Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 67 of 253
Found at i:19344535 original size:224 final size:210
Alignment explanation
Indices: 19344145--19344787 Score: 853
Period size: 210 Copynumber: 3.0 Consensus size: 210
19344135 ATTATTAGTA
* *
19344145 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATTAGT-AGTTTTTTAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAAGTAATTTTTTTAGTAAC
* * *
19344209 TACTAACTAGTTGTTATTACAATGTACGATGAGACTGAAGGATGAATGTTGTAGACAAATGAGTA
66 TACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATGTTGGAGACAAATGAGTA
* * * * * * *
19344274 ACAATGCTGGAAGTCTCTCAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATAGGTGAGTA
131 GCGACGCTGGAGGTCTCTGAGCATGGTGGGGGTGTTGTCTTTGTGAATGAGTGAAT-GGTGAGTG
19344339 GGGGAACTTAGTAGGGGAACTTAG
195 GGGGAACTT-G-A--GG---TT-G
*
19344363 GTTTTCGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATGATAATAAGTAATTGTTTTTA
1 G---T-GAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAAGTAATT-TTTTTA
* *
19344428 GTAACTACTAACTAGTTGTTATTACAATGTGCGATGGGAGTGAAGGCTGAATGTTGGAGACAAAT
61 GTAACTACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATGTTGGAGACAAAT
* * * * *
19344493 GAGTAGCGACGCTAGAGGTCTCTGAGCATGGTGGGGGTGTTGTGTTTATAAATGAGTTAATGGTT
126 GAGTAGCGACGCTGGAGGTCTCTGAGCATGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGG-T
19344558 GAGTGGGGGAAC-TGAGGTTG
190 GAGTGGGGGAACTTGAGGTTG
* *
19344578 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGTATTATCATAATAAGTAGTTTTTTTAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAAGTAATTTTTTTAGTAAC
* * * *
19344643 TACTAACTAGTTGTTATTACAATGTGCGATAAGACTAAAGGCTGAATGTTGGAGACAATTGAGCA
66 TACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATGTTGGAGACAAATGAGTA
* *
19344708 GCGACGCTGGAGGTCTTTGAGCATGGTAGGGGTGTTGTCTTTGTGAAAT-AGTGAATGGGTGAGT
131 GCGACGCTGGAGGTCTCTGAGCATGGTGGGGGTGTTGTCTTTGTG-AATGAGTGAAT-GGTGAGT
19344772 GGGGGAAC-TGAGGTTG
194 GGGGGAACTTGAGGTTG
19344788 CAGAATTTGT
Statistics
Matches: 380, Mismatches: 36, Indels: 26
0.86 0.08 0.06
Matches are distributed among these distances:
210 136 0.36
211 54 0.14
212 1 0.00
215 2 0.01
216 2 0.01
218 1 0.00
219 2 0.01
221 2 0.01
222 47 0.12
223 5 0.01
224 128 0.34
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.33
Consensus pattern (210 bp):
GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAAGTAATTTTTTTAGTAAC
TACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATGTTGGAGACAAATGAGTA
GCGACGCTGGAGGTCTCTGAGCATGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGTGAGTGG
GGGAACTTGAGGTTG
Found at i:19345610 original size:211 final size:209
Alignment explanation
Indices: 19345243--19345871 Score: 906
Period size: 211 Copynumber: 3.0 Consensus size: 209
19345233 ATTATTAGCA
*
19345243 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAAGTAGT-CTTTTAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTAT-CATTATCATAATAAGTAGTGTTTTTAGTAAC
* * *
19345307 TACTAACTAGTTGTTATTACAATGTACGATGAGACTGAAGGCTGAATATTGTAGACAAATGAGTA
65 TACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATATTGGAGAGAAATGAGTA
** * * * *
19345372 ATGATGCTGGAGGTCTCTCAGCGTGGTGGGGGTGTAGTCTTTGTGAATGAGTGAATGGGTGAGTA
130 GCGATGCTGGAAGTCTCTAAGCGTGGTGAGGGTGTTGTCTTTGTGAATGAGTGAATGGGTGAGTA
* *
19345437 GGGGAACTTAGGTTT
195 GGGGAACTGAGGTTG
*
19345452 GTGATAGTGTGTCAGGTGGTAAAATTATTGTATCCATTATCATAATAAGTAGTTGTTTTTAGTAA
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTAT-CATTATCATAATAAGTAG-TGTTTTTAGTAA
* * *
19345517 CTACTAACTAATTGTTATTACAATGTGCGATGAGACTGAAGGATAAATATTGGAGAGAAATGAGT
64 CTACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATATTGGAGAGAAATGAGT
*
19345582 AGCGATGCTGGAAGTCTCTAAGCGTGGTGAGGGTGTTGTCTTTGTGAATGAGTGAATGGGTAAGT
129 AGCGATGCTGGAAGTCTCTAAGCGTGGTGAGGGTGTTGTCTTTGTGAATGAGTGAATGGGTGAGT
* *
19345647 AAGGGAACTGAGGCTG
194 AGGGGAACTGAGGTTG
*
19345663 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGATTTATCATAATAAGTAG-GTATTTTAGTAA
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATCA-TTATCATAATAAGTAGTGT-TTTTAGTAA
* * * *
19345727 CTACTAACTAGTTGTTATTGCAATGTGCGATGAGACTGAAAGCTGAATGTTGGAGAGAAATGAGC
64 CTACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATATTGGAGAGAAATGAGT
* * * * *
19345792 AGCGACGCTGG-AGTTCTCTAAGCGTGGT-AGGGTGTTCTCTTTATGAATTAGTGAATAGGTGAG
129 AGCGATGCTGGAAG-TCTCTAAGCGTGGTGAGGGTGTTGTCTTTGTGAATGAGTGAATGGGTGAG
*
19345855 TGGGGGAACTGAGGTTG
193 TAGGGGAACTGAGGTTG
19345872 CAGAATTTGC
Statistics
Matches: 377, Mismatches: 38, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
209 98 0.26
210 93 0.25
211 186 0.49
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.32
Consensus pattern (209 bp):
GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATCATTATCATAATAAGTAGTGTTTTTAGTAACT
ACTAACTAGTTGTTATTACAATGTGCGATGAGACTGAAGGCTGAATATTGGAGAGAAATGAGTAG
CGATGCTGGAAGTCTCTAAGCGTGGTGAGGGTGTTGTCTTTGTGAATGAGTGAATGGGTGAGTAG
GGGAACTGAGGTTG
Found at i:19346696 original size:211 final size:208
Alignment explanation
Indices: 19346328--19346958 Score: 967
Period size: 211 Copynumber: 3.0 Consensus size: 208
19346318 ATTGTTGGCA
* * *
19346328 GTGAAAGTGTGTTAGGTGGTAAAATTATTGTATGAATTATCATAATAAGTAGTTATTTTAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAAT-AGTAGTTTTTTTAGTAAC
* *
19346393 TACTAACTAGTTGTTATTACAATGTACGATGAGACTGAAGGCTGAATGTTGGAGACAAATGAGTA
65 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTA
*
19346458 GCGACGTTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTTAGTA
130 GCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTTAGT-
19346523 GGGGAACTGAGGTTG
194 GGGGAACTGAGGTTG
19346538 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATGAGTAGTTTTTCTTAGTAA
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAAT-AGTAGTTTTT-TTAGTAA
*
19346603 CTGCTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGT
64 CTACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGT
* * * *
19346668 AGCGACGCTAGAGGTCTTTGATCGTGGTGGGGGTGTTGTCTTTATGAATGAGTGAAT-TGTTGAG
129 AGCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTT-AG
* * *
19346732 TGGGAAAATTGATGTTG
193 TGGG-GAACTGAGGTTG
* *
19346749 GTGAAAGTGTGTCGGGTGGTAAAATTATTGTATGCATTATCATAATATGTAGTTTTTATAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATA-GTAGTTTTTTTAGTAAC
* **
19346814 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGATTGTTGGAGACAAATGAACA
65 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTA
* * * * *
19346879 GCGACGCTAGAGGTCTCTAAGCTTGGTGGGGTTGTTATCTTTGTGAATGAGTGAATGGGTGAGTG
130 GCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTTAGT-
19346944 GGGGAACTGAGGTTG
194 GGGGAACTGAGGTTG
19346959 CAGGATTTGC
Statistics
Matches: 382, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
210 189 0.49
211 193 0.51
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (208 bp):
GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAGTAGTTTTTTTAGTAACT
ACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTAG
CGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTTAGTGG
GGAACTGAGGTTG
Found at i:19346909 original size:210 final size:207
Alignment explanation
Indices: 19346328--19346958 Score: 949
Period size: 210 Copynumber: 3.0 Consensus size: 207
19346318 ATTGTTGGCA
* *
19346328 GTGAAAGTGTGTTAGGTGGTAAAATTATTGTATGAATTATCATAATAAGTAGTTATTTTAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAAT-AGTAGTT-TTTTAGTAAC
* *
19346393 TACTAACTAGTTGTTATTACAATGTACGATGAGACTGAAGGCTGAATGTTGGAGACAAATGAGTA
64 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTA
*
19346458 GCGACGTTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGGTT-AGT
129 GCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAAT-GGTTGAGT
*
19346522 AGGGGAACTGAGGTTG
193 -GGGAAACTGAGGTTG
19346538 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATGAGTAGTTTTTCTTAGTAA
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAAT-AGTAG-TTTT-TTAGTAA
*
19346603 CTGCTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGT
63 CTACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGT
* * * *
19346668 AGCGACGCTAGAGGTCTTTGATCGTGGTGGGGGTGTTGTCTTTATGAATGAGTGAATTGTTGAGT
