 TAAAAA-AAATCAAATATTA
1 -AAAAATAAATCAAATATTA
15565269 AAAA
1 AAAA
15565273 TTTTACTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAAATAAATCAAATATTA
Found at i:15565903 original size:19 final size:19
Alignment explanation
Indices: 15565881--15565926 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
15565871 TTTGCTATAA
15565881 AATAAAGAGAAATGGAGAG
1 AATAAAGAGAAATGGAGAG
15565900 AATAAAGAGAAATGGAGAG
1 AATAAAGAGAAATGGAGAG
15565919 AATAAAGA
1 AATAAAGA
15565927 ACAAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.61, C:0.00, G:0.28, T:0.11
Consensus pattern (19 bp):
AATAAAGAGAAATGGAGAG
Found at i:15577031 original size:20 final size:21
Alignment explanation
Indices: 15576993--15577033 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15576983 TGAGAATGTT
*
15576993 GATGCAACTTTTTCAAAAATC
1 GATGCAACTTTTACAAAAATC
*
15577014 GATGCAAGTTTTACAAAAAT
1 GATGCAACTTTTACAAAAAT
15577034 TTCCTACTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (21 bp):
GATGCAACTTTTACAAAAATC
Found at i:15577180 original size:24 final size:24
Alignment explanation
Indices: 15577143--15577278 Score: 114
Period size: 24 Copynumber: 5.7 Consensus size: 24
15577133 AGCTGCACGG
* *
15577143 TGTGGTCAAACCACTCATTTA-CGT
1 TGTGGACAAGCCACTCA-TTAGCGT
* * * *
15577167 TGTGGCCAAGCCACTCAATATCAT
1 TGTGGACAAGCCACTCATTAGCGT
* ** *
15577191 TCTGGTTAAGCCACTCATTAGTGT
1 TGTGGACAAGCCACTCATTAGCGT
15577215 TGTGGACAAGCCACTCA-TAGCGT
1 TGTGGACAAGCCACTCATTAGCGT
* * * *
15577238 TGTGGACATGCCACTCAATATCAT
1 TGTGGACAAGCCACTCATTAGCGT
*
15577262 TGTGGACAAGTCACTCA
1 TGTGGACAAGCCACTCA
15577279 ATTTTGGAGT
Statistics
Matches: 90, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
23 23 0.26
24 67 0.74
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (24 bp):
TGTGGACAAGCCACTCATTAGCGT
Found at i:15577279 original size:24 final size:24
Alignment explanation
Indices: 15577166--15577280 Score: 117
Period size: 24 Copynumber: 4.8 Consensus size: 24
15577156 CTCATTTACG
*
15577166 TTGTGGCCAAGCCACTCAATATCA
1 TTGTGGACAAGCCACTCAATATCA
* ** * *
15577190 TTCTGGTTAAGCCACTCATTAGT-G
1 TTGTGGACAAGCCACTCAATA-TCA
* *
15577214 TTGTGGACAAGCCACTC-ATAGCG
1 TTGTGGACAAGCCACTCAATATCA
*
15577237 TTGTGGACATGCCACTCAATATCA
1 TTGTGGACAAGCCACTCAATATCA
*
15577261 TTGTGGACAAGTCACTCAAT
1 TTGTGGACAAGCCACTCAAT
15577281 TTTGGAGTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.26
24 53 0.73
25 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (24 bp):
TTGTGGACAAGCCACTCAATATCA
Found at i:15577430 original size:42 final size:42
Alignment explanation
Indices: 15577365--15577477 Score: 163
Period size: 42 Copynumber: 2.7 Consensus size: 42
15577355 GGTATTTATC
*
15577365 AGTCGACATGCTTAACATGCAAATCAAATCTAAGATCAACAT
1 AGTCGGCATGCTTAACATGCAAATCAAATCTAAGATCAACAT
* * * * * *
15577407 ATTTGGCATGCTTAACATGCAAATCAAATCTCAGTTTATCAT
1 AGTCGGCATGCTTAACATGCAAATCAAATCTAAGATCAACAT
15577449 AGTCGGCATGCTTAACATGCAAATCAAAT
1 AGTCGGCATGCTTAACATGCAAATCAAAT
15577478 ATTAGTTAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.28
Consensus pattern (42 bp):
AGTCGGCATGCTTAACATGCAAATCAAATCTAAGATCAACAT
Found at i:15579092 original size:28 final size:28
Alignment explanation
Indices: 15579051--15579115 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
15579041 TGTTTGAAAA
15579051 CACTTATTTTATAGTAAAAGCACTTAAT
1 CACTTATTTTATAGTAAAAGCACTTAAT
*
15579079 TACTTATTTTATAGTAAAAGCACTTAAT
1 CACTTATTTTATAGTAAAAGCACTTAAT
15579107 CACTTATTT
1 CACTTATTT
15579116 GATCATTCGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (28 bp):
CACTTATTTTATAGTAAAAGCACTTAAT
Found at i:15587372 original size:140 final size:138
Alignment explanation
Indices: 15587120--15587528 Score: 452
Period size: 140 Copynumber: 3.0 Consensus size: 138
15587110 TATAACTAAA
* * *
15587120 GTCGGCATAGTGTTGTACAAAGCCGACTCTTATTTTA-GTGTTGCCTTAGGCATGCGTATCCCAA
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAACGTGTTGCCTTAGGCATGCATATCCCAA
* * * * *
15587184 CCCTTATATAAATAGTTGGCCAAAGCGTATATCCACAAGTTTATCCCAAAACTTAGGAAAGCGTC
66 CCCTTATACAAATAGTTGGCCAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGGAAAG-GTC
15587249 AGTCCAAAAGT
130 -GT-CAAAAGT
* * * *
15587260 GTCGGCAGAGTGTTGGACAAAGTCGACTCTTA-TTCACGTGTTGCCTTAGGCATGCATATCCCTA
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAACGTGTTGCCTTAGGCATGCATATCCCAA
* *
15587324 CCCTTATACAAATAGTTGGACAAAGCGTATGTCGGCAAGTCTATCCCAACACTT-----A-G--G
66 CCCTTATACAAATAGTTGGCCAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGGAAAGGTCG
15587381 ---AAAGT
131 TCAAAAGT
* * * *
15587386 GTCGACATAGTGTTGGACGAAGCCGACTCTTATTTGAAC--GTTGCCTTAGGCATGCATATCTCG
1 GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTT-AACGTGTTGCCTTAGGCATGCATATCCCA
* * * *
15587449 ACCCATATACAAAGAGTTAGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGGAAAGTGT
65 ACCCTTATACAAATAGTTGGCCAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGGAAAG-GT
15587514 CGATCAAAAAGT
129 CG-TC-AAAAGT
15587526 GTC
1 GTC
15587529 ATCTTAGGAT
Statistics
Matches: 227, Mismatches: 25, Indels: 34
0.79 0.09 0.12
Matches are distributed among these distances:
126 105 0.46
127 2 0.01
128 2 0.01
130 1 0.00
131 1 0.00
133 2 0.01
135 2 0.01
139 3 0.01
140 109 0.48
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.27
Consensus pattern (138 bp):
GTCGGCATAGTGTTGGACAAAGCCGACTCTTATTTAACGTGTTGCCTTAGGCATGCATATCCCAA
CCCTTATACAAATAGTTGGCCAAAGCGTATGTCCGCAAGTCTATCCCAACACTTAGGAAAGGTCG
TCAAAAGT
Found at i:15587480 original size:126 final size:125
Alignment explanation
Indices: 15587255--15587516 Score: 382
Period size: 126 Copynumber: 2.1 Consensus size: 125
15587245 CGTCAGTCCA
* * *
15587255 AAAGTGTCGGCAGAGTGTTGGACAAAGTCGACTCTTATTCACGTGTTGCCTTAGGCATGCATATC
1 AAAGTGTCGACAGAGTGTTGGACAAAGCCGACTCTTATTAACG-GTTGCCTTAGGCATGCATATC
* * * *
15587320 CCTACCCTTATACAAATAGTTGGACAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGG
65 CCGACCCATATACAAAGAGTTAGACAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGG
* *
15587381 AAAGTGTCGACATAGTGTTGGACGAAGCCGACTCTTATTTGAAC-GTTGCCTTAGGCATGCATAT
1 AAAGTGTCGACAGAGTGTTGGACAAAGCCGACTCTTA-TT-AACGGTTGCCTTAGGCATGCATAT
* * *
15587445 CTCGACCCATATACAAAGAGTTAGCCAAAGCGTATGTCTGCAAGTCTATCCCAACACTTAGG
64 CCCGACCCATATACAAAGAGTTAGACAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGG
15587507 AAAGTGTCGA
1 AAAGTGTCGA
15587517 TCAAAAAGTG
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
126 118 0.97
127 2 0.02
128 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (125 bp):
AAAGTGTCGACAGAGTGTTGGACAAAGCCGACTCTTATTAACGGTTGCCTTAGGCATGCATATCC
CGACCCATATACAAAGAGTTAGACAAAGCGTATGTCGGCAAGTCTATCCCAACACTTAGG
Found at i:15589185 original size:43 final size:43
Alignment explanation
Indices: 15589124--15589211 Score: 160
Period size: 43 Copynumber: 2.0 Consensus size: 43
15589114 ATGTGAGATA
15589124 GAGATAAGAATTATTTAGGAATTGAATTCTATTGCAAAATATG
1 GAGATAAGAATTATTTAGGAATTGAATTCTATTGCAAAATATG
15589167 GAGATAATG-ATTATTTAGGAATTGAATTCTATTGCAAAATATG
1 GAGATAA-GAATTATTTAGGAATTGAATTCTATTGCAAAATATG
15589210 GA
1 GA
15589212 ATGATTGAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 43 0.98
44 1 0.02
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (43 bp):
GAGATAAGAATTATTTAGGAATTGAATTCTATTGCAAAATATG
Found at i:15600129 original size:15 final size:15
Alignment explanation
Indices: 15600109--15600144 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15600099 ATGACTTTCT
15600109 GGGGTTGTCAAACCC
1 GGGGTTGTCAAACCC
15600124 GGGGTTGTCAAACCC
1 GGGGTTGTCAAACCC
*
15600139 AGGGTT
1 GGGGTT
15600145 TGTTTCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.19, C:0.22, G:0.36, T:0.22
Consensus pattern (15 bp):
GGGGTTGTCAAACCC
Found at i:15600916 original size:19 final size:20
Alignment explanation
Indices: 15600892--15600930 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
15600882 GTTAGTGAAC
15600892 AAATATAAATAT-AAATAAA
1 AAATATAAATATAAAATAAA
**
15600911 AAATATTTATATAAAATAAA
1 AAATATAAATATAAAATAAA
15600931 TTACATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATATAAATATAAAATAAA
Found at i:15600929 original size:20 final size:20
Alignment explanation
Indices: 15600900--15600944 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
15600890 ACAAATATAA
15600900 ATATAAATAAA-AAATATTT
1 ATATAAATAAATAAATATTT
*
15600919 ATATAAAATAAATTACATATTT
1 ATAT-AAATAAA-TAAATATTT
15600941 ATAT
1 ATAT
15600945 TTAAAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
22 11 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
ATATAAATAAATAAATATTT
Found at i:15611700 original size:77 final size:77
Alignment explanation
Indices: 15611614--15612196 Score: 482
Period size: 77 Copynumber: 7.3 Consensus size: 77
15611604 GTTGAATAGT
* * *
15611614 AGGATTAAATCCTGAAACATAATTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATAAAAT
1 AGGAATAAATCCTGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAAT
* *
15611679 TTGTTAAATGGC
66 CTGTTAAACGGC
* *
15611691 AGGAATAAATCCCT-AAACAAAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
1 AGGAATAAAT-CCTGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
15611755 TCTGTTAAACGGC
65 TCTGTTAAACGGC
* * *
15611768 GGGAATAAAT-TTGAAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
1 AGGAATAAATCCTG-AAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
15611832 TCTGTT-AA--GC
65 TCTGTTAAACGGC
* * * *
15611842 AATGGAATAAATCCCGAAATAGAATTATTCAATTAAATCTTCTCATTTGGAAACAAAATCAAAAT
1 -A-GGAATAAATCCTGAAACAGAATTATTTAATTAAATC-T-T-GTTTGGAAACAAAATC--AA-
15611907 CGAATAAAATCTGTTAAACGG-
58 --AATAAAATCTGTTAAACGGC
* * * * *
15611928 AGGAAATAAATCTTGAAATAGAATTATTTGATTAAATCTTGTTTGGGAACAAAATCAAGATAAAA
1 AGG-AATAAATCCTGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAA
* *
15611993 TCTGTTAAGCGTC
65 TCTGTTAAACGGC
* * * * * *
15612006 A-AAATAAATCCCGAAAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAAACAAAATC
1 AGGAATAAATCCTG-AAACAGAATTATTTAATTAAATC-T-T-GTTTGGAAACAAAATC--AA--
** *
15612070 GAATAAAATCTACTAAATGGC
58 -AATAAAATCTGTTAAACGGC
* * * * *
15612091 GGGAATAAATCCAGAAACA-AATTATATTCAATTTTAATCCTCGTTTGGAAAGAAAATCAAAATG
1 AGGAATAAATCCTGAAACAGAATTAT-TT-AA-TTAAAT-CTTGTTTGGAAACAAAATC--AA--
*
15612155 GAATAAAATCTGTTAAACGGT
58 -AATAAAATCTGTTAAACGGC
*
15612176 GGGAATAAATCACTG-AACAGA
1 AGGAATAAATC-CTGAAACAGA
15612197 TTTTATTCAA
Statistics
Matches: 416, Mismatches: 55, Indels: 61
0.78 0.10 0.11
Matches are distributed among these distances:
74 2 0.00
75 1 0.00
76 40 0.10
77 169 0.41
78 6 0.01
79 16 0.04
80 15 0.04
81 2 0.00
82 16 0.04
83 1 0.00
84 22 0.05
85 103 0.25
86 15 0.04
87 7 0.02
88 1 0.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (77 bp):
AGGAATAAATCCTGAAACAGAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATAAAAT
CTGTTAAACGGC
Found at i:15611960 original size:161 final size:160
Alignment explanation
Indices: 15611619--15612153 Score: 606
Period size: 161 Copynumber: 3.3 Consensus size: 160
15611609 ATAGTAGGAT
* * * * *
15611619 TAAATCCTGAAACATAATTATTTAATTAAATCTTATTTGGAAACAAAATCAAAATAAAATTTGTT
1 TAAATCTTGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTT
* * * *
15611684 AAATGGCA-GGAATAAATCCCTAAACAAAATTATTTGATTAAATC-T-T-GTTTGGAAACAAAAT
66 -AA--GCATGGAATAAATCCCGAAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAAT
* *
15611745 C--AA---AATAAAATCTGTTAAACGGCGGGAA
128 CAAAATCGAATAAAATCTGTTAAACGGAGGAAA
15611773 TAAAT-TTGAAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGT
1 TAAATCTTG-AAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGT
* * *
15611837 TAAGCAATGGAATAAATCCCGAAATAGAATTATTCAATTAAATCTTCTCATTTGGAAACAAAATC
65 TAAGC-ATGGAATAAATCCCGAAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAATC
15611902 AAAATCGAATAAAATCTGTTAAACGGAGGAAA
129 AAAATCGAATAAAATCTGTTAAACGGAGGAAA
* * *
15611934 TAAATCTTGAAATAGAATTATTTGATTAAATCTTGTTTGGGAACAAAATCAAGATAAAATCTGTT
1 TAAATCTTGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTT
* ** *
15611999 AAGCGTCAAAATAAATCCCGAAAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAAAC
66 AAGCAT-GGAATAAATCCCG-AAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAATC
** * * *
15612064 AAAATCGAATAAAATCTACTAAATGGCGGGAA
129 AAAATCGAATAAAATCTGTTAAACGGAGGAAA
** * * * *
15612096 TAAATCCAGAAACA-AATTATATTCAATTTTAATCCTCGTTTGGAAAGAAAATCAAAAT
1 TAAATCTTGAAACAGAATTAT-TT-GA-TTAAAT-CTTGTTTGGAAACAAAATCAAAAT
15612154 GGAATAAAAT
Statistics
Matches: 326, Mismatches: 37, Indels: 25
0.84 0.10 0.06
Matches are distributed among these distances:
151 2 0.01
152 1 0.00
153 35 0.11
154 58 0.18
155 1 0.00
156 15 0.05
158 2 0.01
160 1 0.00
161 102 0.31
162 83 0.25
163 1 0.00
164 5 0.02
165 20 0.06
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (160 bp):
TAAATCTTGAAACAGAATTATTTGATTAAATCTTGTTTGGAAACAAAATCAAAATAAAATCTGTT
AAGCATGGAATAAATCCCGAAAAAAAATTATTTAATTAAATCTTCTCATTTGGAAACAAAATCAA
AATCGAATAAAATCTGTTAAACGGAGGAAA
Found at i:15612032 original size:238 final size:238
Alignment explanation
Indices: 15611619--15612186 Score: 590
Period size: 238 Copynumber: 2.4 Consensus size: 238
15611609 ATAGTAGGAT
* *
15611619 TAAATCCTGAAACATAATTATTTAATTAAATCT-T-ATTTGGAAACAAAATC--AA--AATAAAA
1 TAAATCCAGAAACA-AATTATTCAATTAAATCTCTCATTTGGAAACAAAATCAAAATGAATAAAA
* *
15611678 TTTGTTAAATGGCAGGAATAAATCCCTAAACAAAATTATTTGATTAAATCTTGTTTGGAAACAAA
65 TCTGTTAAACGG-AGGAATAAAT-CCTAAACAAAATTATTTGATTAAATCTTGTTTGGAAACAAA
** ** * * *
15611743 ATCAAAATAAAATCTGTTAAACGGCGGGAATAAATTTGAAAACAGAATTATTTGATTAAATC-T-
128 ATCAAAATAAAATCTGTTAAACGGCGAAAATAAATCCGAAAAAAAAATTATTTAATTAAATCTTC
* * * * *
15611806 T-GTTTGGAAACAAAATC-AA-AATAAAATCT-GTTAA-GCAATGGAA
193 TCATTTGGAAACAAAAACAAACAATAAAATCTACTAAAGGC--GGGAA
* *
15611849 TAAATCCCGAAATAGAATTATTCAATTAAATCTTCTCATTTGGAAACAAAATCAAAATCGAATAA
1 TAAATCCAGAAACA-AATTATTCAATTAAATC-TCTCATTTGGAAACAAAATCAAAAT-GAATAA
* * * *
15611914 AATCTGTTAAACGGAGGAAATAAATCTTGAAATAGAATTATTTGATTAAATCTTGTTTGGGAACA
63 AATCTGTTAAACGGAGG-AATAAATCCT-AAACAAAATTATTTGATTAAATCTTGTTTGGAAACA
* * *
15611979 AAATCAAGATAAAATCTGTTAAGCGTC-AAAATAAATCCCGAAAAAAAAATTATTTAATTAAATC
126 AAATCAAAATAAAATCTGTTAAACGGCGAAAATAAAT-CCGAAAAAAAAATTATTTAATTAAATC
15612043 TTCTCATTTGGAAACAAAAACAAAATCGAATAAAATCTACTAAATGGCGGGAA
190 TTCTCATTTGGAAACAAAAAC-AAA-C-AATAAAATCTACTAAA-GGCGGGAA
* * *
15612096 TAAATCCAGAAACAAATTATATTCAATTTTAATC-CTCGTTTGGAAAGAAAATCAAAATGGAATA
1 TAAATCCAGAAACAAA-T-TATTCAA-TTAAATCTCTCATTTGGAAACAAAATCAAAAT-GAATA
*
15612160 AAATCTGTTAAACGGTGGGAATAAATC
62 AAATCTGTTAAACGG-AGGAATAAATC
15612187 ACTGAACAGA
Statistics
Matches: 280, Mismatches: 32, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
230 28 0.10
231 1 0.00
232 1 0.00
233 16 0.06
235 2 0.01
237 12 0.04
238 103 0.37
239 1 0.00
240 1 0.00
241 14 0.05
243 2 0.01
246 12 0.04
247 70 0.25
248 9 0.03
249 8 0.03
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.29
Consensus pattern (238 bp):
TAAATCCAGAAACAAATTATTCAATTAAATCTCTCATTTGGAAACAAAATCAAAATGAATAAAAT
CTGTTAAACGGAGGAATAAATCCTAAACAAAATTATTTGATTAAATCTTGTTTGGAAACAAAATC
AAAATAAAATCTGTTAAACGGCGAAAATAAATCCGAAAAAAAAATTATTTAATTAAATCTTCTCA
TTTGGAAACAAAAACAAACAATAAAATCTACTAAAGGCGGGAA
Found at i:15612098 original size:86 final size:86
Alignment explanation
Indices: 15612008--15612186 Score: 204
Period size: 85 Copynumber: 2.1 Consensus size: 86
15611998 TAAGCGTCAA
15612008 AATAAATCCCGAAAAAAAAATTAT-TT-AA-TTAAATCTTCTCATTTGGAAACAAAAACAAAATC
1 AATAAATCCC-AAAAAAAAATTATATTCAATTTAAATC--CTCATTTGGAAACAAAAACAAAATC
*
15612070 GAATAAAATCTACTAAATGGCGGG
63 GAATAAAATCTACTAAACGGCGGG
* * * * * * *
15612094 AATAAAT-CCAGAAACAAATTATATTCAATTTTAATCCTCGTTTGGAAAGAAAATCAAAATGGAA
1 AATAAATCCCAAAAAAAAATTATATTCAATTTAAATCCTCATTTGGAAACAAAAACAAAATCGAA
** *
15612158 TAAAATCTGTTAAACGGTGGG
66 TAAAATCTACTAAACGGCGGG
15612179 AATAAATC
1 AATAAATC
15612187 ACTGAACAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
84 11 0.14
85 52 0.67
86 9 0.12
87 6 0.08
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (86 bp):
AATAAATCCCAAAAAAAAATTATATTCAATTTAAATCCTCATTTGGAAACAAAAACAAAATCGAA
TAAAATCTACTAAACGGCGGG
Found at i:15612204 original size:85 final size:85
Alignment explanation
Indices: 15612049--15612209 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 85
15612039 AATCTTCTCA
*
15612049 TTTGGAAACAAAAACAAAATCGAATAAAATCTACTAAATGGCGGGAATAAATCCAGAAACAAATT
1 TTTGGAAACAAAAACAAAATCGAATAAAATCTACTAAACGGCGGGAATAAATCCAGAAACAAATT
15612114 ATATTCAATTTTAATCCTCG
66 ATATTCAATTTTAATCCTCG
* * * ** * * *
15612134 TTTGGAAAGAAAATCAAAATGGAATAAAATCTGTTAAACGGTGGGAATAAATCACTG-AACAGAT
1 TTTGGAAACAAAAACAAAATCGAATAAAATCTACTAAACGGCGGGAATAAATC-CAGAAACAAAT
*
15612198 TTTATTCAATTT
65 TATATTCAATTT
15612210 AATTCTCATT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
85 63 0.97
86 2 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.28
Consensus pattern (85 bp):
TTTGGAAACAAAAACAAAATCGAATAAAATCTACTAAACGGCGGGAATAAATCCAGAAACAAATT
ATATTCAATTTTAATCCTCG
Found at i:15612358 original size:16 final size:17
Alignment explanation
Indices: 15612337--15612380 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
15612327 GTTAGTGAAC
15612337 AAATATAAATATAAA-T
1 AAATATAAATATAAATT
**
15612353 AAATATTTATATAAATT
1 AAATATAAATATAAATT
15612370 AAAT-TAAATAT
1 AAATATAAATAT
15612381 TTATATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATATAAATATAAATT
Found at i:15612366 original size:22 final size:22
Alignment explanation
Indices: 15612339--15612386 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
15612329 TAGTGAACAA
15612339 ATATAAATATAAA-TAAATATTT
1 ATATAAAT-TAAATTAAATATTT
15612361 ATATAAATTAAATTAAATATTT
1 ATATAAATTAAATTAAATATTT
15612383 ATAT
1 ATAT
15612387 TTAAAATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATAAATTAAATTAAATATTT
Found at i:15614729 original size:18 final size:17
Alignment explanation
Indices: 15614706--15614741 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
15614696 CATGTTGTAT
15614706 GCCCATATGGGCCCACAC
1 GCCCATAT-GGCCCACAC
*
15614724 GCCCATGTGGCCCACAC
1 GCCCATATGGCCCACAC
15614741 G
1 G
15614742 ACCTACAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.19, C:0.44, G:0.25, T:0.11
Consensus pattern (17 bp):
GCCCATATGGCCCACAC
Found at i:15622514 original size:25 final size:24
Alignment explanation
Indices: 15622486--15622554 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
15622476 TATTTTTGTA
15622486 ATATTTTTAAAATTTTTAGA-TACAT
1 ATATTTTTAAAATTTTTA-ATTAC-T
* * *
15622511 ATATTCTTATAATTTTTAATTTCT
1 ATATTTTTAAAATTTTTAATTACT
15622535 ATATTTTATATAAATTTTTA
1 ATATTTT-TA-AAATTTTTA
15622555 TATATTTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 8 0.22
25 20 0.56
26 8 0.22
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (24 bp):
ATATTTTTAAAATTTTTAATTACT
Found at i:15626731 original size:45 final size:45
Alignment explanation
Indices: 15626664--15626787 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 45
15626654 GCAAAATTTT
* *
15626664 TTGTGTATCCACAACTAAAGGCATATTCCATCTACAAGTTATCTA
1 TTGTGTATCCACAGCCAAAGGCATATTCCATCTACAAGTTATCTA
* * *** *
15626709 TTGTGTATCCACAGCCAGAGGCAGATTCCATCTGTTAGTTATTTA
1 TTGTGTATCCACAGCCAAAGGCATATTCCATCTACAAGTTATCTA
* * * *
15626754 CTATGAAATCCACAGCCAAAGGCATATTTCATCT
1 TTGTG-TATCCACAGCCAAAGGCATATTCCATCT
15626788 GCTAGACTAT
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 40 0.62
46 24 0.38
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.32
Consensus pattern (45 bp):
TTGTGTATCCACAGCCAAAGGCATATTCCATCTACAAGTTATCTA
Found at i:15639241 original size:12 final size:12
Alignment explanation
Indices: 15639226--15639258 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
15639216 TATCGTGTCG
15639226 ATAGTCGTGGCA
1 ATAGTCGTGGCA
15639238 ATAGTCGTGGCA
1 ATAGTCGTGGCA
15639250 ATAGTCGTG
1 ATAGTCGTG
15639259 CCCACGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (12 bp):
ATAGTCGTGGCA
Found at i:15639381 original size:17 final size:17
Alignment explanation
Indices: 15639355--15639396 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
15639345 ATAAATAATT
15639355 AATT-AATTAAATTGGA
1 AATTAAATTAAATTGGA
15639371 AATTAAATTAAATTGGA
1 AATTAAATTAAATTGGA
15639388 AATTAAATT
1 AATTAAATT
15639397 CGAATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (17 bp):
AATTAAATTAAATTGGA
Found at i:15640964 original size:22 final size:22
Alignment explanation
Indices: 15640932--15640983 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
15640922 ATAAATAAAT
15640932 AATTAAA--AAATTAGAAATTA
1 AATTAAATTAAATTAGAAATTA
*
15640952 AATTAAATTAAATTGGAAATTA
1 AATTAAATTAAATTAGAAATTA
15640974 AATTCAAATT
1 AATT-AAATT
15640984 TTGTAATCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 7 0.25
22 16 0.57
23 5 0.18
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (22 bp):
AATTAAATTAAATTAGAAATTA
Found at i:15667144 original size:25 final size:23
Alignment explanation
Indices: 15667095--15667144 Score: 55
Period size: 25 Copynumber: 2.1 Consensus size: 23
15667085 TATTATAAAT
* *
15667095 TAAAAAAATAACTATTTATTTTA
1 TAAAAAAATAACTATTAATTATA
*
15667118 TAAAAAAATTTAACTGTTAATTATA
1 TAAAAAAA--TAACTATTAATTATA
15667143 TA
1 TA
15667145 TTAATATAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 8 0.36
25 14 0.64
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAAAAAATAACTATTAATTATA
Found at i:15677043 original size:56 final size:57
Alignment explanation
Indices: 15676975--15677085 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 57
15676965 GAGGTATCGA
15676975 GACCTCGTTTCTATAAACCGAGTTATAAATATTTTTATAAATATTTACGGAGTGTAG
1 GACCTCGTTTCTATAAACCGAGTTATAAATATTTTTATAAATATTTACGGAGTGTAG
15677032 GACCTC-TTTCTATAAACCGAGTTATAAATATTTTTATAAATATTTACGGAGTGT
1 GACCTCGTTTCTATAAACCGAGTTATAAATATTTTTATAAATATTTACGGAGTGT
15677086 TATTAAGGTT
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 48 0.89
57 6 0.11
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (57 bp):
GACCTCGTTTCTATAAACCGAGTTATAAATATTTTTATAAATATTTACGGAGTGTAG
Found at i:15693295 original size:417 final size:419
Alignment explanation
Indices: 15692509--15693344 Score: 1658
Period size: 417 Copynumber: 2.0 Consensus size: 419
15692499 CCGTACGAGG
15692509 TAAGTTCATAAGTAAATAAATGTTTTTAAATTTAAATGTATATATATTATATGTATTCGAATTGA
1 TAAGTTCATAAGTAAATAAATGTTTTTAAATTTAAATGTATATATATTATATGTATTCGAATTGA
15692574 ATTGTATGTATTAATATATATTGCCAAATTGATTTGAGCATTGGATGACTAGTTTCGAGCATGAA
66 ATTGTATGTATTAATATATATTGCCAAATTGATTTGAGCATTGGATGACTAGTTTCGAGCATGAA
15692639 TTGATTTAATCACGAAGTCAAAAGCCTCGAACGAACCTTAAGAAATGTATAGGATACTGTTGTCA
131 TTGATTTAATCACGAAGTCAAAAGCCTCGAACGAACCTTAAGAAATGTATAGGATACTGTTGTCA
15692704 TGACATAAGGACTTCTGAGATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATAT
196 TGACATAAGGACTTCTGAGATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATAT
15692769 GTGTCGTATAAGACCCTCTGTGGGACAGTGGTATTGAAATGTGTTAACATGTAAGACCATATCCA
261 GTGTCGTATAAGACCCTCTGTGGGACAGTGGTATTGAAATGTGTTAACATGTAAGACCATATCCA
15692834 GGATATGGCATTGTACAAGCTTTGTATGATTTTCGTGTATACTTAACAATTCCGAATGGTTCATC
326 GGATATGGCATTGTACAAGCTTTGTATGATTTTCGTGTATACTTAACAATTCCGAATGGTTCATC
15692899 GGGCATTGACAAAACGAGATCAAAGATGA
391 GGGCATTGACAAAACGAGATCAAAGATGA
15692928 TAAGTTCAT-A-TAAATAAATGTTTTTAAATTTAAATGTATATATATTATATGTATTCGAATTGA
1 TAAGTTCATAAGTAAATAAATGTTTTTAAATTTAAATGTATATATATTATATGTATTCGAATTGA
15692991 ATTGTATGTATTAATATATATTGCCAAATTGATTTGAGCATTGGATGACTAGTTTCGAGCATGAA
66 ATTGTATGTATTAATATATATTGCCAAATTGATTTGAGCATTGGATGACTAGTTTCGAGCATGAA
15693056 TTGATTTAATCACGAAGTCAAAAGCCTCGAACGAACCTTAAGAAATGTATAGGATACTGTTGTCA
131 TTGATTTAATCACGAAGTCAAAAGCCTCGAACGAACCTTAAGAAATGTATAGGATACTGTTGTCA
15693121 TGACATAAGGACTTCTGAGATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATAT
196 TGACATAAGGACTTCTGAGATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATAT
15693186 GTGTCGTATAAGACCCTCTGTGGGACAGTGGTATTGAAATGTGTTAACATGTAAGACCATATCCA
261 GTGTCGTATAAGACCCTCTGTGGGACAGTGGTATTGAAATGTGTTAACATGTAAGACCATATCCA
15693251 GGATATGGCATTGTACAAGCTTTGTATGATTTTCGTGTATACTTAACAATTCCGAATGGTTCATC
326 GGATATGGCATTGTACAAGCTTTGTATGATTTTCGTGTATACTTAACAATTCCGAATGGTTCATC
15693316 GGGCATTGACAAAACGAGATCAAAGATGA
391 GGGCATTGACAAAACGAGATCAAAGATGA
15693345 AATTGAGCTA
Statistics
Matches: 417, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