128 AGCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGTTGAGT
* *
19346733 GGGAAAATTGATGTTG
193 GGG-AAACTGAGGTTG
*
19346749 GTGAAAGTGTGTCGGGTGGTAAAATTATTGTATGCATTATCATAATATGTAGTTTTTATAGTAAC
1 GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATA-GTAGTTTTT-TAGTAAC
* **
19346814 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGATTGTTGGAGACAAATGAACA
64 TACTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTA
* * * * *
19346879 GCGACGCTAGAGGTCTCTAAGCTTGGTGGGGTTGTTATCTTTGTGAATGAGTGAATGGGTGAGTG
129 GCGACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGTTGAGT-
*
19346944 GGGGAACTGAGGTTG
193 GGGAAACTGAGGTTG
19346959 CAGGATTTGC
Statistics
Matches: 383, Mismatches: 31, Indels: 14
0.89 0.07 0.03
Matches are distributed among these distances:
209 1 0.00
210 194 0.51
211 188 0.49
ACGTcount: A:0.28, C:0.08, G:0.30, T:0.34
Consensus pattern (207 bp):
GTGAAAGTGTGTCAGGTGGTAAAATTATTGTATGCATTATCATAATAGTAGTTTTTTAGTAACTA
CTAACTAGTTGTTATTACAATGTGCGATGAGATTGAAGGCTGAATGTTGGAGACAAATGAGTAGC
GACGCTAGAGGTCTCTGAGCGTGGTGGGGGTGTTGTCTTTGTGAATGAGTGAATGGTTGAGTGGG
AAACTGAGGTTG
Found at i:19359909 original size:30 final size:30
Alignment explanation
Indices: 19359874--19359931 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
19359864 CAAGAAAACT
*
19359874 GAATAAAGAAATCCA-AGATAGAGAAACCCA
1 GAATAAAGAAATCCAGA-ATAAAGAAACCCA
19359904 GAATAAAGAAATCCAGAATAAAGAAACC
1 GAATAAAGAAATCCAGAATAAAGAAACC
19359932 TAAGATACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
GAATAAAGAAATCCAGAATAAAGAAACCCA
Found at i:19359913 original size:15 final size:15
Alignment explanation
Indices: 19359874--19359931 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
19359864 CAAGAAAACT
*
19359874 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
19359889 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
*
19359904 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
19359919 GAATAAAGAAACC
1 GAATAAAGAAACC
19359932 TAAGATACGA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
14 1 0.03
15 34 0.94
16 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.16, T:0.10
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:19373202 original size:27 final size:27
Alignment explanation
Indices: 19373172--19373233 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
19373162 TATGTCGGTC
19373172 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
19373199 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATTTCGATA
19373226 ATTTTACA
1 ATTTTACA
19373234 AATCGAGGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCGATA
Found at i:19373242 original size:27 final size:27
Alignment explanation
Indices: 19373185--19373408 Score: 229
Period size: 27 Copynumber: 8.3 Consensus size: 27
19373175 TTACACTACA
* *
19373185 AGGGTATTTCGATAATTTTAC-ACTACA
1 AGGGTATTTCGATAATTTTACAAAT-CG
19373212 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
19373239 AGGGTGTTTCGGTAATTTTAAAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
19373266 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * **
19373293 AGGGTATTTTGGTAATTTTATAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
19373320 ATGGTGTTTCAATGATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
19373347 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
19373374 AGGATATTT-TAGTAATTTCAC-AATCG
1 AGGGTATTTCGA-TAATTTTACAAATCG
19373400 AGGGTATTT
1 AGGGTATTT
19373409 AAATCGGGGG
Statistics
Matches: 165, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
26 13 0.08
27 150 0.91
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:19373383 original size:81 final size:81
Alignment explanation
Indices: 19373185--19373404 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 81
19373175 TTACACTACA
* * * * * *
19373185 AGGGTATTTCGATAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTC
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTTC
**
19373249 GGTAATTTTAAAAATCG
65 AATAATTTTAAAAATCG
* * * *
19373266 AGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAATTAATGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTTCA
* *
19373331 ATGATTTTACAAATCG
66 ATAATTTTAAAAATCG
* * * *
19373347 AGGGTATTTCGGTAATTTTACAAATCGAGGATATTTTAGTAATTTCAC-AATCGAGGGT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGT
19373405 ATTTAAATCG
Statistics
Matches: 116, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
80 7 0.06
81 107 0.92
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (81 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTACAAATCAAGGGTGTTTCA
ATAATTTTAAAAATCG
Found at i:19373414 original size:41 final size:42
Alignment explanation
Indices: 19373368--19373450 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
19373358 GTAATTTTAC
19373368 AAATCGAGGATATTTTA-GTAATTTCAC-AATCGAGGGTATTT
1 AAATCGAGGATA-TTTAGGTAATTTCACAAATCGAGGGTATTT
* * * *
19373409 AAATCGGGGGTATTTAGGTAATTTTACAAATCGATGGTATTT
1 AAATCGAGGATATTTAGGTAATTTCACAAATCGAGGGTATTT
19373451 TAGTAATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
40 4 0.11
41 19 0.53
42 13 0.36
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATCGAGGATATTTAGGTAATTTCACAAATCGAGGGTATTT
Found at i:19373419 original size:15 final size:15
Alignment explanation
Indices: 19373395--19373424 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19373385 GTAATTTCAC
19373395 AATCGAGGGTATTTA
1 AATCGAGGGTATTTA
*
19373410 AATCGGGGGTATTTA
1 AATCGAGGGTATTTA
19373425 GGTAATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.33
Consensus pattern (15 bp):
AATCGAGGGTATTTA
Found at i:19373811 original size:28 final size:28
Alignment explanation
Indices: 19373779--19373867 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 28
19373769 TCCCTTTAGA
* * *
19373779 CCCAATCTCGTTCAGATGGCCCATCAGG
1 CCCAATCACATTCATATGGCCCATCAGG
*
19373807 CCCAATCACATTCATATGGCCCATCAAG
1 CCCAATCACATTCATATGGCCCATCAGG
* *
19373835 CCCAATCACATTCATATGGACCATTAGG
1 CCCAATCACATTCATATGGCCCATCAGG
19373863 CCCAA
1 CCCAA
19373868 CTACTTCCCA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.29, C:0.35, G:0.15, T:0.21
Consensus pattern (28 bp):
CCCAATCACATTCATATGGCCCATCAGG
Found at i:19391990 original size:42 final size:42
Alignment explanation
Indices: 19391879--19392043 Score: 163
Period size: 43 Copynumber: 3.9 Consensus size: 42
19391869 AGCTCGTACA
* * ** *
19391879 ATGCCAACGTCTCAGATGTGGTCTTACA-TATAATCAAATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGA-AATCAAATA-CG
* * * *
19391922 ATGCCACTGTCCCGGACAGGGCCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
* *
19391964 ATGCCAATGTCCAAGACATAGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAA--TCAAATACG
*
19392008 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
19392044 CATATCGGAA
Statistics
Matches: 100, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.03
42 26 0.26
43 35 0.35
44 30 0.30
45 6 0.06
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACG
Found at i:19392017 original size:44 final size:44
Alignment explanation
Indices: 19391912--19392042 Score: 142
Period size: 44 Copynumber: 3.0 Consensus size: 44
19391902 TTACATATAA
* ** ** *
19391912 TCAAATATCGATGCCACTGTCCCGGACAGGGCCTTACACGAAA--
1 TCAAATA-CGATGCCAATGTCCAAGACATAGTCTTACACGAAATC
19391955 TCAAATACGATGCCAATGTCCAAGACATAGTCTTACACGTAAATC
1 TCAAATACGATGCCAATGTCCAAGACATAGTCTTACACG-AAATC
* * *
19392000 TCAAAT-CGATGCCAATGTCCCAGACGTGGTCTTACACGAAATC
1 TCAAATACGATGCCAATGTCCAAGACATAGTCTTACACGAAATC
19392043 ACATATCGGA
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
42 26 0.34
43 15 0.20
44 29 0.38
45 6 0.08
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (44 bp):
TCAAATACGATGCCAATGTCCAAGACATAGTCTTACACGAAATC
Found at i:19402605 original size:50 final size:50
Alignment explanation
Indices: 19402528--19402789 Score: 391
Period size: 50 Copynumber: 5.2 Consensus size: 50
19402518 TAAATGACCA
* *
19402528 TGTATATTCAGACACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
19402578 TGTATATTCGGCCACATAGGTAAGTACATATGTGATGCTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * *
19402628 TGTATATTAGGCCCCA-ACGGTATGTACATATGTGATGCTATATTTGATCT
1 TGTATATTCGGCCACATA-GGTATGTACATATGTGATGTTATATTTGATCT
*
19402678 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * *
19402728 TGTATATTTGGCCATATAGGTAAGTACATATGTAATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
19402778 TGTGTATTCGGC
1 TGTATATTCGGC
19402790 TAAATGAGTG
Statistics
Matches: 192, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
49 1 0.01
50 190 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:19409592 original size:15 final size:15
Alignment explanation
Indices: 19409572--19409601 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
19409562 ATTATAAAAG
19409572 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
19409587 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
19409602 GAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:19410508 original size:50 final size:50
Alignment explanation
Indices: 19410432--19410693 Score: 416
Period size: 50 Copynumber: 5.2 Consensus size: 50
19410422 TAAATGACCA
* * * *
19410432 TGTATATTCAGCAACATAGGTTTGTACATATGTGATGTTATTTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
19410482 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* *
19410532 TGTATATTTGGCCACATAGGTTTGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
* * * *
19410582 TGTATATTTGGCCACATAGGTATGTATATATATGATGTTATGTTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
19410632 TGTATATTCGGCCATATAGGTATGTACATATGTGATGTTATATTTGATCT
1 TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
*
19410682 TGTGTATTCGGC
1 TGTATATTCGGC
19410694 TAAATGAGTG
Statistics
Matches: 196, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 196 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.45
Consensus pattern (50 bp):
TGTATATTCGGCCACATAGGTATGTACATATGTGATGTTATATTTGATCT
Found at i:19411143 original size:41 final size:41
Alignment explanation
Indices: 19411086--19411165 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
19411076 CACTATTGAC
19411086 TGTCTTCGGTATTTTAATAAGAAAACTTTCAAACCTATGAT
1 TGTCTTCGGTATTTTAATAAGAAAACTTTCAAACCTATGAT
*
19411127 TGTCTTCGGTATTTTAATAAGCAAACTTTCAAACCTATG
1 TGTCTTCGGTATTTTAATAAGAAAACTTTCAAACCTATG
19411166 GCATGTATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (41 bp):
TGTCTTCGGTATTTTAATAAGAAAACTTTCAAACCTATGAT
Found at i:19415422 original size:22 final size:22
Alignment explanation
Indices: 19415395--19415438 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
19415385 CCAAAATTTA
19415395 AGTTTGGTATCAAGATTTAAAG
1 AGTTTGGTATCAAGATTTAAAG
* * *
19415417 AGTTTGGTTTGAAGGTTTAAAG
1 AGTTTGGTATCAAGATTTAAAG
19415439 TATGAAGGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.27, T:0.39
Consensus pattern (22 bp):
AGTTTGGTATCAAGATTTAAAG
Found at i:19417212 original size:19 final size:19
Alignment explanation
Indices: 19417188--19417233 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
19417178 TGATTTGGAC
19417188 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAATGGGCT
*
19417207 AAATGGGCCGGAATGGGCT
1 AAATGGGCCAGAATGGGCT
19417226 AAATGGGC
1 AAATGGGC
19417234 TCGATGGGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.39, T:0.15
Consensus pattern (19 bp):
AAATGGGCCAGAATGGGCT
Found at i:19417367 original size:29 final size:29
Alignment explanation
Indices: 19417326--19417425 Score: 123
Period size: 29 Copynumber: 3.5 Consensus size: 29
19417316 AATGTGACTA
**
19417326 GGCCTAACAGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
19417355 GGCCTAATGGGCCATA-AATAGGTGATTTG
1 GGCCTAATGGGCCATATAA-ATGTGATTTG
* *
19417384 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
19417412 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
19417426 GATACAGGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 18 0.29
29 43 0.69
30 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:19421174 original size:39 final size:40
Alignment explanation
Indices: 19421097--19421203 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
19421087 TAGCTCCTCG
* * *
19421097 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
19421137 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
19421176 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
19421204 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:19421202 original size:79 final size:80
Alignment explanation
Indices: 19421103--19421323 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
19421093 CTCGTTCAAG
* * * ** * *
19421103 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
19421166 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
19421182 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
19421247 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
19421262 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
19421324 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
79 36 0.31
80 75 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:19421254 original size:80 final size:80
Alignment explanation
Indices: 19421143--19421323 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
19421133 CTCATTCAAT
* * *
19421143 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
19421206 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
19421222 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
19421286 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
19421303 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
19421324 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:19421283 original size:40 final size:40
Alignment explanation
Indices: 19421140--19421323 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
19421130 TAACTCATTC
* *
19421140 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
19421180 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
19421220 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
19421260 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
19421301 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
19421324 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:19423401 original size:17 final size:16
Alignment explanation
Indices: 19423367--19423402 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19423357 GTAATGCCCC
*
19423367 AAAAATCTCGAAACCT
1 AAAAATCTCGAAAACT
19423383 AAAAATCTCGAAATACT
1 AAAAATCTCGAAA-ACT
19423400 AAA
1 AAA
19423403 CTTTCTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.56, C:0.19, G:0.06, T:0.19
Consensus pattern (16 bp):
AAAAATCTCGAAAACT
Found at i:19425463 original size:37 final size:37
Alignment explanation
Indices: 19425413--19425491 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19425403 TTATTACGAA
* * *
19425413 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
19425450 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
19425487 GTCTT
1 GTCTT
19425492 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:19425688 original size:47 final size:47
Alignment explanation
Indices: 19425610--19426237 Score: 1076
Period size: 47 Copynumber: 13.2 Consensus size: 47
19425600 CCCTTCGGGA
* * * * * *
19425610 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19425657 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19425704 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19425751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19425798 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19425845 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19425892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19425939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19425988 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19426035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19426082 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19426131 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19426180 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19426227 CTTATCACATA
1 CTTATCACATA
19426238 GAATCCTAAA
Statistics
Matches: 556, Mismatches: 21, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 415 0.75
49 141 0.25
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19425998 original size:143 final size:143
Alignment explanation
Indices: 19425610--19426237 Score: 1084
Period size: 143 Copynumber: 4.4 Consensus size: 143
19425600 CCCTTCGGGA
* * * * * * * *
19425610 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
19425673 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19425738 TCGGCCATTAGGC
131 TCGGCCATTAGGC
19425751 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
19425814 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19425879 TCGGCCATTAGGC
131 TCGGCCATTAGGC
19425892 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
19425957 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTTATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
19426022 TCGGCCATTAGGC
131 TCGGCCATTAGGC
19426035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
19426100 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
19426165 CATCGGCTATTAGGC
129 CATCGGCCATTAGGC
*
19426180 CTTATCACATATATACACTTTCACATTTATCACATCGGCCATTAGGCCTTATCACATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
19426238 GAATCCTAAA
Statistics
Matches: 469, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
141 186 0.40
143 189 0.40
145 94 0.20
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:19428968 original size:8 final size:8
Alignment explanation
Indices: 19428927--19428986 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
19428917 ATGTATTGGC
19428927 AAAAGCC-
1 AAAAGCCG
19428934 AAAATGCCG
1 AAAA-GCCG
*
19428943 AGAAGCCG
1 AAAAGCCG
*
19428951 AGAAGCCG
1 AAAAGCCG
19428959 AAAAGCCG
1 AAAAGCCG
* *
19428967 AAATGCTG
1 AAAAGCCG
19428975 AAAAGCC-
1 AAAAGCCG
19428982 AAAAG
1 AAAAG
19428987 TTTGGCTACT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
7 9 0.20
8 33 0.73
9 3 0.07
ACGTcount: A:0.48, C:0.22, G:0.25, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:19428980 original size:24 final size:23
Alignment explanation
Indices: 19428927--19428986 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 23
19428917 ATGTATTGGC
19428927 AAAAGCCAAAATGCCGAGAAGCCG
1 AAAAGCCAAAA-GCCGAGAAGCCG
* *
19428951 AGAAGCCGAAAAGCCGA-AATGCTG
1 AAAAGCC-AAAAGCCGAGAA-GCCG
19428975 AAAAGCCAAAAG
1 AAAAGCCAAAAG
19428987 TTTGGCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 7 0.23
24 20 0.65
25 4 0.13
ACGTcount: A:0.48, C:0.22, G:0.25, T:0.05
Consensus pattern (23 bp):
AAAAGCCAAAAGCCGAGAAGCCG
Found at i:19429252 original size:29 final size:28
Alignment explanation
Indices: 19429220--19429310 Score: 101
Period size: 29 Copynumber: 3.2 Consensus size: 28
19429210 GGGCCTAACA
*
19429220 GGCCATATAAATGTCATTTGGGATTAATG
1 GGCCATATAAATGTGA-TTGGGATTAATG
* * **
19429249 GGCCATATACAGGTGACTTGGGCCTAATG
1 GGCCATATAAATGTGA-TTGGGATTAATG
* *
19429278 GGCCATATGAATATGATTGGGATTAATG
1 GGCCATATAAATGTGATTGGGATTAATG
19429306 GGCCA
1 GGCCA
19429311 GATATAGGTA
Statistics
Matches: 50, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 15 0.30
29 35 0.70
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCCATATAAATGTGATTGGGATTAATG
Found at i:19429310 original size:57 final size:58
Alignment explanation
Indices: 19429209--19429319 Score: 152
Period size: 57 Copynumber: 1.9 Consensus size: 58
19429199 TGAATGCGAC
* *
19429209 TGGGCCTAACAGGCCATATAAATGTCATTTGGGATTAATGGGCCATATACAGGTGACT
1 TGGGCCTAACAGGCCATATAAATATCATTTGGGATTAATGGGCCAGATACAGGTGACT
** * * *
19429267 TGGGCCTAATGGGCCATATGAATATGA-TTGGGATTAATGGGCCAGATATAGGT
1 TGGGCCTAACAGGCCATATAAATATCATTTGGGATTAATGGGCCAGATACAGGT
19429320 ATGTGAAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 24 0.52
58 22 0.48
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (58 bp):
TGGGCCTAACAGGCCATATAAATATCATTTGGGATTAATGGGCCAGATACAGGTGACT
Found at i:19431320 original size:13 final size:13
Alignment explanation
Indices: 19431302--19431326 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19431292 TAATGGTATA
19431302 TTGAATCCATGAT
1 TTGAATCCATGAT
19431315 TTGAATCCATGA
1 TTGAATCCATGA
19431327 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:19433229 original size:25 final size:25
Alignment explanation
Indices: 19433201--19433279 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
19433191 CTAATGGCCG
19433201 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* * * *
19433226 ATGTGAT-AAGGCCGAATG-GCA-A-
1 ATGTGATGAATG-TGAAAGTGTATAT
19433248 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
19433273 ATGTGAT
1 ATGTGAT
19433280 AAGGCCTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:19433233 original size:47 final size:47
Alignment explanation
Indices: 19433176--19433329 Score: 263
Period size: 47 Copynumber: 3.3 Consensus size: 47
19433166 ACAAGATATG
*
19433176 TATAAGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* **
19433223 TATATGTGATAAGGCCGAATGGCAAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
19433270 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGGGAAAGTGTA
1 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
19433317 TATATGTGATAAG
1 TATATGTGATAAG
19433330 TCCCGAAGGA
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 99 1.00
ACGTcount: A:0.34, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
Found at i:19438181 original size:48 final size:48
Alignment explanation
Indices: 19438110--19438206 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
19438100 AAACCCCAAA
19438110 AATGGATGATATTTTTAGCTAAGAAGAAATGGAAAATAGGGTGATATC
1 AATGGATGATATTTTTAGCTAAGAAGAAATGGAAAATAGGGTGATATC
*
19438158 AATGGATGATATTTTTAGCTAAGAAGAAATGGGAAATAGGGTGATATC
1 AATGGATGATATTTTTAGCTAAGAAGAAATGGAAAATAGGGTGATATC
19438206 A
1 A
19438207 TTTCCTTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.41, C:0.04, G:0.26, T:0.29
Consensus pattern (48 bp):
AATGGATGATATTTTTAGCTAAGAAGAAATGGAAAATAGGGTGATATC
Found at i:19456428 original size:47 final size:47
Alignment explanation
Indices: 19456377--19456791 Score: 636
Period size: 47 Copynumber: 8.7 Consensus size: 47
19456367 TTAGGATTCT
* * *
19456377 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
* *
19456424 ATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
19456471 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
19456518 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
19456567 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
19456616 ATGTGATGAATGTGAAAGTGTATATATGTGATCAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
19456663 ATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * *
19456710 ATGTGATGAATGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCG
* * *
19456757 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
19456792 TCCCGAAGGG
Statistics
Matches: 346, Mismatches: 17, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
46 3 0.01
47 245 0.71
48 2 0.01
49 96 0.28
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:19456604 original size:192 final size:190
Alignment explanation
Indices: 19456398--19456791 Score: 641
Period size: 192 Copynumber: 2.1 Consensus size: 190
19456388 GTGAACATGC
*
19456398 ATATATGAGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCT
19456463 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
19456528 TGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
131 TGTGAAAGTG--TATATATGTGA-AAGAGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
* *
19456590 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATCAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
19456655 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAA
66 AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
19456720 TGTGAAAGTGTATATATGTGACAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
131 TGTGAAAGTGTATATATGTGAAAGAGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
19456780 A-A-ATGTGATAAG
1 ATATATGTGATAAG
19456792 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
188 10 0.05
189 3 0.02
190 42 0.22
192 135 0.71
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (190 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATAAATGTGAAAGTGTATATATGTGATAAGGCCT
AATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGAAAGAGCCGAATGGCCAACGTGATGAATGTGAAAGTGTAT
Found at i:19459294 original size:46 final size:46
Alignment explanation
Indices: 19459244--19459419 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
19459234 TGATTGAGCA
19459244 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19459290 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
19459335 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
19459383 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19459420 GCAGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:19459400 original size:93 final size:93
Alignment explanation
Indices: 19459241--19459412 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
19459231 GGATGATTGA
*
19459241 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
19459306 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
19459334 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
*
19459398 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
19459413 CTTATGGGCA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:19460915 original size:49 final size:49
Alignment explanation
Indices: 19460849--19460994 Score: 175
Period size: 51 Copynumber: 2.9 Consensus size: 49
19460839 TAGCCAAAGC
* * *
19460849 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAAT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
** * *
19460898 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* * * *
19460949 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACC
19460995 TCACAATCGA
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 39 0.48
50 2 0.02
51 40 0.49
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (49 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:19460972 original size:51 final size:49
Alignment explanation
Indices: 19460849--19460987 Score: 179
Period size: 49 Copynumber: 2.8 Consensus size: 49
19460839 TAGCCAAAGC
* * *
19460849 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*** *
19460898 TATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* *
19460949 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACA
19460988 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 38 0.50
50 1 0.01
51 37 0.49
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:19463170 original size:15 final size:14
Alignment explanation
Indices: 19463122--19463191 Score: 68
Period size: 15 Copynumber: 4.8 Consensus size: 14
19463112 TAAAGATAAC
* *
19463122 AAGAAAACCGAATA
1 AAGAAACCCAAATA
**
19463136 AAGAAATTCAAGATA
1 AAGAAACCCAA-ATA
*
19463151 GAGAAACCCAGAATA
1 AAGAAACCCA-AATA
19463166 AAGAAACCCAAAGTA
1 AAGAAACCCAAA-TA
19463181 AAGAAACCCAA
1 AAGAAACCCAA
19463192 GATACGATAC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 10 0.22
15 35 0.76
16 1 0.02
ACGTcount: A:0.60, C:0.17, G:0.14, T:0.09
Consensus pattern (14 bp):
AAGAAACCCAAATA
Found at i:19463186 original size:30 final size:30
Alignment explanation
Indices: 19463122--19463190 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
19463112 TAAAGATAAC
* **
19463122 AAGAAAACC-GAATAAAGAAATTCAAGATA
1 AAGAAACCCAGAATAAAGAAACCCAAGATA
*
19463151 GAGAAACCCAGAATAAAGAAACCCAA-AGTA
1 AAGAAACCCAGAATAAAGAAACCCAAGA-TA
19463181 AAGAAACCCA
1 AAGAAACCCA
19463191 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAACCCAAGATA
Found at i:19466243 original size:49 final size:49
Alignment explanation
Indices: 19466190--19466407 Score: 265
Period size: 49 Copynumber: 4.4 Consensus size: 49
19466180 CTGGTACGCA
* * *
19466190 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
19466239 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * ** ** *
19466288 TAGTAGCCTGCACTTGGTACTACACACGTGATCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAATTATCCGGTACACG
* * * * *
19466338 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACG
*
19466389 TAGTAGCCTACACTTAGTA
1 TAGTAGCCTGCACTTAGTA
19466408 TGACACATGC
Statistics
Matches: 145, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 76 0.52
50 44 0.30
51 25 0.17
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:19475473 original size:22 final size:22
Alignment explanation
Indices: 19475445--19475489 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
19475435 TCCCCACATG
*
19475445 GAGTGTAG-GGCTGGATGGAGTA
1 GAGTGTAGAGGATGGATGG-GTA
19475467 GAGTGTAGAGGATGGATGGGTA
1 GAGTGTAGAGGATGGATGGGTA
19475489 G
1 G
19475490 GATATCTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.24, C:0.02, G:0.51, T:0.22
Consensus pattern (22 bp):
GAGTGTAGAGGATGGATGGGTA
Found at i:19475595 original size:34 final size:34
Alignment explanation
Indices: 19475524--19475605 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
19475514 TGTATTGAAT
* * *
19475524 TGGGCTAAGGCTCATACTGATACTGCTACTATAA
1 TGGGCTAAGGCCCACACTGATAATGCTACTATAA
19475558 TGGGCTAAGGCCCACACTGATAATG-TGACTGAT-A
1 TGGGCTAAGGCCCACACTGATAATGCT-ACT-ATAA
*
19475592 TGGGCTTAGGCCCA
1 TGGGCTAAGGCCCA
19475606 GACTATTCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 1 0.02
34 39 0.93
35 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATAATGCTACTATAA
Found at i:19481612 original size:40 final size:40
Alignment explanation
Indices: 19481557--19481788 Score: 288
Period size: 40 Copynumber: 5.8 Consensus size: 40
19481547 ATAATCACAA
* * *
19481557 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
19481597 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
19481637 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
19481677 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
19481717 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAA-TA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * *
19481757 GCATAAATGCCTTCGGGACTTAGCCCGTATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
19481789 CATTCAAATG
Statistics
Matches: 167, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.02
40 154 0.92
41 9 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:19481640 original size:80 final size:80
Alignment explanation
Indices: 19481537--19481783 Score: 347
Period size: 80 Copynumber: 3.1 Consensus size: 80
19481527 TCTTCAGAAT
* *
19481537 TTAG-CCGGATATAATCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
19481601 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
19481616 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
19481681 AAATGCCTTCGGGTC
66 AAATGCCTTCGGGTC
* * * * * * * *
19481696 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCAA-TAGC
1 TTAGCCCGGATAAAATC-ACTAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGC
* *
19481759 ATAAATGCCTTCGGGAC
64 ACAAATGCCTTCGGGTC
19481776 TTAGCCCG
1 TTAGCCCG
19481784 TATATCATTC
Statistics
Matches: 153, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
79 8 0.05
80 140 0.92
81 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTC
Found at i:19481770 original size:120 final size:120
Alignment explanation
Indices: 19481557--19481783 Score: 373
Period size: 120 Copynumber: 1.9 Consensus size: 120
19481547 ATAATCACAA
* *
19481557 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* * *
19481622 CGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
66 CGGATAAAATCAATAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
* *
19481677 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
19481742 CGGATAAAATCAATAGCATAAATGCCTTCGGGACTTAGCCCG
66 CGGATAAAATCAATAGCACAAATGCCTTCGGGACTTAACCCG
19481784 TATATCATTC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 98 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATAAAATCAATAGCACAAATGCCTTCGGGACTTAACCCGGGTATAGCAACTC
Found at i:19492782 original size:34 final size:34
Alignment explanation
Indices: 19492729--19492815 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 34
19492719 TGTATTGAAT
* * * *
19492729 TGGGCTAAGGCTCATACTGATACTGCTACT-ATAA
1 TGGGCTAAGGCCCACACTGATAATGCGACTGAT-A
*
19492763 TGGGCTAATGCCCACACTGATAATGCGACTGATA
1 TGGGCTAAGGCCCACACTGATAATGCGACTGATA
* *
19492797 TGGGCTTAGGCCCAGACTG
1 TGGGCTAAGGCCCACACTG