417 407 0.98
418 1 0.00
419 9 0.02
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (419 bp):
TAAGTTCATAAGTAAATAAATGTTTTTAAATTTAAATGTATATATATTATATGTATTCGAATTGA
ATTGTATGTATTAATATATATTGCCAAATTGATTTGAGCATTGGATGACTAGTTTCGAGCATGAA
TTGATTTAATCACGAAGTCAAAAGCCTCGAACGAACCTTAAGAAATGTATAGGATACTGTTGTCA
TGACATAAGGACTTCTGAGATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCATCGAATAT
GTGTCGTATAAGACCCTCTGTGGGACAGTGGTATTGAAATGTGTTAACATGTAAGACCATATCCA
GGATATGGCATTGTACAAGCTTTGTATGATTTTCGTGTATACTTAACAATTCCGAATGGTTCATC
GGGCATTGACAAAACGAGATCAAAGATGA
Found at i:15694948 original size:38 final size:38
Alignment explanation
Indices: 15694906--15694983 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
15694896 CTGCGATAAT
15694906 GTGATGATTCCTGACAATTAAAAATGTGTTTTTGTATA
1 GTGATGATTCCTGACAATTAAAAATGTGTTTTTGTATA
* *
15694944 GTGATGATTCTTGACAATTAGAAATGTGTTTTTGTATA
1 GTGATGATTCCTGACAATTAAAAATGTGTTTTTGTATA
15694982 GT
1 GT
15694984 AAATGGATCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (38 bp):
GTGATGATTCCTGACAATTAAAAATGTGTTTTTGTATA
Found at i:15695619 original size:30 final size:31
Alignment explanation
Indices: 15695580--15695638 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
15695570 AGTGATAGAG
* *
15695580 ACAGAATATGAGC-GGGGATTTGTGAGACTCA
1 ACAGAATATG-CCTGGGAATTTGTGAGACTCA
15695611 ACAG-ATATGCCTGGGAATTTGTGAGACT
1 ACAGAATATGCCTGGGAATTTGTGAGACT
15695639 GAAGCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 1 0.04
30 20 0.80
31 4 0.16
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.25
Consensus pattern (31 bp):
ACAGAATATGCCTGGGAATTTGTGAGACTCA
Found at i:15701524 original size:74 final size:76
Alignment explanation
Indices: 15701395--15701541 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 76
15701385 ATGGAAATTA
* *
15701395 ATATTCTTTTGGAAAAAAATATAATTCATTTTTCTAACTTTACATTTTCCTTCTCTATTAATAAT
1 ATATTCTTTTGGAAAAAAATATAATTCATTTTTCTAACTTTACATTTGCCTTCTCTATTAATAAG
15701460 GGAATAATCCT
66 GGAATAATCCT
* *
15701471 ATATTCTTTTGG-AAAGAATATAATTTC-TTTTT-TAACTTTCCATTTGCCTTCTCTATTAATAA
1 ATATTCTTTTGGAAAAAAATATAA-TTCATTTTTCTAACTTTACATTTGCCTTCTCTATTAATAA
15701533 GGGAATAAT
65 GGGAATAAT
15701542 ATTGGTTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
74 36 0.55
75 15 0.23
76 15 0.23
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.46
Consensus pattern (76 bp):
ATATTCTTTTGGAAAAAAATATAATTCATTTTTCTAACTTTACATTTGCCTTCTCTATTAATAAG
GGAATAATCCT
Found at i:15703172 original size:18 final size:18
Alignment explanation
Indices: 15703151--15703256 Score: 76
Period size: 18 Copynumber: 6.0 Consensus size: 18
15703141 TTACAACAAA
*
15703151 GGTTCGCATAACATCATG
1 GGTTCGCATAACAACATG
* * * *
15703169 GGTTCG-ATTATAGCATA
1 GGTTCGCATAACAACATG
* *
15703186 GGTTCACATAACAACATA
1 GGTTCGCATAACAACATG
*
15703204 AGTTCGCATATAGC-ACA--
1 GGTTCGCATA-A-CAACATG
* *
15703221 GGTCCACATAACAACATG
1 GGTTCGCATAACAACATG
15703239 GGTTCGCATAACAACATG
1 GGTTCGCATAACAACATG
15703257 ATTTCACACA
Statistics
Matches: 67, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
15 1 0.01
16 4 0.06
17 19 0.28
18 38 0.57
19 4 0.06
20 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (18 bp):
GGTTCGCATAACAACATG
Found at i:15703189 original size:35 final size:35
Alignment explanation
Indices: 15703150--15703248 Score: 128
Period size: 35 Copynumber: 2.8 Consensus size: 35
15703140 ATTACAACAA
* * *
15703150 AGGTTCGCATAACATCATGGGTTCG-ATTATAGCAT
1 AGGTTCACATAACAACATGGGTTCGCA-TATAGCAC
**
15703185 AGGTTCACATAACAACATAAGTTCGCATATAGCAC
1 AGGTTCACATAACAACATGGGTTCGCATATAGCAC
*
15703220 AGGTCCACATAACAACATGGGTTCGCATA
1 AGGTTCACATAACAACATGGGTTCGCATA
15703249 ACAACATGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 54 0.98
36 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.25
Consensus pattern (35 bp):
AGGTTCACATAACAACATGGGTTCGCATATAGCAC
Found at i:15716207 original size:247 final size:246
Alignment explanation
Indices: 15715772--15716387 Score: 1002
Period size: 247 Copynumber: 2.5 Consensus size: 246
15715762 NNNNNNNNNN
*
15715772 ATAATTGCATGATTTTTTATTAATGTCATCTTCTTCAAAATTTTAAGGTGCTTTAATGGTGGATC
1 ATAATTGCATGATTTTTTATTAATGTCATCTTCTTCAAAATCTTAAGGTGCTTTAATGGTGGATC
*
15715837 TTGAATTTTGAGGGAAATCCACAAATCAATGGATGTTCCACCTCAAAATGGATCTATTAGAAATT
66 TTGAATTTTGAGGGAAATCCACAAATCAATGGATGTTCCAACTCAAAATGGATCTATTAGAAATT
*
15715902 TCTTAAGATTCTTGAATCAAGATTTTCAATCAAAGAATTTAAAACGAATCAAAGGTAATTATTAT
131 TCTCAAGATTCTTGAATCAAGATTTTCAATCAAAGAATTTAAAACGAATCAAAGGTAATTATTAT
* *
15715967 TTCTAAACTTATTTTTATGATGTTTAGAAGCATATTTACATGATTTGAG-T
196 TTCTAAACTTATTGTTATGATGATTAGAAGCATATTTACATGATTTGAGAT
* *
15716017 GATAATTGCATGATTTTTTATTAATGCCATCTTCTTCAAAATCTTAAGGTGGTTTAATGGTGGAT
1 -ATAATTGCATGATTTTTTATTAATGTCATCTTCTTCAAAATCTTAAGGTGCTTTAATGGTGGAT
*
15716082 CTTGAATTTTGATGGGAAATCCACAAATCAATGGATGTTCCAACTCAAAATGTATCTATTAGAAA
65 CTTGAATTTTGA-GGGAAATCCACAAATCAATGGATGTTCCAACTCAAAATGGATCTATTAGAAA
* * *
15716147 TTTCTCAAGATTCTTGAATCAAGATTTTCAATCAAAGGATTTAGAACGAATTAAAGGTAATTATT
129 TTTCTCAAGATTCTTGAATCAAGATTTTCAATCAAAGAATTTAAAACGAATCAAAGGTAATTATT
* *
15716212 ATTTCTAAACTTATTGTTGTGATGATTAGAAGCTTATTTACATGATTTGAGAT
194 ATTTCTAAACTTATTGTTATGATGATTAGAAGCATATTTACATGATTTGAGAT
* * *
15716265 ATAATTGCATGATTTTTTATTACTGTCATATTCTTCAAAAGCTTAAGGTGCTTTAATGGT-GATC
1 ATAATTGCATGATTTTTTATTAATGTCATCTTCTTCAAAATCTTAAGGTGCTTTAATGGTGGATC
* * * * *
15716329 TTGATTTTTTAGAGGAAGTCTACAAATCAATGGATGTTCCAAGTCAAAATGGATCTATT
66 TTGAATTTTGAG-GGAAATCCACAAATCAATGGATGTTCCAACTCAAAATGGATCTATT
15716388 TGAAGGTTTT
Statistics
Matches: 343, Mismatches: 24, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
245 1 0.00
246 128 0.37
247 213 0.62
248 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.39
Consensus pattern (246 bp):
ATAATTGCATGATTTTTTATTAATGTCATCTTCTTCAAAATCTTAAGGTGCTTTAATGGTGGATC
TTGAATTTTGAGGGAAATCCACAAATCAATGGATGTTCCAACTCAAAATGGATCTATTAGAAATT
TCTCAAGATTCTTGAATCAAGATTTTCAATCAAAGAATTTAAAACGAATCAAAGGTAATTATTAT
TTCTAAACTTATTGTTATGATGATTAGAAGCATATTTACATGATTTGAGAT
Found at i:15716547 original size:19 final size:19
Alignment explanation
Indices: 15716520--15716558 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
15716510 AAATTGATGC
*
15716520 TTAGTATATGCTTATTGGG
1 TTAGCATATGCTTATTGGG
15716539 TTAGCATATGCTTATTGGG
1 TTAGCATATGCTTATTGGG
15716558 T
1 T
15716559 CTAATATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.08, G:0.26, T:0.46
Consensus pattern (19 bp):
TTAGCATATGCTTATTGGG
Found at i:15721691 original size:14 final size:15
Alignment explanation
Indices: 15721674--15721702 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15721664 GAGTATGGTA
15721674 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
15721688 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
15721703 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:15723594 original size:16 final size:16
Alignment explanation
Indices: 15723569--15723599 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15723559 TAATAAATGG
15723569 ATAAGATTGAGGTGTT
1 ATAAGATTGAGGTGTT
*
15723585 ATAAGGTTGAGGTGT
1 ATAAGATTGAGGTGT
15723600 GTCTTGGGAG
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:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
ATAAGATTGAGGTGTT
Found at i:15725622 original size:16 final size:18
Alignment explanation
Indices: 15725596--15725628 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15725586 TAGAATTGGG
15725596 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15725613 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
15725629 TCTAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15731833 original size:25 final size:25
Alignment explanation
Indices: 15731799--15731849 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
15731789 TTGAATAGTG
15731799 TTAGCCAAAAAAATCTGGCTTGCAA
1 TTAGCCAAAAAAATCTGGCTTGCAA
15731824 TTAGCCAAAAAAATCTGGCTTGCAA
1 TTAGCCAAAAAAATCTGGCTTGCAA
15731849 T
1 T
15731850 ACTTTGGCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (25 bp):
TTAGCCAAAAAAATCTGGCTTGCAA
Found at i:15736949 original size:23 final size:24
Alignment explanation
Indices: 15736923--15736971 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
15736913 ATGCACTAAA
*
15736923 AATTTCAATA-TGATTTAATAATT
1 AATTTCAATAGTGATTTAACAATT
* *
15736946 AA-TTCATTAGTTATTTAACAATT
1 AATTTCAATAGTGATTTAACAATT
15736969 AAT
1 AAT
15736972 ATTACAAGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (24 bp):
AATTTCAATAGTGATTTAACAATT
Found at i:15745843 original size:23 final size:23
Alignment explanation
Indices: 15745817--15745862 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15745807 AATAGTGTAT
15745817 TACAATACA-ATACAATTATTCAA
1 TACAATACAGA-ACAATTATTCAA
*
15745840 TACAATTCAGAACAATTATTCAA
1 TACAATACAGAACAATTATTCAA
15745863 AAATAATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.30
Consensus pattern (23 bp):
TACAATACAGAACAATTATTCAA
Found at i:15754691 original size:23 final size:23
Alignment explanation
Indices: 15754655--15754700 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
15754645 TCGCCTCTAG
*
15754655 GGCATTACAAAATACACCACAAA
1 GGCATCACAAAATACACCACAAA
* *
15754678 GGCATCACATAATACGCCACAAA
1 GGCATCACAAAATACACCACAAA
15754701 TGTGCCATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.28, G:0.11, T:0.13
Consensus pattern (23 bp):
GGCATCACAAAATACACCACAAA
Found at i:15758565 original size:42 final size:42
Alignment explanation
Indices: 15758438--15758565 Score: 166
Period size: 42 Copynumber: 3.0 Consensus size: 42
15758428 AATAAACTAG
* * * *
15758438 AGCAATCATTCTAGCACGTAAGTGCATCATCGGATATATCGA
1 AGCAATTATACTAGCACATAAGTGCATCATCAGATATATCGA
* * *
15758480 AGCAATTATACTAGCACACAAGTGCATCATAAGATATACCGA
1 AGCAATTATACTAGCACATAAGTGCATCATCAGATATATCGA
* * *
15758522 AGCAATTATACTGGCACATAAGTGCATCATCAGCTAAATCGA
1 AGCAATTATACTAGCACATAAGTGCATCATCAGATATATCGA
15758564 AG
1 AG
15758566 TATAACTTGT
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.23
Consensus pattern (42 bp):
AGCAATTATACTAGCACATAAGTGCATCATCAGATATATCGA
Found at i:15760856 original size:11 final size:11
Alignment explanation
Indices: 15760840--15760884 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
15760830 CTCATATTTT
*
15760840 TAAATAGAATA
1 TAAATAGATTA
*
15760851 TAAATATATTA
1 TAAATAGATTA
*
15760862 TAGATAGATTA
1 TAAATAGATTA
*
15760873 TAAATATATTA
1 TAAATAGATTA
15760884 T
1 T
15760885 CAGTCTTGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (11 bp):
TAAATAGATTA
Found at i:15760869 original size:22 final size:22
Alignment explanation
Indices: 15760843--15760884 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
15760833 ATATTTTTAA
15760843 ATAGAATATAAATATATTATAG
1 ATAGAATATAAATATATTATAG
*
15760865 ATAGATTATAAATATATTAT
1 ATAGAATATAAATATATTAT
15760885 CAGTCTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAGAATATAAATATATTATAG
Found at i:15768313 original size:33 final size:34
Alignment explanation
Indices: 15768236--15768314 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 34
15768226 AATATTTAAA
* * * *
15768236 ATTATTAATATAAAATATTACATTTTTCAATATT
1 ATTATTCATATAAAATATTACAATTTTAAATAAT
** *
15768270 ATTAAACATATAAAA-ATTATAATTTTAAATAAT
1 ATTATTCATATAAAATATTACAATTTTAAATAAT
15768303 ATTATTCATATA
1 ATTATTCATATA
15768315 TTATTGAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (34 bp):
ATTATTCATATAAAATATTACAATTTTAAATAAT
Found at i:15770204 original size:18 final size:18
Alignment explanation
Indices: 15770169--15770202 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15770159 TTTAGTACTA
15770169 TAAATGTTATATTTATAT
1 TAAATGTTATATTTATAT
15770187 TAAAT-TT-TATTTATAT
1 TAAATGTTATATTTATAT
15770203 ATGCAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.56
17 2 0.12
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TAAATGTTATATTTATAT
Found at i:15779035 original size:13 final size:13
Alignment explanation
Indices: 15779006--15779041 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
15778996 AGTCTTAAAG
15779006 TTTTCTTTCTTTCT
1 TTTTCTTT-TTTCT
*
15779020 TTTTCTTTTTTTT
1 TTTTCTTTTTTCT