19492816 TTCAACACTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
34 42 0.95
35 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
TGGGCTAAGGCCCACACTGATAATGCGACTGATA
Found at i:19496366 original size:3 final size:3
Alignment explanation
Indices: 19496358--19496388 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
19496348 ATTCTTTCTT
19496358 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
19496389 ATAACATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19498186 original size:29 final size:29
Alignment explanation
Indices: 19497997--19498216 Score: 123
Period size: 29 Copynumber: 7.7 Consensus size: 29
19497987 TAAGGGGTTC
* * * *
19497997 GCCACAAAAGCTCACCTTTTTAGGGTTTT
1 GCCACAAAGGCTTACCTTTCTAGAGTTTT
* *
19498026 GCCAGAAAGGCTCACCTTTCTAGAGTTTT
1 GCCACAAAGGCTTACCTTTCTAGAGTTTT
* * * *
19498055 GCCACAAAGG-TTGTCCTGT-AACAGTTTT
1 GCCACAAAGGCTT-ACCTTTCTAGAGTTTT
* * * *
19498083 TCCACAACGGCTTACCTTTCCAAAGTTTT
1 GCCACAAAGGCTTACCTTTCTAGAGTTTT
* * * * *
19498112 TCCATAAAGGC-TATCCTTT-AACAG-GTT
1 GCCACAAAGGCTTA-CCTTTCTAGAGTTTT
19498139 -CCTAGCAAAGGCTTACCTTTCTAGAGTTTT
1 GCC-A-CAAAGGCTTACCTTTCTAGAGTTTT
* * * *
19498169 GCCACAAAGG-TTATCCTTT-AACAGGTTC
1 GCCACAAAGGCTTA-CCTTTCTAGAGTTTT
*
19498197 ACCACAAAGGCTTACCTTTC
1 GCCACAAAGGCTTACCTTTC
19498217 CAAGGTTTTA
Statistics
Matches: 148, Mismatches: 30, Indels: 26
0.73 0.15 0.13
Matches are distributed among these distances:
26 2 0.01
27 3 0.02
28 58 0.39
29 80 0.54
30 3 0.02
31 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.32
Consensus pattern (29 bp):
GCCACAAAGGCTTACCTTTCTAGAGTTTT
Found at i:19498223 original size:28 final size:28
Alignment explanation
Indices: 19498084--19498216 Score: 87
Period size: 28 Copynumber: 4.7 Consensus size: 28
19498074 AACAGTTTTT
* * *
19498084 CCACAACGGCTTACCTTTCCAA-AGTTTTT
1 CCACAAAGGCTTACCTTT-CAACAG-GTTC
*
19498113 CCATAAAGGC-TATCCTTT-AACAGGTTC
1 CCACAAAGGCTTA-CCTTTCAACAGGTTC
* * * * *
19498140 CTAGCAAAGGCTTACCTTTCTAGAGTTTTG
1 CCA-CAAAGGCTTACCTTTCAACAG-GTTC
19498170 CCACAAAGG-TTATCCTTT-AACAGGTTC
1 CCACAAAGGCTTA-CCTTTCAACAGGTTC
19498197 ACCACAAAGGCTTACCTTTC
1 -CCACAAAGGCTTACCTTTC
19498217 CAAGGTTTTA
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
27 8 0.10
28 35 0.44
29 32 0.41
30 4 0.05
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (28 bp):
CCACAAAGGCTTACCTTTCAACAGGTTC
Found at i:19498235 original size:114 final size:114
Alignment explanation
Indices: 19498031--19498253 Score: 329
Period size: 114 Copynumber: 2.0 Consensus size: 114
19498021 GTTTTGCCAG
* * ** *
19498031 AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTGTCCTGTAACAGTTTTTCCACAACGGCTT
1 AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAAGGCTT
* * *
19498096 ACCTTTCCAAAGTTTTTCCATAAAGGCTATCCTTTAACAGGTTCCTAGC
66 ACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTCCTAGC
* *
19498145 AAAGGCTTACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCACAAAGGCTT
1 AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAAGGCTT
* * *
19498210 ACCTTTCCAAGGTTTTACAAAAAAGGTTGTCCTTTAACAGGTTC
66 ACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTC
19498254 ACCACAATGG
Statistics
Matches: 96, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (114 bp):
AAAGGCTCACCTTTCTAGAGTTTTGCCACAAAGGTTATCCTGTAACAGGTTCACCACAAAGGCTT
ACCTTTCCAAAGTTTTACAAAAAAGGCTATCCTTTAACAGGTTCCTAGC
Found at i:19498250 original size:57 final size:57
Alignment explanation
Indices: 19498031--19498266 Score: 235
Period size: 57 Copynumber: 4.1 Consensus size: 57
19498021 GTTTTGCCAG
* * * * * * * **
19498031 AAAGGCTCACCTTT-CTAGAGTTTTGCCACAAAGGTTGTCCTGTAACAGTTTTTCCAC
1 AAAGGCTTACCTTTCCAAG-GTTTTACCAAAAAGGTTATCCTTTAACAGGTTCACCAC
* * * * * *
19498088 AACGGCTTACCTTTCCAAAGTTTTTCCATAAAGGCTATCCTTTAACAGGTTC-CTAGC
1 AAAGGCTTACCTTTCCAAGGTTTTACCAAAAAGGTTATCCTTTAACAGGTTCACCA-C
* * *
19498145 AAAGGCTTACCTTT-CTAGAGTTTTGCCACAAAGGTTATCCTTTAACAGGTTCACCAC
1 AAAGGCTTACCTTTCCAAG-GTTTTACCAAAAAGGTTATCCTTTAACAGGTTCACCAC
* *
19498202 AAAGGCTTACCTTTCCAAGGTTTTACAAAAAAGGTTGTCCTTTAACAGGTTCACCAC
1 AAAGGCTTACCTTTCCAAGGTTTTACCAAAAAGGTTATCCTTTAACAGGTTCACCAC
*
19498259 AATGGCTT
1 AAAGGCTT
19498267 TTTTTAGAGT
Statistics
Matches: 149, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
56 4 0.03
57 138 0.93
58 7 0.05
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (57 bp):
AAAGGCTTACCTTTCCAAGGTTTTACCAAAAAGGTTATCCTTTAACAGGTTCACCAC
Found at i:19499404 original size:34 final size:30
Alignment explanation
Indices: 19499365--19499422 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
19499355 CGGTCTTAAT
*
19499365 TAATTAATTCAGTTTTATGTAGTCATCAGG
1 TAATTAATTAAGTTTTATGTAGTCATCAGG
19499395 TAATTAATTAAGTTTTATGTAGTCATCA
1 TAATTAATTAAGTTTTATGTAGTCATCA
19499423 TATATTAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (30 bp):
TAATTAATTAAGTTTTATGTAGTCATCAGG
Found at i:19499533 original size:29 final size:30
Alignment explanation
Indices: 19499454--19499567 Score: 96
Period size: 29 Copynumber: 3.9 Consensus size: 30
19499444 ACATACATGC
* *
19499454 ATATGGCCCACTGGGCCCAA-TC-TCATTC-
1 ATATGGCCCAATAGGCCCAATTCAT-ATTCT
* *
19499482 ATATGGCCC-ATCTGGCCCGATTCATATTCT
1 ATATGGCCCAAT-AGGCCCAATTCATATTCT
* *
19499512 -TATGGCCCAATAGTCCCAATTCACA-TCT
1 ATATGGCCCAATAGGCCCAATTCATATTCT
* *
19499540 ATATGGCCCATTAGGCCCAAATCATATT
1 ATATGGCCCAATAGGCCCAATTCATATT
19499568 ATACTCATGC
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
27 1 0.01
28 18 0.26
29 45 0.66
30 4 0.06
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (30 bp):
ATATGGCCCAATAGGCCCAATTCATATTCT
Found at i:19499774 original size:16 final size:16
Alignment explanation
Indices: 19499744--19499773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19499734 CCAACTTTCG
19499744 GCTTTTCGACATTTTA
1 GCTTTTCGACATTTTA
19499760 GCTTTTCGAC-TTTT
1 GCTTTTCGACATTTT
19499774 TGGCATTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.13, C:0.20, G:0.13, T:0.53
Consensus pattern (16 bp):
GCTTTTCGACATTTTA
Found at i:19501097 original size:28 final size:27
Alignment explanation
Indices: 19501047--19501114 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
19501037 ATTACAAGTT
* *
19501047 TTTCCACAAAGGTTTTCCCTTAATAGG
1 TTTCCACAAAGGTTGTCCCTTAACAGG
* *
19501074 TTCTCCACAATGGTTGTCCTTTAACAGG
1 TT-TCCACAAAGGTTGTCCCTTAACAGG
19501102 TTTGCCACAAAGG
1 TTT-CCACAAAGG
19501115 CTTTCCTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.34
Consensus pattern (27 bp):
TTTCCACAAAGGTTGTCCCTTAACAGG
Found at i:19501121 original size:28 final size:27
Alignment explanation
Indices: 19501049--19501122 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 27
19501039 TACAAGTTTT
* *
19501049 TCCACAAAGGTTTTCCCTTAATAGGTTC
1 TCCACAAAGG-TTTCCTTTAACAGGTTC
*
19501077 TCCACAATGGTTGTCCTTTAACAGGTT-
1 TCCACAAAGGTT-TCCTTTAACAGGTTC
19501104 TGCCACAAAGGCTTTCCTT
1 T-CCACAAAGG-TTTCCTT
19501123 AATGGTGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 34 0.87
29 2 0.05
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (27 bp):
TCCACAAAGGTTTCCTTTAACAGGTTC
Found at i:19508159 original size:26 final size:26
Alignment explanation
Indices: 19508121--19508181 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
19508111 CTTCTTACCA
*
19508121 AAAATATATGGAAACCCTGAGAAAGAG
1 AAAATA-ATGGAAACCATGAGAAAGAG
*
19508148 AAAATAATGGAAACTATGAGAAAGAG
1 AAAATAATGGAAACCATGAGAAAGAG
19508174 AAAATAAT
1 AAAATAAT
19508182 CTTTCTTGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.57, C:0.07, G:0.20, T:0.16
Consensus pattern (26 bp):
AAAATAATGGAAACCATGAGAAAGAG
Found at i:19513786 original size:27 final size:28
Alignment explanation
Indices: 19513702--19513799 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
19513692 CATGAGATTG
* * * *
19513702 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
19513731 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
19513759 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
19513786 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
19513800 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:19513810 original size:27 final size:27
Alignment explanation
Indices: 19513730--19513812 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
19513720 TAAATTGTAC
* *
19513730 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
19513758 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
19513785 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
19513812 A
1 A
19513813 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:19521061 original size:25 final size:25
Alignment explanation
Indices: 19521026--19521187 Score: 218
Period size: 25 Copynumber: 6.5 Consensus size: 25
19521016 TAAGCTTGTT
*
19521026 AATTTGTTCTTAATAATTCTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
19521051 AATTTACTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
*
19521076 AATTTGCTCTTAATAATTTTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
19521101 AATTTGTTCTTAATAATTCCGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
* *
19521126 AATTTTCTCTTAAT-ATTTTCGGTTA
1 AATTTGCTCTTAATAATTCT-GGTTA
*
19521151 AATTTGCTCTTAATATTTCTGGTTA
1 AATTTGCTCTTAATAATTCTGGTTA
*
19521176 AATTTGCCCTTA
1 AATTTGCTCTTA
19521188 TTATTTCCGA
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
24 3 0.03
25 112 0.95
26 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.50
Consensus pattern (25 bp):
AATTTGCTCTTAATAATTCTGGTTA
Found at i:19521108 original size:75 final size:75
Alignment explanation
Indices: 19521026--19521181 Score: 260
Period size: 75 Copynumber: 2.1 Consensus size: 75
19521016 TAAGCTTGTT
*
19521026 AATTTGTTCTTAATAATTCTGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
1 AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAAT-
19521091 ATTT-TGGTTA
65 ATTTCTGGTTA
* * *
19521101 AATTTGTTCTTAATAATTCCGGTTAAATTTTCTCTTAATATTTTCGGTTAAATTTGCTCTTAATA
1 AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
19521166 TTTCTGGTTA
66 TTTCTGGTTA
19521176 AATTTG
1 AATTTG
19521182 CCCTTATTAT
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
74 4 0.05
75 72 0.95
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (75 bp):
AATTTGTTCTTAATAATTCCGGTTAAATTTACTCTTAATAATTCCGGTTAAATTTGCTCTTAATA
TTTCTGGTTA
Found at i:19522147 original size:45 final size:45
Alignment explanation
Indices: 19522021--19522277 Score: 371
Period size: 45 Copynumber: 5.8 Consensus size: 45
19522011 CAGTACTATC
* *
19522021 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATATACCATT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGATT
19522066 CGGGCCTTTGAGCCTAG-AGGCTATAATGCCGGTGAGATACGATT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGATT
*
19522110 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGATT
*
19522155 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGATT
* * *
19522200 CAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-ATGATAT
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGAT-T
* ** *
19522244 TGGG-CTTCAAGCCTAGCAGGCGA-AATGCCGGTGA
1 CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
19522278 ATGAATTCGG
Statistics
Matches: 199, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
42 11 0.06
43 20 0.10
44 46 0.23
45 122 0.61
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (45 bp):
CGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACGATT
Found at i:19522234 original size:90 final size:90
Alignment explanation
Indices: 19522014--19522277 Score: 394
Period size: 89 Copynumber: 3.0 Consensus size: 90
19522004 TATCGTACAG
* * *
19522014 TACTATCCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGATATACCATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
19522079 CTAG-AGGCTATAATGCCGGTGAGA
66 CTAGCAGGCTATAATGCCGGTGAGA
* *
19522103 TACGATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
19522168 CTAGCAGGCTATAATGCCGGTGAGA
66 CTAGCAGGCTATAATGCCGGTGAGA
* * **
19522193 TACTATTCAGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAATGA-TATT-GGG-CTTCAAG
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAAT-ACTATTCGGGCCTTTGAG
*
19522255 CCTAGCAGGCGA-AATGCCGGTGA
65 CCTAGCAGGCTATAATGCCGGTGA
19522278 ATGAATTCGG
Statistics
Matches: 162, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
87 11 0.07
88 16 0.10
89 68 0.42
90 66 0.41
91 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (90 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTTGAGC
CTAGCAGGCTATAATGCCGGTGAGA
Found at i:19522300 original size:41 final size:43
Alignment explanation
Indices: 19522122--19522305 Score: 126
Period size: 45 Copynumber: 4.2 Consensus size: 43
19522112 GGCCTTTGAG
* * ** *
19522122 CCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCGGGCCTTTGAG
1 CCTAGCAGGCGATAATGCCGGTGAAATGA-TATT-GGG-CTTAAAA
* * * ** *
19522167 CCTAGCAGGCTATAATGCCGGTGAGAT-ACTATTCAGGCCTTCGAG
1 CCTAGCAGGCGATAATGCCGGTGAAATGA-TATT--GGGCTTAAAA
* * *
19522212 CCTAGCAGGCTATAATGCCGGTGAAATGATATTGGGCTTCAAG
1 CCTAGCAGGCGATAATGCCGGTGAAATGATATTGGGCTTAAAA
*
19522255 CCTAGCAGGCGA-AATGCCGGTG-AATGA-ATTCGGGTTTAAAA
1 CCTAGCAGGCGATAATGCCGGTGAAATGATATT-GGGCTTAAAA
*
19522296 CCTAGTAGGC
1 CCTAGCAGGC
19522306 TGAATGTCGA
Statistics
Matches: 125, Mismatches: 11, Indels: 10
0.86 0.08 0.07
Matches are distributed among these distances:
40 3 0.02
41 21 0.17
42 10 0.08
43 19 0.15
45 69 0.55
46 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (43 bp):
CCTAGCAGGCGATAATGCCGGTGAAATGATATTGGGCTTAAAA
Found at i:19524787 original size:42 final size:42
Alignment explanation
Indices: 19524707--19524787 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
19524697 CGTGTCGCTG
* *
19524707 GCCGTGTGCTAGCCTGTGTAACATTTGAAGTTGGGTCACGTA
1 GCCGTGTGCTAGCCTGTGTAACATTCGAAGTTGAGTCACGTA
* **
19524749 GCCGTGTG-TCAGTCTGTGTAACATTCGTTGTTGAGTCAC
1 GCCGTGTGCT-AGCCTGTGTAACATTCGAAGTTGAGTCAC
19524788 ACGATTCTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 1 0.03
42 32 0.97
ACGTcount: A:0.17, C:0.20, G:0.30, T:0.33
Consensus pattern (42 bp):
GCCGTGTGCTAGCCTGTGTAACATTCGAAGTTGAGTCACGTA
Found at i:19525660 original size:39 final size:39
Alignment explanation
Indices: 19525617--19525692 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 39
19525607 ATAAAATCTT
19525617 ATTCAGTATAATCAATGGATAA-TGCTCGTTTGAGCAAGC
1 ATTCAGTATAATCAATGGA-AATTGCTCGTTTGAGCAAGC
*
19525656 ATTCAGTATAATCAATGGAAATTTCTCGTTTGAGCAA
1 ATTCAGTATAATCAATGGAAATTGCTCGTTTGAGCAA
19525693 CTATTGAGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.33
Consensus pattern (39 bp):
ATTCAGTATAATCAATGGAAATTGCTCGTTTGAGCAAGC
Found at i:19525748 original size:36 final size:36
Alignment explanation
Indices: 19525634--19525924 Score: 255
Period size: 36 Copynumber: 7.9 Consensus size: 36
19525624 ATAATCAATG
* * * * *
19525634 GATAATGCTCGTTTGAGCAAGCATTCAGTATAATCAATG
1 GATATTGCTCGTTTGAGC-A-C-TTTAGTAGAATCAGTA
* * *
19525673 GAAATTTCTCGTTTGAGCAACTATTGAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGC-ACT-TT-AGTAGAATCAGTA
* *
19525712 GATATTTCTCATTTGAGCACTTTAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * *
19525748 GACATTGGTCATTTGAGCACGTTAAGTAGAATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
*
19525785 GATATTGCTCG-TTGAGCACTTTCAG-AGAATCAATA
1 GATATTGCTCGTTTGAGCACTTT-AGTAGAATCAGTA
* *
19525820 GATATTTCTCGTTTGAGCACTTTAGTAGAATTAGTA
1 GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
* * * *
19525856 GACATTGCTCGTTTGAGCACATTCAATAGGATCAGTA
1 GATATTGCTCGTTTGAGCAC-TTTAGTAGAATCAGTA
* * *
19525893 GATATTCCTCG-TTGAACACTTAAAGTAGAATC
1 GATATTGCTCGTTTGAGCACTT-TAGTAGAATC
19525925 GGTATTCCAT
Statistics
Matches: 209, Mismatches: 35, Indels: 19
0.79 0.13 0.07
Matches are distributed among these distances:
35 25 0.12
36 90 0.43
37 47 0.22
38 5 0.02
39 42 0.20
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (36 bp):
GATATTGCTCGTTTGAGCACTTTAGTAGAATCAGTA
Found at i:19525825 original size:108 final size:108
Alignment explanation
Indices: 19525710--19525913 Score: 320
Period size: 108 Copynumber: 1.9 Consensus size: 108
19525700 GTAGAATTAG
* *
19525710 TAGATATTTCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGGTCATTTGAGCACGTT-AAG
1 TAGATATTTCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAA-
* *