15779033 TTTTCTTTT
1 TTTTCTTTT
15779042 GGGGGAGGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:15779300 original size:22 final size:23
Alignment explanation
Indices: 15779275--15779326 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
15779265 AAAACATATT
* *
15779275 TATAAAATTTTA-AAAATAAAAG
1 TATAAAACTTTATAAAATAAAAA
**
15779297 TATAAAACTTTATAATTTAAAAA
1 TATAAAACTTTATAAAATAAAAA
15779320 TATAAAA
1 TATAAAA
15779327 AAGGAAAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 11 0.44
23 14 0.56
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (23 bp):
TATAAAACTTTATAAAATAAAAA
Found at i:15782095 original size:41 final size:43
Alignment explanation
Indices: 15782041--15782123 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 43
15782031 TTATGAAGTT
*
15782041 TTAAAGTTAAAATATATATTATA-ATATTAAAAT-ATTAAAAC
1 TTAAAATTAAAATATATATTATATATATTAAAATAATTAAAAC
* *
15782082 TTAAAATTTAAATATATATTATATTATATTATAATAATTAAA
1 TTAAAATTAAAATATATATTATA-TATATTAAAATAATTAAA
15782124 TAAAGAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
41 21 0.58
43 9 0.25
44 6 0.17
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (43 bp):
TTAAAATTAAAATATATATTATATATATTAAAATAATTAAAAC
Found at i:15782917 original size:41 final size:39
Alignment explanation
Indices: 15782873--15783004 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 39
15782863 GACCTCGAGT
* *
15782873 CGATGAGACACTGGGTGTCAATCTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-CTATTACTTTGGATT-ATC
* * * * * *
15782914 CGATGAGGCATTAGGTGCCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAACTATTACTTTGGATTATC
*
15782951 CGATGAGACACTGGGTGTCAACTTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAC-TATTACTTTGGATTATC
*
15782991 CGATGAGGCACTGG
1 CGATGAGACACTGG
15783005 ATGCCAAACT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 18 0.25
38 10 0.14
39 2 0.03
40 25 0.35
41 17 0.24
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTTGGATTATC
Found at i:15785798 original size:41 final size:40
Alignment explanation
Indices: 15785713--15785899 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
15785703 ACTTAATGTT
* * * * * *
15785713 TCGCACACTAAATGCAATTGCATAGCCGAAGCTATTATAATC
1 TCGCACACTAAGTGCCA-TACATAGCCGAAGCTA-TCTCATA
* * *
15785755 TCGCACACTAAGTGCCTTACATAGCCGAACCTATCTCAGTC
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCA-TA
* * *
15785796 TCGCACACTAAGTGCCATATATAGCTGAAGCTATTCCCA-A
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTA-TCTCATA
* * *
15785836 TCGCACACTAAGTGTCATAAATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCATA
* *
15785876 TCGCACACTAAGTGCTAAACATAG
1 TCGCACACTAAGTGCCATACATAG
15785900 TCGATCAATC
Statistics
Matches: 121, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 54 0.45
41 45 0.37
42 18 0.15
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCATA
Found at i:15793078 original size:13 final size:13
Alignment explanation
Indices: 15793045--15793091 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
15793035 AAAATATTAA
15793045 CAAAAGCACTTTT
1 CAAAAGCACTTTT
***
15793058 CCGCAGCACTTTT
1 CAAAAGCACTTTT
15793071 CAAAAGCACTTTT
1 CAAAAGCACTTTT
15793084 CAAAAGCA
1 CAAAAGCA
15793092 TTGCCAAACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.26
Consensus pattern (13 bp):
CAAAAGCACTTTT
Found at i:15794206 original size:67 final size:66
Alignment explanation
Indices: 15794051--15794215 Score: 195
Period size: 67 Copynumber: 2.5 Consensus size: 66
15794041 GGGTATAACA
* * * *
15794051 TGTAAGACCATAGCTCCGCTATGACAACATAGAGAGTCCGCTAGGCCATTAAACATAGGGTATGA
1 TGTAAGACCATAGC-CCACTATGACAACATAGAGAGTCCACCAGGACATTAAACATAGGGTATGA
15794116 TG
65 TG
* *** * * *
15794118 TGCAAGACCATAGTTTGACTATGACAACATAGAGAGTCTACCAGGATATTAAACATGGGGTATGA
1 TGTAAGACCATAG-CCCACTATGACAACATAGAGAGTCCACCAGGACATTAAACATAGGGTATGA
15794183 TG
65 TG
*
15794185 TGTAAGACCATAGCCCAACTATGACAGCATA
1 TGTAAGACCATAGCCC-ACTATGACAACATA
15794216 TGGAATCCAC
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
67 80 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.23
Consensus pattern (66 bp):
TGTAAGACCATAGCCCACTATGACAACATAGAGAGTCCACCAGGACATTAAACATAGGGTATGAT
G
Found at i:15795232 original size:19 final size:19
Alignment explanation
Indices: 15795210--15795249 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
15795200 TGGGAGTTAT
15795210 ATTAAGGATAGAGAGTACA
1 ATTAAGGATAGAGAGTACA
15795229 ATTAAGGATAGAGAGTACA
1 ATTAAGGATAGAGAGTACA
15795248 AT
1 AT
15795250 CAGACTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.23
Consensus pattern (19 bp):
ATTAAGGATAGAGAGTACA
Found at i:15798924 original size:8 final size:8
Alignment explanation
Indices: 15798902--15798949 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
15798892 AAAATCTTTA
15798902 TTAAATCT
1 TTAAATCT
15798910 TTAAAATCT
1 TT-AAATCT
*
15798919 TTAAATCC
1 TTAAATCT
*
15798927 CTAAATCT
1 TTAAATCT
* *
15798935 TGAAATCC
1 TTAAATCT
15798943 TTAAATC
1 TTAAATC
15798950 GTTAGCATTC
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
8 24 0.75
9 8 0.25
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.40
Consensus pattern (8 bp):
TTAAATCT
Found at i:15800015 original size:33 final size:33
Alignment explanation
Indices: 15799949--15800091 Score: 114
Period size: 33 Copynumber: 4.3 Consensus size: 33
15799939 TGTTGACATT
*
15799949 TGGGGAGGGTGATGTT-AAAGGGGTGGAAGTTGA
1 TGGGGAGGGTGATGTTGAAA-GGGTAGAAGTTGA
*
15799982 TGGGGAGGGTGAT-TATGAAAGGGTAGAATTTGA
1 TGGGGAGGGTGATGT-TGAAAGGGTAGAAGTTGA
* * * * *
15800015 TGGTGAAGGTGAT-TTGTAAAAGGTAGAATTTGG
1 TGGGGAGGGTGATGTTG-AAAGGGTAGAAGTTGA
* * * * *
15800048 TGGGAAGGGTGATGTAG-GAGAGGTACAAGCTGA
1 TGGGGAGGGTGATGTTGAAAG-GGTAGAAGTTGA
15800081 TGGGGAGGGTG
1 TGGGGAGGGTG
15800092 TGTCTGCTAC
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
32 4 0.05
33 79 0.90
34 5 0.06
ACGTcount: A:0.27, C:0.01, G:0.46, T:0.25
Consensus pattern (33 bp):
TGGGGAGGGTGATGTTGAAAGGGTAGAAGTTGA
Found at i:15800263 original size:51 final size:51
Alignment explanation
Indices: 15800189--15800291 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
15800179 GTGAAGTTGC
* * *
15800189 TGCTGATGAATATGCTGGTGATTTTGTAACATCAGATGGAGTGGATAATGT
1 TGCTGATGAATATGCTAGTGATTTTGCAACATCAGATGGACTGGATAATGT
15800240 TGCTGATGAATATGCTAGTGATTTTGCAACATCAGATGGACTGGATAATGT
1 TGCTGATGAATATGCTAGTGATTTTGCAACATCAGATGGACTGGATAATGT
15800291 T
1 T
15800292 ACTGCTGCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.10, G:0.27, T:0.35
Consensus pattern (51 bp):
TGCTGATGAATATGCTAGTGATTTTGCAACATCAGATGGACTGGATAATGT
Found at i:15802562 original size:40 final size:40
Alignment explanation
Indices: 15802411--15802577 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
15802401 TAGAAAATTA
* * * * * *
15802411 TTGTACTTCGATAGCTCTGATTGCATAGACGTGTCAC-TGT
1 TTGTACTTCGGTACCCCTGATTGCATATACATG-CCCTTGT
* * *
15802451 TTGTACTTCAGTACGCCTGATTGCATATACGTG-CCTCTGT
1 TTGTACTTCGGTACCCCTGATTGCATATACATGCCCT-TGT
*
15802491 TTGTACTTCGGTACCCCTAATTGCATATACATGCCCTTGT
1 TTGTACTTCGGTACCCCTGATTGCATATACATGCCCTTGT
* ** *
15802531 TTGTACTTCGGTACCCCTGATTTCACCTACATGCCCCT-T
1 TTGTACTTCGGTACCCCTGATTGCATATACATGCCCTTGT
15802570 TTGTACTT
1 TTGTACTT
15802578 TGGTTCCTTG
Statistics
Matches: 108, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 9 0.08
40 95 0.88
41 3 0.03
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.38
Consensus pattern (40 bp):
TTGTACTTCGGTACCCCTGATTGCATATACATGCCCTTGT
Found at i:15803888 original size:70 final size:70
Alignment explanation
Indices: 15803775--15804349 Score: 393
Period size: 70 Copynumber: 8.2 Consensus size: 70
15803765 CACACAACCC
* * * * * **
15803775 CCAAAATAGTTAGCACGAACCTACGCTCCTAGTTGATATCCTAAGGCTTGTAGGTTTAATATCGT
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
15803840 AGCCT
66 AGCCT
* * * * ** * * *
15803845 CCAAAATAGTTAGCGCGAATCTACGCTCCTAGTTGATATCCTAAGACTCACAGGTTTAATACCAT
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
15803910 AGCCT
66 AGCCT
* * * * * * * * *
15803915 CCAAAACAGTTAACACGAGCTTACACTCCCAACTGATATCTTAAGGCTTGTAGGTTCAATATCAC
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
15803980 AGCCT
66 AGCCT
* * * * * *
15803985 CCAAAACAATTAGTGC-AAGCCTACGCTCCCAGCTGGTGTCCTAAGGCTCGCAGGTTCAATA-CA
1 CCAAAATAGTTAGCGCGAA-CCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATC-
15804048 ACAGCCT
64 ACAGCCT
* ** ** * * * *
15804055 CTAAAATAGTTAGCGC-AAGCCTACGCTCCCAATTGATATCCTAAAACTCT-CAAGTACAACACC
1 CCAAAATAGTTAGCGCGAA-CCTACGCTCCCAGCTGATATCCTAAGGCT-TGCAGGTTCAATATC
* *
15804118 GCAACCT
64 ACAGCCT
* * * * * * ** * * *** **
15804125 TCAAAACAGTTATCGTGAGCTTATACTCCCAGCTGGTATCATAAGGCTCATAGGTTCAATATCGT
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
15804190 AGCCT
66 AGCCT
* * * * * * **
15804195 TCAAAATAGTTAGCGCGAGCCTATGCTCCCAACTGGTATCCTAAGGCTTGCAGGTTTAATATTGC
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
*
15804260 AACCT
66 AGCCT
* * * * * ** * * *
15804265 CCAAAATAGTTAGTGCGAGCCTACACTCCTAGTTGGCATCTTAAGGCTTGCAGGTTCAATACCAT
1 CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
15804330 AGCCT
66 AGCCT
*
15804335 CCAAAACAGTTAGCG
1 CCAAAATAGTTAGCG
15804350 TGAGCTTATG
Statistics
Matches: 390, Mismatches: 109, Indels: 12
0.76 0.21 0.02
Matches are distributed among these distances:
69 2 0.01
70 386 0.99
71 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (70 bp):
CCAAAATAGTTAGCGCGAACCTACGCTCCCAGCTGATATCCTAAGGCTTGCAGGTTCAATATCAC
AGCCT
Found at i:15804027 original size:140 final size:140
Alignment explanation
Indices: 15803775--15804414 Score: 516
Period size: 140 Copynumber: 4.6 Consensus size: 140
15803765 CACACAACCC
* * * * ** * * *
15803775 CCAAAATAGTTAGCACGAACCTACGCTCCTAGTTGATATCCTAAGGCTTGTAGGTTTAATATCGT
1 CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCTAAGGCTTGCAGGTTCAATATCGC
* * * * * * * * * *
15803840 AGCCTCCAAAATAGTTAGCGCGAA-TCTACGCTCCTAGTTGATATCCTAAGACTCACAGGTTTAA
66 AACCTCCAAAACAGTTAGTGC-AAGCCTACACTCCCAGCTGGTATCCTAAGGCTCACAGGTTCAA
15803904 TACCATAGCCT
130 TACCATAGCCT
* * * * * * *
15803915 CCAAAACAGTTAACACGAGCTTACACTCCCAACTGATATCTTAAGGCTTGTAGGTTCAATATCAC
1 CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCTAAGGCTTGCAGGTTCAATATCGC
* * * * *
15803980 AGCCTCCAAAACAATTAGTGCAAGCCTACGCTCCCAGCTGGTGTCCTAAGGCTCGCAGGTTCAAT
66 AACCTCCAAAACAGTTAGTGCAAGCCTACACTCCCAGCTGGTATCCTAAGGCTCACAGGTTCAAT
* *
15804045 ACAACAGCCT
131 ACCATAGCCT
* * * * ** * * * *
15804055 CTAAAATAGTTAGCGCAAGCCTACGCTCCCAATTGATATCCTAAAACTCT-CAAGTACAACACCG
1 CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCTAAGGCT-TGCAGGTTCAATATCG
* * * * *
15804119 CAACCTTCAAAACAGTTATCGTG--AGCTTATACTCCCAGCTGGTATCATAAGGCTCATAGGTTC
65 CAACCTCCAAAACAGTTA--GTGCAAGCCTACACTCCCAGCTGGTATCCTAAGGCTCACAGGTTC
* *
15804182 AATATCGTAGCCT
128 AATACCATAGCCT
* * * * * *
15804195 TCAAAATAGTTAGCGCGAGCCTATGCTCCCAACTGGTATCCTAAGGCTTGCAGGTTTAATATTGC
1 CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCTAAGGCTTGCAGGTTCAATATCGC
* * * * * * **
15804260 AACCTCCAAAATAGTTAGTGCGAGCCTACACTCCTAGTTGGCATCTTAAGGCTTGCAGGTTCAAT
66 AACCTCCAAAACAGTTAGTGCAAGCCTACACTCCCAGCTGGTATCCTAAGGCTCACAGGTTCAAT
15804325 ACCATAGCCT
131 ACCATAGCCT
* * * * * ** * * * *
15804335 CCAAAACAGTTAGCGTGAGCTTATGTTCCCAAATGATATTATAAAGGCTTGCCGACTT-AAGATT
1 CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCT-AAGGCTTGCAG-GTTCAATATC
15804399 GCAACCTCCAAAACAG
64 GCAACCTCCAAAACAG
15804415 CTCGAGGAAC
Statistics
Matches: 395, Mismatches: 96, Indels: 17
0.78 0.19 0.03
Matches are distributed among these distances:
138 3 0.01
139 3 0.01
140 353 0.89
141 31 0.08
142 5 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (140 bp):
CCAAAACAGTTAGCGCGAGCCTACGCTCCCAACTGATATCCTAAGGCTTGCAGGTTCAATATCGC
AACCTCCAAAACAGTTAGTGCAAGCCTACACTCCCAGCTGGTATCCTAAGGCTCACAGGTTCAAT
ACCATAGCCT
Found at i:15804342 original size:210 final size:209
Alignment explanation
Indices: 15803775--15804383 Score: 642
Period size: 210 Copynumber: 2.9 Consensus size: 209
15803765 CACACAACCC
* * * * * * * *
15803775 CCAAAATAGTTAGCACGAACCTACGCTCCTAGTTGATATCCTAAGGCTTGTAGGTTTAATATCGT
1 CCAAAATAGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCCTAAGGCTTGCAGGTTTAATATAGC
** * *
15803840 AGCCTCCAAAATAGTTAGCGCGAATCTACGCTCCTAGTTGATATCCTAAGACTCACAGGTTTAAT
66 AGCCTCCAAAATAGTTAGCGCGAGCCTACGCTCCTAGTTGATATCCTAAGACT-TCAGGTTCAAT
** * * **
15803905 ACCATAGCCTCCAAAACAGTTAACACGAGCTTACACTCCCAACTGATATCTTAAGGCTTGTAGGT
130 ACCATAGCCTCCAAAACAGTTAACGTGAGCTTATACTCCCAACTGATATCATAAGGCTCATAGGT
15803970 TCAATATCACAGCCT
195 TCAATATCACAGCCT
* * * * * * * * *
15803985 CCAAAACAATTAGTGCAAGCCTACGCTCCCAGCTGGTGTCCTAAGGCTCGCAGGTTCAATACAAC
1 CCAAAATAGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCCTAAGGCTTGCAGGTTTAATATAGC
* * * * * * * *
15804050 AGCCTCTAAAATAGTTAGCGCAAGCCTACGCTCCCAATTGATATCCTAAAACTCTCAAGTACAAC
66 AGCCTCCAAAATAGTTAGCGCGAGCCTACGCTCCTAGTTGATATCCTAAGACT-TCAGGTTCAAT
** * * * * *
15804115 ACCGCAACCTTCAAAACAGTTATCGTGAGCTTATACTCCCAGCTGGTATCATAAGGCTCATAGGT
130 ACCATAGCCTCCAAAACAGTTAACGTGAGCTTATACTCCCAACTGATATCATAAGGCTCATAGGT
**
15804180 TCAATATCGTAGCCT
195 TCAATATCACAGCCT
* * * *
15804195 TCAAAATAGTTAGCGCGAGCCTATGCTCCCAACTGGTATCCTAAGGCTTGCAGGTTTAATATTGC
1 CCAAAATAGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCCTAAGGCTTGCAGGTTTAATATAGC
* * * ** * *
15804260 AACCTCCAAAATAGTTAGTGCGAGCCTACACTCCTAGTTGGCATCTTAAGGCTTGCAGGTTCAAT
66 AGCCTCCAAAATAGTTAGCGCGAGCCTACGCTCCTAGTTGATATCCTAAGACTT-CAGGTTCAAT
* ** * *
15804325 ACCATAGCCTCCAAAACAGTTAGCGTGAGCTTATGTTCCCAAATGATATTATAAAGGCT
130 ACCATAGCCTCCAAAACAGTTAACGTGAGCTTATACTCCCAACTGATATCAT-AAGGCT
15804384 TGCCGACTTA
Statistics
Matches: 314, Mismatches: 83, Indels: 3
0.79 0.21 0.01
Matches are distributed among these distances:
209 1 0.00
210 307 0.98
211 6 0.02
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (209 bp):
CCAAAATAGTTAGCGCGAGCCTACGCTCCCAGCTGGTATCCTAAGGCTTGCAGGTTTAATATAGC
AGCCTCCAAAATAGTTAGCGCGAGCCTACGCTCCTAGTTGATATCCTAAGACTTCAGGTTCAATA
CCATAGCCTCCAAAACAGTTAACGTGAGCTTATACTCCCAACTGATATCATAAGGCTCATAGGTT
CAATATCACAGCCT
Found at i:15807208 original size:30 final size:27
Alignment explanation
Indices: 15807137--15807208 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
15807127 ACTCTTTGAA
* *
15807137 AATTTAAAATTTAATCTTTTTATTTTT
1 AATTTAAAATTTAATCATTTTATTTTC
*
15807164 ATTTTAAGAAATTTAATCATTTTACTTTTC
1 AATTT-A-AAATTTAATCATTTTA-TTTTC
15807194 AGATTTCAAAATTTA
1 A-ATTT-AAAATTTA
15807209 GATTTAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 4 0.11
28 1 0.03
29 15 0.42
30 12 0.33
31 4 0.11
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (27 bp):
AATTTAAAATTTAATCATTTTATTTTC
Found at i:15813067 original size:17 final size:17
Alignment explanation
Indices: 15813045--15813077 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15813035 GACTTAAAAA
15813045 ATTTTA-TTTAGTTTTTT
1 ATTTTAGTTTA-TTTTTT
15813062 ATTTTAGTTTATTTTT
1 ATTTTAGTTTATTTTT
15813078 ATGTTCGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
ATTTTAGTTTATTTTTT
Found at i:15818116 original size:17 final size:16
Alignment explanation
Indices: 15818094--15818125 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
15818084 TATACCTATA
15818094 TACCATGTAATATCATT
1 TACCATGTAAT-TCATT
15818111 TACCATGTAATTCAT
1 TACCATGTAATTCAT
15818126 ATATATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.34, C:0.19, G:0.06, T:0.41
Consensus pattern (16 bp):
TACCATGTAATTCATT
Found at i:15821095 original size:24 final size:25
Alignment explanation
Indices: 15821015--15821095 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
15821005 TTCTAGATCT
* * *
15821015 TATGAGCTTTCCGATACTCAGCTCG
1 TATGAGCTTACCGTTATTCAGCTCG
15821040 TATGAGCTTACCGTTATTCAGCTCAG
1 TATGAGCTTACCGTTATTCAGCTC-G
*
15821066 -AGGAGCTTACCGTT-TATC-GCTCG
1 TATGAGCTTACCGTTAT-TCAGCTCG
15821089 TATGAGC
1 TATGAGC
15821096 ATACATGTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
23 1 0.02
24 10 0.21
25 36 0.75
26 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.32
Consensus pattern (25 bp):
TATGAGCTTACCGTTATTCAGCTCG
Found at i:15842187 original size:20 final size:20
Alignment explanation
Indices: 15842149--15842188 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15842139 TTAATAAATA
*
15842149 AATTTAAATACAAATTATTT
1 AATTTAAATACAAAATATTT
**
15842169 AATTTAAATTTAAAATATTT
1 AATTTAAATACAAAATATTT
15842189 CTAATCAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTAAATACAAAATATTT
Found at i:15842490 original size:20 final size:20
Alignment explanation
Indices: 15842452--15842491 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15842442 TTAATAAATA
*
15842452 AATTTAAATACAAATTATTT
1 AATTTAAATACAAAATATTT
**
15842472 AATTTAAATTTAAAATATTT
1 AATTTAAATACAAAATATTT
15842492 CTAATCAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTTAAATACAAAATATTT
Found at i:15842653 original size:303 final size:304
Alignment explanation
Indices: 15842095--15842704 Score: 1204
Period size: 303 Copynumber: 2.0 Consensus size: 304
15842085 TAAGTTTATT
15842095 TTATTATTTAAAAAATAAAAAATATTTTATATTAATATTATATTTTAATAAATAAATTTAAATAC
1 TTATTATTT-AAAAATAAAAAATATTTTATATTAATATTATATTTTAATAAATAAATTTAAATAC
15842160 AAATTATTTAATTTAAATTTAAAATATTTCTAATCAACTTAAAAACAAAAAGCTTTCATAAAAAA
65 AAATTATTTAATTTAAATTTAAAATATTTCTAATCAACTTAAAAACAAAAAGCTTTCATAAAAAA
15842225 CTTGTTTAATCTATCTCAATTTTGAAATTGAGCAAATTAATTTTTCTTAACAAGATCAGAGCAAT
130 CTTGTTTAATCTATCTCAATTTTGAAATTGAGCAAATTAATTTTTCTTAACAAGATCAGAGCAAT
15842290 TTAATCTGTCATTTTTTTTAAAAGTAAGTAACTAAGGGTAATTAATTTATGTTAATGTTTTATGT
195 TTAATCTGTCATTTTTTTTAAAAGTAAGTAACTAAGGGTAATTAATTTATGTTAATGTTTTATGT
15842355 CAATTTTACATAATTTTAATTGACATAATAAAATTAGTATCAATA
260 CAATTTTACATAATTTTAATTGACATAATAAAATTAGTATCAATA
15842400 TTATTATTT-AAAATAAAAAATATTTTATATTAATATTATATTTTAATAAATAAATTTAAATACA
1 TTATTATTTAAAAATAAAAAATATTTTATATTAATATTATATTTTAATAAATAAATTTAAATACA
15842464 AATTATTTAATTTAAATTTAAAATATTTCTAATCAACTTAAAAACAAAAAGCTTTCATAAAAAAC
66 AATTATTTAATTTAAATTTAAAATATTTCTAATCAACTTAAAAACAAAAAGCTTTCATAAAAAAC
15842529 TTGTTTAATCTATCTCAATTTTGAAATTGAGCAAATTAATTTTTCTTAACAAGATCAGAGCAATT
131 TTGTTTAATCTATCTCAATTTTGAAATTGAGCAAATTAATTTTTCTTAACAAGATCAGAGCAATT
15842594 TAATCTGTCATTTTTTTTAAAAGTAAGTAACTAAGGGTAATTAATTTATGTTAATGTTTTATGTC
196 TAATCTGTCATTTTTTTTAAAAGTAAGTAACTAAGGGTAATTAATTTATGTTAATGTTTTATGTC
15842659 AATTTTACATAATTTTAATTGACATAATAAAATTAGTATCAATA
261 AATTTTACATAATTTTAATTGACATAATAAAATTAGTATCAATA
15842703 TT
1 TT
15842705 TACATATTTT
Statistics
Matches: 305, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
303 296 0.97
305 9 0.03
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.43
Consensus pattern (304 bp):
TTATTATTTAAAAATAAAAAATATTTTATATTAATATTATATTTTAATAAATAAATTTAAATACA
AATTATTTAATTTAAATTTAAAATATTTCTAATCAACTTAAAAACAAAAAGCTTTCATAAAAAAC
TTGTTTAATCTATCTCAATTTTGAAATTGAGCAAATTAATTTTTCTTAACAAGATCAGAGCAATT
TAATCTGTCATTTTTTTTAAAAGTAAGTAACTAAGGGTAATTAATTTATGTTAATGTTTTATGTC
AATTTTACATAATTTTAATTGACATAATAAAATTAGTATCAATA
Found at i:15846602 original size:37 final size:37
Alignment explanation
Indices: 15846552--15846622 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15846542 AGTCACATGG
15846552 TAAGCATAACGCAAATGATGACCTAAAACTCGATTAC
1 TAAGCATAACGCAAATGATGACCTAAAACTCGATTAC
15846589 TAAGCATAACGCAAATGATGACCTAAAACTCGAT
1 TAAGCATAACGCAAATGATGACCTAAAACTCGAT
15846623 CACTGACTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.21, G:0.14, T:0.21
Consensus pattern (37 bp):
TAAGCATAACGCAAATGATGACCTAAAACTCGATTAC
Found at i:15848371 original size:124 final size:125
Alignment explanation
Indices: 15848216--15848478 Score: 510
Period size: 124 Copynumber: 2.1 Consensus size: 125
15848206 AAAAATCCCA
15848216 AAAACCATAAAAAAATTCGAAAAAAAGTCCCAAAAATAAATCTTAAATTTTCAGAAAATTTAAAA
1 AAAA-CATAAAAAAATTCGAAAAAAAGTCCCAAAAATAAATCTTAAATTTTCAGAAAATTTAAAA
15848281 AAAACTAAAAATTGGTAATCTATTTTTGAAAATTATAAAAAAATTAAAATTATAAGCATGT
65 AAAACTAAAAATTGGTAATCTATTTTTGAAAATTATAAAAAAATTAAAATTATAAGCATGT
15848342 AAAACATAAAAAAA-TCGAAAAAAAGTCCCAAAAATAAATCTTAAATTTTCAGAAAATTTAAAAA
1 AAAACATAAAAAAATTCGAAAAAAAGTCCCAAAAATAAATCTTAAATTTTCAGAAAATTTAAAAA
15848406 AAACTAAAAATTGGTAATCTATTTTTGAAAATTATAAAAAAATTAAAATTATAAGCATGT
66 AAACTAAAAATTGGTAATCTATTTTTGAAAATTATAAAAAAATTAAAATTATAAGCATGT
15848466 AAAACATAAAAAA
1 AAAACATAAAAAA
15848479 TAAAAAATTT
Statistics
Matches: 137, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
124 123 0.90
125 10 0.07
126 4 0.03
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (125 bp):
AAAACATAAAAAAATTCGAAAAAAAGTCCCAAAAATAAATCTTAAATTTTCAGAAAATTTAAAAA
AAACTAAAAATTGGTAATCTATTTTTGAAAATTATAAAAAAATTAAAATTATAAGCATGT
Found at i:15849985 original size:24 final size:24
Alignment explanation
Indices: 15849952--15850004 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
15849942 AAAGTTCCAT
*
15849952 TTTCATTTGCACTGAAGTGCCACA
1 TTTCAATTGCACTGAAGTGCCACA
*
15849976 TTTCAATTGCATTGAAGTGCCACA
1 TTTCAATTGCACTGAAGTGCCACA
15850000 TTTCA
1 TTTCA
15850005 TGTCACACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (24 bp):
TTTCAATTGCACTGAAGTGCCACA
Found at i:15852997 original size:45 final size:45
Alignment explanation
Indices: 15852933--15853101 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 45
15852923 GATAGGAGTG
*
15852933 TGCCATGGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * * *
15852978 TGCCATAGTGCCTTTCAACCATGGTTTTATTCATTCTTGTCTTGA
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
* * * * * * * *
15853023 TTCCATAGTATCTTTCAACTATGTTCTTATTCATTTTTTCGTCGTGT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATT--TATTCTCGTCTTGA
*
15853070 TGCCATAGTGTCTTTCAACTATGGTCTTATTT
1 TGCCATAGTGTCTTTCAACCATGGTCTTATTT
15853102 CTTTGATTCA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
45 66 0.65
47 36 0.35
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (45 bp):
TGCCATAGTGTCTTTCAACCATGGTCTTATTTATTCTCGTCTTGA
Found at i:15853301 original size:45 final size:45
Alignment explanation
Indices: 15853112--15853282 Score: 220
Period size: 45 Copynumber: 3.8 Consensus size: 45
15853102 CTTTGATTCA
* * * *
15853112 TGATGTCATGACGTCTTTCAG-CTATGGTCTTACTTGATAGAATTG
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCG
* * * * *
15853157 TGATGTCATAACGTCTTTCATTCATGGTTTTACTCAAT-GAAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAG-AATCG
*
15853202 TGATGCCATAACATCTTTCAGTCATGGTCTTACTCGATAGAATCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
15853247 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCG
15853283 TTTCTGGTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
44 1 0.01
45 106 0.97
46 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCG
Found at i:15853311 original size:90 final size:90
Alignment explanation
Indices: 15853109--15853281 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 90
15853099 TTTCTTTGAT
* * * * *
15853109 TCATGATGTCATGACGTCTTTCAGCTATGGTCTTACTTGATAGAATTGTGATGTCATAACGTCTT
1 TCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGCCATAACGTCTT
* *
15853174 TCATTCATGGTTTTACTCAATGAAA
66 TCAGTCATGGTCTTACTCAATGAAA
*
15853199 TCATGATGCCATAACATCTTTCAG-TCATGGTCTTACTCGATAGAATCGTGATGCCATAACGTCT
1 TCATGATGCCATAACGTCTTTCAGCT-ATGGTCTTACTCGATAGAATCGTGATGCCATAACGTCT
15853263 TTCAGTCATGGTCTTACTC
65 TTCAGTCATGGTCTTACTC
15853282 GTTTCTGGTA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 1 0.01
90 73 0.99
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (90 bp):
TCATGATGCCATAACGTCTTTCAGCTATGGTCTTACTCGATAGAATCGTGATGCCATAACGTCTT
TCAGTCATGGTCTTACTCAATGAAA
Found at i:15854881 original size:20 final size:21
Alignment explanation
Indices: 15854856--15854895 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
15854846 TCCTTTCAGT
*
15854856 GGTATCGCGATATCC-CCTTG
1 GGTATCACGATATCCACCTTG
*
15854876 GGTATCATGATATCCACCTT
1 GGTATCACGATATCCACCTT
15854896 CCAAGGAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.33
Consensus pattern (21 bp):
GGTATCACGATATCCACCTTG
Found at i:15859617 original size:23 final size:24
Alignment explanation
Indices: 15859591--15859635 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
15859581 CAAATTTGAA
15859591 GCTAAGC-A-CATACCAAGCATTAT
1 GCTAAGCTACCATACCAA-CATTAT
15859614 GCTAAGCTACCATACCAACATT
1 GCTAAGCTACCATACCAACATT
15859636 GCCTCAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 5 0.25
25 8 0.40
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (24 bp):
GCTAAGCTACCATACCAACATTAT
Found at i:15860165 original size:18 final size:18
Alignment explanation
Indices: 15860142--15860213 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 18
15860132 TTACATATCA
15860142 CATTTCTCATCTCATATT
1 CATTTCTCATCTCATATT
15860160 CATTTCTCATCTTTGCCA-ATT
1 CATTTCTCATC--T--CATATT
15860181 CAATATTTCTCATCTCATATT
1 C---ATTTCTCATCTCATATT
15860202 CATTTCTCATCT
1 CATTTCTCATCT
15860214 TAGCCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
18 22 0.48
20 3 0.07
21 8 0.17
22 3 0.07
24 10 0.22
ACGTcount: A:0.22, C:0.28, G:0.01, T:0.49
Consensus pattern (18 bp):
CATTTCTCATCTCATATT
Found at i:15860191 original size:42 final size:42
Alignment explanation
Indices: 15860143--15860228 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
15860133 TACATATCAC
*
15860143 ATTTCTCATCTCATATTCATTTCTCATCTTTGCCAATTCAAT
1 ATTTCTCATCTCATATTCATTTCTCATCTTAGCCAATTCAAT
*
15860185 ATTTCTCATCTCATATTCATTTCTCATCTTAGCCATTTCAAT
1 ATTTCTCATCTCATATTCATTTCTCATCTTAGCCAATTCAAT
15860227 AT
1 AT
15860229 CAATCACATA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (42 bp):
ATTTCTCATCTCATATTCATTTCTCATCTTAGCCAATTCAAT
Found at i:15864980 original size:26 final size:24
Alignment explanation
Indices: 15864946--15864998 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
15864936 GCTAGGCAGT
*
15864946 AAAATAAAAAAAAGAAGCAGAGAAGA
1 AAAAGAAAAAAAAGAAG-A-AGAAGA
*
15864972 AAAAGAAAAAGAAGAAGAAGAAGA
1 AAAAGAAAAAAAAGAAGAAGAAGA
15864996 AAA
1 AAA
15864999 TAAGAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.36
25 1 0.04
26 15 0.60
ACGTcount: A:0.75, C:0.02, G:0.21, T:0.02
Consensus pattern (24 bp):
AAAAGAAAAAAAAGAAGAAGAAGA
Found at i:15865023 original size:3 final size:3
Alignment explanation
Indices: 15864957--15865007 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
15864947 AAATAAAAAA
* * * *
15864957 AAG AAG CAG -AG AAG AAA AAG AAA AAG AAG AAG AAG AAG AA- AAT AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
15865003 AAG AA
1 AAG AA
15865008 TAGGAGGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:15869407 original size:5 final size:5
Alignment explanation
Indices: 15869397--15869431 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
15869387 ACTCCCTCCT
15869397 ATCCC ATCCC ATCCC ATCCC ATCCC ATCCC ATCCC
1 ATCCC ATCCC ATCCC ATCCC ATCCC ATCCC ATCCC
15869432 TGGTTCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.60, G:0.00, T:0.20
Consensus pattern (5 bp):
ATCCC
Found at i:15869536 original size:18 final size:18
Alignment explanation
Indices: 15869513--15869548 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
15869503 AAACAAAGAA
15869513 AGAGCGAGTCTTGCTTTT
1 AGAGCGAGTCTTGCTTTT
15869531 AGAGCGAGTCTTGCTTTT
1 AGAGCGAGTCTTGCTTTT
15869549 CGAGTATCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.39
Consensus pattern (18 bp):
AGAGCGAGTCTTGCTTTT
Found at i:15877402 original size:20 final size:20
Alignment explanation
Indices: 15877377--15877416 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
15877367 CGTAAAATGA
*
15877377 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
15877397 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
15877417 GGAAAATATT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:15877406 original size:34 final size:35
Alignment explanation
Indices: 15877362--15877428 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15877352 CAGTAAAATA
*
15877362 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
15877396 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
15877429 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:15882735 original size:42 final size:42
Alignment explanation
Indices: 15882653--15882839 Score: 205
Period size: 42 Copynumber: 4.5 Consensus size: 42
15882643 TGTTAACTCA
* * * *
15882653 TATGAGTTTCCGTTCAACCCTAATGGGTTTCTGTTCAGCTCT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCTCT
* * * ** *
15882695 TTTGAGCTTCAGTTTAACTCTTATGGGTTTTTGTTTAGCTCT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCTCT
* * *
15882737 TTTGAGCTTCAGATCAACCCTTATGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCTCT
* * *
15882779 TACGAGCTTCCGTTCAACCCTTATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCTCT
*
15882821 CATGAGCTTCTA-TTCAACC
1 TATGAGCTTC-AGTTCAACC
15882840 TTCGGGCTTT
Statistics
Matches: 122, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
42 122 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTCAACCCTTATGGGTTTCCGTTCAGCTCT
Found at i:15882792 original size:21 final size:21
Alignment explanation
Indices: 15882653--15882830 Score: 77
Period size: 21 Copynumber: 8.5 Consensus size: 21
15882643 TGTTAACTCA
* * *
15882653 TATGAGTTTCCGTTCAACCCT
1 TATGAGCTTCCGTTCAGCTCT
* * * *
15882674 AATGGGTTTCTGTTCAGCTCT
1 TATGAGCTTCCGTTCAGCTCT
* * * *
15882695 TTTGAGCTTCAGTTTAACTCT
1 TATGAGCTTCCGTTCAGCTCT
* * ** *
15882716 TATGGGTTTTTGTTTAGCTCT
1 TATGAGCTTCCGTTCAGCTCT
* * * * *
15882737 TTTGAGCTTCAGATCAACCCT
1 TATGAGCTTCCGTTCAGCTCT
* * *
15882758 TATGGGTTTTCGTTCAGCTCT
1 TATGAGCTTCCGTTCAGCTCT
* * *
15882779 TACGAGCTTCCGTTCAACCCT
1 TATGAGCTTCCGTTCAGCTCT
* * *
15882800 TATGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCCGTTCAGCTCT
*
15882821 CATGAGCTTC
1 TATGAGCTTC
15882831 TATTCAACCT
Statistics
Matches: 107, Mismatches: 50, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 107 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
TATGAGCTTCCGTTCAGCTCT
Found at i:15884172 original size:17 final size:17
Alignment explanation
Indices: 15884108--15884171 Score: 110
Period size: 17 Copynumber: 3.8 Consensus size: 17
15884098 ACACGCTCAT
15884108 GTGGGGCCCACACACCC
1 GTGGGGCCCACACACCC
15884125 GTGGGGCCCACACACCC
1 GTGGGGCCCACACACCC
*
15884142 GTGGGGCCCACACGCCC
1 GTGGGGCCCACACACCC
*
15884159 GTGTGGCCCACAC
1 GTGGGGCCCACAC
15884172 GGCCCAGTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 45 1.00
ACGTcount: A:0.16, C:0.45, G:0.31, T:0.08
Consensus pattern (17 bp):
GTGGGGCCCACACACCC
Found at i:15885173 original size:108 final size:107
Alignment explanation
Indices: 15884723--15885165 Score: 615
Period size: 107 Copynumber: 4.1 Consensus size: 107
15884713 ATGACATGGA
* * * * *
15884723 TTGAAA-TTTAAGAGGATA-TTTGGCTATATGGTTC-AACGAGAAATCGAAACCCAGCACGTTAG
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGATAG
*
15884785 GGCACGTTTTCTCGAATTTCCAAACGTAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAACTTCCAAACGTAAAATATTGCCTTATT
* * *
15884828 CTGAAATTTTAGAAGGATATTTTAGCTATTTGGTCGAACGAAAAAAAAATCGAAACCCAGCACGT
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACG----AAAAATCGAAACCCAGCACGA
* *
15884893 TAGGGCACATTTTCTCGAACTTCCAAACGTGAAATATTGCCTTATT
62 TAGGGCACGTTTTCTCGAACTTCCAAACGTAAAATATTGCCTTATT
* * * *
15884939 TTGAAATTTTAAAAGGATATTTTTAGCTATTTTGTCGAACAAAAAATTGAAACCCAGCA-TATTA
1 TTGAAATTTTAAAAGGATA-TTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGA-TA
* *
15885003 GGGTACGTTTTCTCGAACTTCCAAACGTAAAATATTGCTTTATT
64 GGGCACGTTTTCTCGAACTTCCAAACGTAAAATATTGCCTTATT
*
15885047 TTGAAATTTTAAAAGGATATTTTAGGTATTTGGTCGAACGAAAAATCGAAACCCAGCACGATAGG
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGATAGG
*
15885112 GCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
66 GCACGTTTTCTCGAACTTCCAAACGTAAAATATTGCCTTATT
15885154 TTGAAAATTTTA
1 TTG-AAATTTTA
15885166 TTTGGATAAA
Statistics
Matches: 299, Mismatches: 28, Indels: 19
0.86 0.08 0.05
Matches are distributed among these distances:
105 5 0.02
106 12 0.04
107 96 0.32
108 87 0.29
111 80 0.27
112 19 0.06
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (107 bp):
TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGATAGG
GCACGTTTTCTCGAACTTCCAAACGTAAAATATTGCCTTATT
Found at i:15885568 original size:5 final size:5
Alignment explanation
Indices: 15885554--15885590 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
15885544 AATCATAAGC
*
15885554 AAAT- AAATA AAATA AAATA AAATG AAATA AAA-A AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT
15885591 GTAAGCTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:15886603 original size:9 final size:9
Alignment explanation
Indices: 15886589--15886618 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
15886579 TTCGACGTTC
15886589 TTTTTGTTT
1 TTTTTGTTT
15886598 TTTTTGTTT
1 TTTTTGTTT
*
15886607 TTGTTGTTT
1 TTTTTGTTT
15886616 TTT
1 TTT
15886619 GTTTGCGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:15886609 original size:15 final size:16
Alignment explanation
Indices: 15886589--15886622 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
15886579 TTCGACGTTC
15886589 TTTTTGTT-TTTTTTG
1 TTTTTGTTGTTTTTTG
15886604 TTTTTGTTGTTTTTTG
1 TTTTTGTTGTTTTTTG
15886620 TTT
1 TTT
15886623 GCGTGTGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (16 bp):
TTTTTGTTGTTTTTTG
Found at i:15887360 original size:132 final size:131
Alignment explanation
Indices: 15887199--15887643 Score: 646
Period size: 132 Copynumber: 3.4 Consensus size: 131
15887189 ACAGGAAGAC
* * * **
15887199 AAGATCCACATTCTTCAACCTACTCCACTGCTGCTCAGGGAGA-TAGGACCAGTGGCTTAAATCT
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGG-CTGGTGGCTTAAATCT
* *
15887263 GCTTCCCTACTACATTGGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTATTGCTTAGGGA
65 GCTTCCCTACTAC-TTGGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
15887328 GAT
129 GAT
*
15887331 AAGATCTACAATCTTTC-ACCTACTCCACTGCTGCTCAGAGAGACAAGGCTGGTGGCTTAAATCT
1 AAGATCTACAATC-TTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCT
* *
15887395 GCTTCCCTACTACCTT-GGAAGGATAAGATTTGTTGTCCTCGATCTGCTCCACTACTGCTTAGGG
65 GCTTCCCTACTA-CTTGGGAA-GATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGG
15887459 AGAT
128 AGAT
*
15887463 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGTTGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTG
* * * * *
15887528 C-TCCCCACTATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGGTCCACTACTGCTTAGGGAG
66 CTTCCCTACTA-CTTGGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
15887592 AT
130 AT
* *
15887594 AAGATCTACAATCTTCAATCTACTCCACAGCTGCTCAGGGAGACAAGGCT
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCT
15887644 TGGTTTCTTT
Statistics
Matches: 284, Mismatches: 23, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
131 107 0.38
132 170 0.60
133 7 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (131 bp):
AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGTGGCTTAAATCTG
CTTCCCTACTACTTGGGAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
T
Found at i:15887489 original size:44 final size:44
Alignment explanation
Indices: 15887436--15887636 Score: 142
Period size: 44 Copynumber: 4.6 Consensus size: 44
15887426 GTTGTCCTCG
*
15887436 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * * ***** *
15887480 ACCTACTCCACTGCTGCTCAGGGAGACAAGGT-TGGTGGCTTAA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * * *
15887523 ATCTGCTCCCCACTA-T-CTT-GGAAAGATAAGATTTGCCATCTTCG
1 ATCTACT--CCACTACTGCTTAGG-GAGATAAGATCTACAATCTTCA
**
15887567 ATCTGGTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
*
15887611 ATCTACTCCAC-AGCTGCTCAGGGAGA
1 ATCTACTCCACTA-CTGCTTAGGGAGA
15887637 CAAGGCTTGG
Statistics
Matches: 115, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
42 8 0.07
43 21 0.18
44 79 0.69
45 7 0.06
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
Found at i:15887784 original size:128 final size:129
Alignment explanation
Indices: 15887628--15887859 Score: 430
Period size: 128 Copynumber: 1.8 Consensus size: 129
15887618 CCACAGCTGC
*
15887628 TCAGGGAGACAAGGCTTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
1 TCAGGGAGACAAGGATTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
15887693 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCACCACTGCAACT
66 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCACCACTGCAACT
*
15887757 TCAGGGAGA-TAGGATTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
1 TCAGGGAGACAAGGATTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
*
15887821 CGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGT
66 CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGT
15887860 AATCTTCGAC
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
128 91 0.91
129 9 0.09
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (129 bp):
TCAGGGAGACAAGGATTGGTTTCTTTCGTCTGCTCCACTACTACTTAGGGAGATAAGACTTGATG
CGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCACCACTGCAACT
Found at i:15887794 original size:44 final size:42
Alignment explanation
Indices: 15887628--15887813 Score: 112
Period size: 44 Copynumber: 4.3 Consensus size: 42
15887618 CCACAGCTGC
* * *
15887628 TCAGGGAGACAAGGCTTGGTTTCTTTCGTCTGCTCCACTACTACT
1 TCAGGGAGATAA-GATT-GTTT-TTTCGTCTGCTCCACTACAACT
* * * *
15887673 T-AGGGAGATAAGACTTG---ATGCGATCTGCTCTACTGCAACT
1 TCAGGGAGATAAGA-TTGTTTTTTCG-TCTGCTCCACTACAACT
* * ** * * *
15887713 TCAGAGAGATAAGATCTGTGGTTTTAATCCGCACCACTGCAACT
1 TCAGGGAGATAAGAT-TGT-TTTTTCGTCTGCTCCACTACAACT
* *
15887757 TCAGGGAGATAGGATTGGTTTCTTTCGTCTGCTCCACTACTACT
1 TCAGGGAGATAAGATT-GTTT-TTTCGTCTGCTCCACTACAACT
15887801 T-AGGGAGATAAGA
1 TCAGGGAGATAAGA
15887814 CTTGATGCGA
Statistics
Matches: 106, Mismatches: 25, Indels: 22
0.69 0.16 0.14
Matches are distributed among these distances:
39 3 0.03
40 16 0.15
41 13 0.12
43 15 0.14
44 57 0.54
45 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (42 bp):
TCAGGGAGATAAGATTGTTTTTTCGTCTGCTCCACTACAACT
Found at i:15891176 original size:22 final size:22
Alignment explanation
Indices: 15891148--15891192 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15891138 AAATGGGGTC
15891148 ACATTTCTCAGTTAGCTGTGAA
1 ACATTTCTCAGTTAGCTGTGAA
*
15891170 ACATTTCTCAGTTATCTGTGAA
1 ACATTTCTCAGTTAGCTGTGAA
15891192 A
1 A
15891193 TGAACCTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (22 bp):
ACATTTCTCAGTTAGCTGTGAA
Found at i:15899579 original size:107 final size:107
Alignment explanation
Indices: 15899190--15899629 Score: 643
Period size: 107 Copynumber: 4.1 Consensus size: 107
15899180 ATGACATGGA
* * *
15899190 TTGAAA-TTTAAGAGGATA-TTTGGCTATTTGGTTC-AACGAGAAATCGAAACCCAGCACGTTAG
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGG-TCGAACGAAAAATCGAAACCCAGCACGTTAG
* *
15899252 GGCACGTTTTCTCTAATTTCCAAACGCAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
* *
15899295 CTGAAATTTTAGAAGGATATTTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACGTT
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACG---AAAAATCGAAACCCAGCACGTT
* * * **
15899360 AGAGCACGTTTTCTCAAACTTCCAAATGTGAAATATTGCCTTATT
63 AGGGCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
* *
15899405 TTGAAAATTTAAAAGGATATTTTTGGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAG
1 TTGAAATTTTAAAAGGATA-TTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAG
* * *
15899470 GGCATGTTTGCTCGAACTTCCAAACGTAAAATATTGCCTTATT
65 GGCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
* *
15899513 TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCAAACGAAAAATCGAAACCTAGCACGTTAGG
1 TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGG
15899578 GCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
66 GCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
15899620 TTGAAATTTT
1 TTGAAATTTT
15899630 TATTTGGATA
Statistics
Matches: 300, Mismatches: 28, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
105 5 0.02
106 12 0.04
107 108 0.36
108 79 0.26
110 76 0.25
111 20 0.07
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (107 bp):
TTGAAATTTTAAAAGGATATTTTAGCTATTTGGTCGAACGAAAAATCGAAACCCAGCACGTTAGG
GCACGTTTTCTCGAACTTCCAAACGCAAAATATTGCCTTATT
Found at i:15900034 original size:5 final size:5
Alignment explanation
Indices: 15900020--15900056 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
15900010 AATAATAAGC
*
15900020 AAAT- AAATA AAATA AAATA AAATG AAATA AAA-A AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT
15900057 GTAAGCTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:15910009 original size:20 final size:21
Alignment explanation
Indices: 15909941--15910035 Score: 66
Period size: 24 Copynumber: 4.2 Consensus size: 21
15909931 ATTAATATTG
*
15909941 TTTAAATTTATCGCATATTATTAT
1 TTTAAATTTAT--CAT-GTATTAT
* *
15909965 TTTAAATTTGTCATATATAATTAT
1 TTTAAATTTATC--ATGT-ATTAT
*
15909989 TTTAAGTTT-TCATGTATTAT
1 TTTAAATTTATCATGTATTAT
*
15910009 TATTCAAATTTATTATGTATTAT
1 T-TT-AAATTTATCATGTATTAT
15910032 TTTA
1 TTTA
15910036 TATATCTTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 15
0.74 0.08 0.19
Matches are distributed among these distances:
20 6 0.10
21 6 0.10
22 8 0.14
23 14 0.24
24 25 0.42
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAAATTTATCATGTATTAT
Found at i:15910010 original size:23 final size:24
Alignment explanation
Indices: 15909941--15910012 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
15909931 ATTAATATTG
* **
15909941 TTTAAATTTATCGCATATTATTAT
1 TTTAAATTTGTCATATATTATTAT
*
15909965 TTTAAATTTGTCATATATAATTAT
1 TTTAAATTTGTCATATATTATTAT
* *
15909989 TTTAAGTTT-TCATGTATTATTAT
1 TTTAAATTTGTCATATATTATTAT
15910012 T
1 T
15910013 CAAATTTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
23 13 0.32
24 28 0.68
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TTTAAATTTGTCATATATTATTAT
Found at i:15911827 original size:490 final size:489
Alignment explanation
Indices: 15910908--15911887 Score: 1780
Period size: 490 Copynumber: 2.0 Consensus size: 489
15910898 TACATTCGAC
*
15910908 TTTAAGATATTAAATAATCAATTCGGTACCAATTTTGGGCGTTACGAGGGTGCTAATTCTTCCTC
1 TTTAAGATATTAAATAATCAATTCGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTC
**
15910973 GTACGTAACTGACTCCCAAACCTGCTTTTTTTCTGAAACTTGTAGACCAAAATCATTTTTAAGGT
66 GTACGTAACTGACTCCCAAACCTGCTTTTTTTCTGAAACCCGTAGACCAAAATCATTTTTAAGGT
** *
15911038 GATCTGATCACACCTCAATAAAAGATCGGTGGCCACTCCAATTTTCATTTTTTAAGTCGACAAAT
131 GATCCAATCACACCTCAATAAAAGATCGGCGGCCACTCCAATTTTCATTTTTTAAGTCGACAAAT
15911103 TTTTTGTTTTCAAAAAGTGGTTTCGATAGTTTGGCGACTCCACTGGGGACTGGTTTTGAAAGTCG
196 TTTTTGTTTTCAAAAAGTGGTTTCGATAGTTTGGCGACTCCACTGGGGACTGGTTTTGAAAGTCG
*
15911168 AGACACAAATTGATTATTTTCTGTCTTTTTGTCTAAAGTTTAAAATTTGATTTAAAATTACGATC
261 AGACACAAATTGATTATTTTCTGTCTTTTTGTCGAAAGTTTAAAATTTGATTTAAAATTACGATC
15911233 CTCTTATTGCACTTTTTATGGGCTACATCATTTTGATATGTTTGTTTATTTGGTTTGAGTATATA
326 CTCTTATTGCACTTTTTATGGGCTACATCATTTTGATATGTTTGTTTATTTGGTTTGAGTATATA
*
15911298 AATCCCTGCATATCACATTGCATAACCGTTTGGTTATATCCTTTTAAGTGGGAGTGAGAAACTAG
391 AATCCCTGCATATCACATTGCATAACCATTTGGTTATATCCTTTTAAGTGGGAGTGAGAAACTAG
15911363 TCCTTCGTGAGGTCTTTACCTCCGTGTAGGATAG
456 TCCTTCGTGAGGTCTTTACCTCCGTGTAGGATAG
15911397 TTTAAGATATTAAATAATCAATTCGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTC
1 TTTAAGATATTAAATAATCAATTCGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTC
* * **
15911462 GTACGTAATTGACTCCCGAACCTATTTTTTTTTCTGAAACCCGTAGACCAAAATCATTTTTAAGG
66 GTACGTAACTGACTCCCAAACCT-GCTTTTTTTCTGAAACCCGTAGACCAAAATCATTTTTAAGG
*
15911527 TGATCCAATCACACCTCAATAAAAGATCGGCGGCGACTCCAATTTTCATTTTTTAAGTCGACAAA
130 TGATCCAATCACACCTCAATAAAAGATCGGCGGCCACTCCAATTTTCATTTTTTAAGTCGACAAA
* * *
15911592 TTTTTTGTTTTCAAAAAGTGGTTTTGATAGTTTGGTGACTCCACTGGGGACTGGTTTTGAGAGTC
195 TTTTTTGTTTTCAAAAAGTGGTTTCGATAGTTTGGCGACTCCACTGGGGACTGGTTTTGAAAGTC
* *
15911657 GAGCCACAAATTGATTATTTTTTGTCTTTTTGTCGAAAGTTTAAAATTTGATTTAAAATTACGAT
260 GAGACACAAATTGATTATTTTCTGTCTTTTTGTCGAAAGTTTAAAATTTGATTTAAAATTACGAT
*
15911722 CCTCTTATTGCACTTTTTATGGGCTACATCATTTTGATATGTTTGTTTATTTGGTTTGAGTCTAT
325 CCTCTTATTGCACTTTTTATGGGCTACATCATTTTGATATGTTTGTTTATTTGGTTTGAGTATAT
15911787 AAATCCCTGCATATCACATTGCATAACCATTTGGTTATATCCTTTTAAGTGGGAGTGAGAAACTA
390 AAATCCCTGCATATCACATTGCATAACCATTTGGTTATATCCTTTTAAGTGGGAGTGAGAAACTA
15911852 GTCCTTCGTGAGGTCTTTACCTCCGTGTAGGATAG
455 GTCCTTCGTGAGGTCTTTACCTCCGTGTAGGATAG
15911887 T
1 T
15911888 GGATCACTTT
Statistics
Matches: 471, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
489 85 0.18
490 386 0.82
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (489 bp):
TTTAAGATATTAAATAATCAATTCGGTACCAATTTTGGGCGTTACGAGGGTGCTAATCCTTCCTC
GTACGTAACTGACTCCCAAACCTGCTTTTTTTCTGAAACCCGTAGACCAAAATCATTTTTAAGGT
GATCCAATCACACCTCAATAAAAGATCGGCGGCCACTCCAATTTTCATTTTTTAAGTCGACAAAT
TTTTTGTTTTCAAAAAGTGGTTTCGATAGTTTGGCGACTCCACTGGGGACTGGTTTTGAAAGTCG
AGACACAAATTGATTATTTTCTGTCTTTTTGTCGAAAGTTTAAAATTTGATTTAAAATTACGATC
CTCTTATTGCACTTTTTATGGGCTACATCATTTTGATATGTTTGTTTATTTGGTTTGAGTATATA
AATCCCTGCATATCACATTGCATAACCATTTGGTTATATCCTTTTAAGTGGGAGTGAGAAACTAG
TCCTTCGTGAGGTCTTTACCTCCGTGTAGGATAG
Found at i:15915775 original size:6 final size:6
Alignment explanation
Indices: 15915764--15915788 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15915754 ATATTTTAAA
15915764 AAAATG AAAATG AAAATG AAAATG A
1 AAAATG AAAATG AAAATG AAAATG A
15915789 TGAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:15915839 original size:12 final size:11
Alignment explanation
Indices: 15915793--15915835 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
15915783 AAATGATGAA
15915793 AAAAGAAAAGG
1 AAAAGAAAAGG
*
15915804 AAAAGAGAAGG
1 AAAAGAAAAGG
15915815 AAAAAGAAAAGG
1 -AAAAGAAAAGG
15915827 AAAAGAAAA
1 AAAAGAAAA
15915836 AGGAGAGGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 19 0.66
12 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGG
Found at i:15918094 original size:44 final size:44
Alignment explanation
Indices: 15917999--15919146 Score: 628
Period size: 44 Copynumber: 25.8 Consensus size: 44
15917989 AGATGATGAA
** ** *
15917999 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCCA-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AG
* * * * *
15918043 TCCTATCTCCTTGAAGTTACAGTAGAGCGGATTAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * * **
15918087 TCTTATCTTCCTGAAGTTGCAAG-GGAGCAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTAAAGTTA-CAAG
* * * * **** *
15918132 TCTTATC-CCTTTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGAT
1 TCTTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAG
* ** *
15918177 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCA-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AG
* * *
15918221 TCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * * * * * **
15918265 TCTTATCTCCCTAAAGTTACAGTGTAACAGACTGAAGAAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAG
* * * * * **
15918310 TCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTCAAGATGGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTAC-AAG
* * * * ** *
15918355 TCTTATCTCCCTGAAATTGCAATGGAGTAGGTTAAAGCCA-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AG
* *
15918399 TCCTATCTCCCTGAAGTTGCGGTGGAG-AGGATTAAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA-GATT-AAAGTTACAAG
* * **
15918444 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGCCA-ATAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AG
* *
15918488 TCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * * **
15918532 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAGAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAG
* * * ** *
15918577 TCTTATC-CTCCTGAAGTTGCAGTGGGGCGGACTGAATA-TGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-AGTTACAAG
* * * ** *
15918622 TCTTATCACCCTGAAGTTGTAGTGTAGCAGATTAAAGCCA-ATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AG
* * *
15918666 TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * **
15918710 TCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGAGAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAG
* * * * * * ** *
15918755 TCTTATCCCCCTAAAGTTGCATTGGGGCAGACTGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAG
* * * *** * *
15918800 T-TTGATCTCCCTAAATTTGTAGTGGAGCAGATTAAAACCAATAAT
1 TCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTTACAAG
* * *
15918845 TC-TATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAG-T-GAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * * *
15918886 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATGATAGTGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA--CAAG
* * ** * ** * * *
15918931 TCTTATTTCCCTAAAACTGCGGTGGAATAGGTTGAAGCTATAAATTGTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-T-TACA----AG
* * * * * *
15918981 ATCTTATCTCTCTGAAGTTGCAGTAGAGAAGATCATA--T-CAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
* * * * * *
15919023 CCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGATACCAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAG
* * *
15919067 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTAC-AAG
* *
15919111 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
15919147 ACGATGAATA
Statistics
Matches: 841, Mismatches: 212, Indels: 102
0.73 0.18 0.09
Matches are distributed among these distances:
41 30 0.04
42 32 0.04
43 10 0.01
44 404 0.48
45 321 0.38
46 16 0.02
47 4 0.00
49 1 0.00
51 23 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
Found at i:15918529 original size:267 final size:266
Alignment explanation
Indices: 15918177--15918740 Score: 833
Period size: 267 Copynumber: 2.1 Consensus size: 266
15918167 AGATGGTGAT
* *
15918177 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
* *
15918242 GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGTAACAGACTGAAGAAAGC
66 GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAATGGAACAGACTGAAGAAAGC
* * *
15918307 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTCAAGATGGCGAATCTTATCTCCCTGAAAT
131 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTTATCACCCTGAAAT
* * *
15918372 TGCAATGGAGTAGGTTAAAGCCAATAATCCTATCTCCCTGAAGTTGCGGTGGAG-AGGATTAAAA
196 TGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCA-GATT-AAA
* *
15918436 GTTACAAG
259 CTAACAAG
* * * * *
15918444 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
* * * *
15918509 GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAGAGC
66 GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAATGGAACAGACTGAAGAAAGC
* * * * *
15918574 AAGTCTTATCCTCCTGAAGTTGCAGTGGGGCGGACTGAATATGGCAAATCTTATCACCCTGAAGT
131 AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTTATCACCCTGAAAT
* * *
15918639 TGTAGTGTAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACT
196 TGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACT
15918704 AACAAG
261 AACAAG
*
15918710 TCTTATCACCCTGAAGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
15918741 TTGAAGAGAG
Statistics
Matches: 265, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
266 38 0.14
267 226 0.85
268 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (266 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAATGGAACAGACTGAAGAAAGC
AAGTCTTATCCCCCTGAAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTTATCACCCTGAAAT
TGCAATGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACT
AACAAG
Found at i:15918592 original size:178 final size:177
Alignment explanation
Indices: 15917999--15919146 Score: 789
Period size: 178 Copynumber: 6.5 Consensus size: 177
15917989 AGATGATGAA
** * * * * *
15917999 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCCAATAATCCTATCTCCTTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCA
* * * *
15918064 GTAGAGC-GGATTAAAGTTACAAGTCTTATCTTCCTGAAGTTGCAAG-GGAGCAGACTGAAG-AA
66 GTGGAGCAGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGC-AGTGGAGCAGACTAAAGCCA
* * * * * * *** *
15918126 AGCAAGTCTTATC-CCTTTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGAT
130 A--TAGTCCTATCTCC-CTGAAGTTGCAGTGGAGCAGATTAAAG-TGACAAG
* * * *
15918177 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCA
* * * * * *
15918242 GTGGAGCA-GATTAAAGTTACAAGTCTTATCTCCCTAAAGTTACAGTGTAACAGACTGAAG-AAA
66 GTGGAGCAGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAA
* * * * * * * *
15918305 GCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGTAGACTCAAGATGGCGAA-
131 --TAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TGAC-AAG
* * * * * * * *
15918355 TCTTATCTCCCTGAAATTGCAATGGAGTAGGTTAAAGCCAATAATCCTATCTCCCTGAAGTTGCG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCA
*
15918420 GTGGAG-AGGATTAAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGCCA
66 GTGGAGCAGGATT-AAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCA
* *
15918484 ATAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAG
130 ATAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGACAAG
* * * * * * *
15918532 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAGAGCAAGTCTTATC-CTCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAA-TCCTATCTC-CCTAAAGTTG
* * ** * * * * *
15918596 CAGTGGGGC-GGACTGAATA-TGGCAAATCTTATCACCCTGAAGTTGTAGTGTAGCAGATTAAAG
64 CAGTGGAGCAGGA-TTAA-AGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAG
* * *
15918659 CCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTAACAAG
127 CCAATAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGACAAG
* * * * * *
15918710 TCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGAGAGCAAGTCTTATCCCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAA-TCCTATCTCCCTAAAGTTGC
* * * * ** * * * * * *
15918775 ATTGGGGCA-GACTGAAGATGGCAAAT-TTGATCTCCCTAAATTTGTAGTGGAGCAGATTAAAAC
65 AGTGGAGCAGGATTAAAG-TTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGC
* * * *
15918838 CAATAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTG--AAG
128 CAATAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGACAAG
* * * ** * * **
15918886 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATGATAGTGAATCTTATTTCCCTAAAACTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACA-ACAATCCTATCTCCCTAAAGTTGC
* ** * * * * *
15918951 GGTGGAATAGG-TTGAAGCTATAAATTGTAGATCTTATCTCTCTGAAGTTGCAGTAGAGAAGA-T
65 AGTGGAGCAGGATTAAAG-T-TACA----AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
* * * * * *
15919014 CATA-TCAA-A--CCTTATCTCCTTGAAGTTGCAATGGAGCAGGTTGAAGAT-ACCAA-
123 -AAAGCCAATAGTCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TGA-CAAG
* * * *
15919067 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAG-CTACTAATCCTATCTCCCTGAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAAC-AATCCTATCTCCCTAAAGTTGC
15919131 AGTGGAGC-GGATTAAA
65 AGTGGAGCAGGATTAAA
15919147 ACGATGAATA
Statistics
Matches: 803, Mismatches: 132, Indels: 68
0.80 0.13 0.07
Matches are distributed among these distances:
176 67 0.08
177 48 0.06
178 512 0.64
179 80 0.10
180 30 0.04
181 38 0.05
182 26 0.03
183 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (177 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCA
GTGGAGCAGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAA
TAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTGACAAG
Found at i:15918843 original size:445 final size:442
Alignment explanation
Indices: 15917999--15918920 Score: 1346
Period size: 445 Copynumber: 2.1 Consensus size: 442
15917989 AGATGATGAA
** *
15917999 TCTTATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCCAATAATCCTATCTCCTTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCTTGAAGTTACA
* *
15918064 GTAGAGCGGATTAAAGTTACAAGTCTTATCTTCCTGAAGTTGCAAGGGAGCAGACTGAAGAAAGC
66 GTAGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAAGGGAGCAGACTGAAGAAAGC
* ** * *
15918129 AAGTCTTATCCCTTTGAAGTTGCAGTGGGGCAGACTGAAGATGGTGATTCTTATCTCCCTGAAGT
131 AAGTCTTATCCCTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCACCCTGAAGT
* *
15918194 TGCAGTGGAGTAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAGT
196 TGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAACT
* * * *
15918259 TACAAGTCTTATCTCCCTAAAGTTACAGTGTAACAGACTGAAGAAAGCAAGTCTTATCCCCCTGA
261 AACAAGTCTTATCACCCTAAAGTTACAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCCTAA
* * * *
15918324 AGTTGCAGTGGGGTAGACTCAAGATGGCGAATCTTATCTCCCTGAAATTGCAATGGAGTAGGTTA
326 AGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTA
* *
15918389 AAGCCAATAATCCTATCTCCCTGAAGTTGCGGTGGAGAGGATTAAAAGTTACAAG
391 AAACCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATT-AAAG-T-CAAG
* * *
15918444 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAGTCCTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCTTGAAGTTACA
* * *
15918509 GTGGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAGAGC
66 GTAGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAAGGGAGCAGACTGAAGAAAGC
* *
15918574 AAGTCTTAT-CCTCCTGAAGTTGCAGTGGGGCGGACTGAATATGGCAAATCTTATCACCCTGAAG
131 AAGTCTTATCCCT-CTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCACCCTGAAG
* * * *
15918638 TTGTAGTGTAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAC
195 TTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAAC
* * * * *
15918703 TAACAAGTCTTATCACCCTGAAGTTGCAGTGGAGCAGATTGAAGAGAGCAAGTCTTATCCCCCTA
260 TAACAAGTCTTATCACCCTAAAGTTACAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCCTA
* * * *
15918768 AAGTTGCATTGGGGCAGACTGAAGATGGCAAAT-TTGATCTCCCT-AAATTTGTAGTGGAGCAGA
325 AAGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTT-ATCTCCCTGAAA-TTGCAATGGAGCAGA
* * * *
15918831 TTAAAACCAATAATTCTATCTCCCTGAAGTTGCAGTGGAGCGGATTGAAGTGAAG
388 TTAAAACCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAGTCAAG
15918886 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
15918921 TGATAGTGAA
Statistics
Matches: 426, Mismatches: 48, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
442 37 0.09
443 1 0.00
444 11 0.03
445 377 0.88
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (442 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCAATAATCCTATCTCCTTGAAGTTACA
GTAGAGCAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAAGGGAGCAGACTGAAGAAAGC
AAGTCTTATCCCTCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCACCCTGAAGT
TGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTACAGTGGAGCAGATTAAACT
AACAAGTCTTATCACCCTAAAGTTACAGTGGAACAGACTGAAGAAAGCAAGTCTTATCCCCCTAA
AGTTGCAGTGGGGCAGACTCAAGATGGCAAATCTTATCTCCCTGAAATTGCAATGGAGCAGATTA
AAACCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAGTCAAG
Found at i:15918861 original size:134 final size:131
Alignment explanation
Indices: 15918403--15918918 Score: 352
Period size: 133 Copynumber: 3.9 Consensus size: 131
15918393 CAATAATCCT
* * *** * *
15918403 ATCTCCCTGAAGTTGCGGTGGAG-AGGATTAAAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGT
1 ATCTCCCTAAAGTTGCAGTGGAGCA-GATT-AAACCAACAAGTCTTATCACCCTGAAGTTGCAGT
* * * * * * * * **
15918467 GGAGCAGACTAAAGCCA-ATAGTCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAG-TTACA
64 GGAGCAGATTGAAG--AGA-AGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGCA
*
15918530 AGTCTT-
126 AAT-TTG
* * * * *
15918536 ATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGA-GAGCAAGTCTTATC-CTCCTGAAGTTGCAG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGA-TTAA-ACCAACAAGTCTTATCAC-CCTGAAGTTGCAG
* * * * * * * * * * *
15918599 TGGGGCGGACTGAATATGGCAAATCTTATCACCCTGAAGTTGTAGTGTAGCAGA-TTAA-A-GCC
63 TGGAGCAGATTGAAGA--G-AAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGC
*
15918661 AATAATCCT-
125 -A-AAT-TTG
* *
15918670 ATCTCCCTGAAGTTGCAGTGGAGCAGATTAAACTAACAAGTCTTATCACCCTGAAGTTGCAGTGG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAACCAACAAGTCTTATCACCCTGAAGTTGCAGTGG
* *
15918735 AGCAGATTGAAGAGAGCAAGTCTTATCCCCCTAAAGTTGCATTGGGGCAGACTGAAGATGGCAAA
66 AGCAGATTG-A-AGAG-AAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGCAAA
15918800 TTTG
128 TTTG
* * * * *
15918804 ATCTCCCTAAATTTGTAGTGGAGCAGATTAAAACCAATAATTC-TATCTCCCTGAAGTTGCAGTG
1 ATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAACCAACAAGTCTTATCACCCTGAAGTTGCAGTG
* * * *
15918868 GAGCGGATTGAAGTGAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT
65 GAGCAGATTGAAGAGAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACT
15918919 AATGATAGTG
Statistics
Matches: 310, Mismatches: 53, Indels: 42
0.77 0.13 0.10
Matches are distributed among these distances:
131 33 0.11
132 6 0.02
133 131 0.42
134 123 0.40
135 15 0.05
136 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
ATCTCCCTAAAGTTGCAGTGGAGCAGATTAAACCAACAAGTCTTATCACCCTGAAGTTGCAGTGG
AGCAGATTGAAGAGAAGTCTTATCCCCCTAAAGTTGCAGTGGAGCAGACTGAAGATGGCAAATTT
G
Done.