19525774 TAGAATCAGTAGATATTGCTCGTTGAGCACTTTCAGAGAATCAA
65 TAGAATCAGTAGATATTCCTCGTTGAACACTTTCAGAGAATCAA
* * *
19525818 TAGATATTTCTCGTTTGAGCACTTTAGTAGAATTAGTAGACATTGCTCGTTTGAGCACATTCAAT
1 TAGATATTTCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAAT
*
19525883 AGGATCAGTAGATATTCCTCGTTGAACACTT
66 AGAATCAGTAGATATTCCTCGTTGAACACTT
19525914 AAAGTAGAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 85 0.98
109 2 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (108 bp):
TAGATATTTCTCATTTGAGCACTTTAGTAGAATCAGTAGACATTGCTCATTTGAGCACATTCAAT
AGAATCAGTAGATATTCCTCGTTGAACACTTTCAGAGAATCAA
Found at i:19527914 original size:40 final size:40
Alignment explanation
Indices: 19527852--19528109 Score: 351
Period size: 40 Copynumber: 6.5 Consensus size: 40
19527842 AAGCCAAGTA
* * * * *
19527852 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCTCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
19527891 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
19527931 CCTTCGGGACTTAGCCTGGATATAGTAACTCGAACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19527971 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
19528011 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
19528051 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
19528091 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
19528110 TTATCATCCG
Statistics
Matches: 199, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.07
40 186 0.93
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:19545986 original size:13 final size:15
Alignment explanation
Indices: 19545957--19545988 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
19545947 GAGAAAAGCT
19545957 GATTCAGAGGCAAGA
1 GATTCAGAGGCAAGA
19545972 GATTC-GAGG-AAGA
1 GATTCAGAGGCAAGA
19545985 GATT
1 GATT
19545989 GATGAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (15 bp):
GATTCAGAGGCAAGA
Found at i:19554297 original size:42 final size:43
Alignment explanation
Indices: 19554217--19554302 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
19554207 TCACTAGGAA
* *
19554217 TTATGTGATCTGAACTCTTTGAGTTGTGGTATGAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
* *
19554260 TTATGTGATTTGAACTCATT-AGTTGTGGTCTAAGTTCATGAT
1 TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
19554302 T
1 T
19554303 ATGAGACACA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 21 0.54
43 18 0.46
ACGTcount: A:0.22, C:0.09, G:0.23, T:0.45
Consensus pattern (43 bp):
TTATGTGATCTGAACTCATTGAGTTGTGGTATAAGTTCATGAT
Found at i:19555649 original size:48 final size:47
Alignment explanation
Indices: 19555547--19555811 Score: 182
Period size: 48 Copynumber: 5.7 Consensus size: 47
19555537 GTTATTGTGG
* * *
19555547 GCTAGTGTAGGACATGTCTGGGACAT-GCATCGGCTAGATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCTAGATGACGAGA
* * * *
19555593 GCCAGTGTAAGACCATGTCTGGTACATGGCATCGGCATTGA-GACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC-TAGATGACGAGA
* * * *
19555641 GCTAGTGTAAGACATGTCTGGGACAT-GCATTGGCTACGA-AATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCTA-GATGACGAGA
* *
19555686 TC-AGTGT---A-A-GT-TGGGACATGGCATCGGC-ACGAAT-ATGTGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCTA-G-ATGA--CGAGA
* * *
19555728 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCTCAG-TGATGATA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCT-AGATGACGAGA
*
19555776 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
19555812 AACTTTCCCG
Statistics
Matches: 177, Mismatches: 21, Indels: 40
0.74 0.09 0.17
Matches are distributed among these distances:
38 11 0.06
39 11 0.06
40 1 0.01
41 4 0.02
42 1 0.01
43 5 0.03
44 5 0.03
45 2 0.01
46 23 0.13
47 26 0.15
48 62 0.35
49 6 0.03
50 18 0.10
51 1 0.01
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCTAGATGACGAGA
Found at i:19557169 original size:49 final size:49
Alignment explanation
Indices: 19557093--19557284 Score: 215
Period size: 49 Copynumber: 3.9 Consensus size: 49
19557083 TAGCTAAAGC
* *
19557093 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
* ** *
19557142 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACC-AAT
* ** * * *
19557192 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-T
* *
19557243 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGC
19557285 GACCTCACAA
Statistics
Matches: 117, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 43 0.37
50 39 0.33
51 34 0.29
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCAACCAAT
Found at i:19557215 original size:50 final size:49
Alignment explanation
Indices: 19557093--19557281 Score: 234
Period size: 50 Copynumber: 3.8 Consensus size: 49
19557083 TAGCTAAAGC
* * * **
19557093 TATCTGGTACGCATAGTAGCCTACACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
19557142 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* ** * *
19557192 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* *
19557243 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
19557282 TGCGACCTCA
Statistics
Matches: 119, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 41 0.34
50 44 0.37
51 34 0.29
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:19557289 original size:101 final size:99
Alignment explanation
Indices: 19557106--19557289 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
19557096 CTGGTACGCA
*
19557106 TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCTGGTACACATAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCGGGTACACATAGTAGCCTGCACTTA
*
19557171 GTACTACACACGTGACCTAACCATCTAATACACG
66 GTACTACACACGCGACCTAACCATCTAATACACG
* * * *
19557205 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCGAAGTTATCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTACACTTAGTACTACACA--TGCAACCAA-TTATCGGGTACACATAGTAGCCTGCAC
*
19557269 TTAGTACTACACATGCGACCT
63 TTAGTACTACACACGCGACCT
19557290 CACAATAGAT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 25 0.33
100 4 0.05
101 46 0.61
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTACACTTAGTACTACACATGCAACCAATTATCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTAATACACG
Found at i:19563471 original size:15 final size:15
Alignment explanation
Indices: 19563451--19563491 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
19563441 GTATCGTATT
19563451 TTGGATTTCTTTATC
1 TTGGATTTCTTTATC
*
19563466 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
19563481 TTGG-TTTCTTT
1 TTGGATTTCTTT
19563492 GTCATCTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.10, C:0.15, G:0.15, T:0.61
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:19566352 original size:140 final size:140
Alignment explanation
Indices: 19566100--19566785 Score: 767
Period size: 140 Copynumber: 5.0 Consensus size: 140
19566090 TACAACAAAA
* * * *
19566100 TAGTCCTAAGACGACACTTTTGTGGCGACACTTTCCTAAGTGTTGGGATAGACTGGCCAATATAC
1 TAGTCCTAAGACGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * * *
19566165 GCTTTAGCCAACTATTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAAAGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
19566230 TGGCTTTGTC
131 TGGCTTTGTC
* * *
19566240 TAGTCCTGAGGCGACACTTTTGGGGTGACACTTTCGTAAGTGTTGGGATAGACTTGCCAACATAC
1 TAGTCCTAAGACGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* ** * * *
19566305 ACTTTCGCCAACTCTTTAAATAAGGGTTGGGATATGTATGCCTAAGGCAACACTTGAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
19566370 TGGCTTTTGTG
131 TGGC-TTTGTC
* * *
19566381 TAGTCCTAAGATGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAT
1 TAGTCCTAAGACGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
* * ** * * *
19566446 GCTTTGGCCAACTCTTTGCATAAGGGTTGCAATATGTATTCCTAAGACAACGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
19566511 TGGCTTTGTC
131 TGGCTTTGTC
* * * *
19566521 CAGTCCTAAGACGACA---------T-----TTTCCTAAGTGTTAGGATAGACTTGTCGACATAC
1 TAGTCCTAAGACGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
** ** * * *
19566572 TTTTTGGTGAACTTTTTGTATAAGGGTTGGGATATACATGCTTAAGGCAACGCTTAAATAAGAGT
66 ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
*
19566637 CGGCTTTGTC
131 TGGCTTTGTC
* * * * * * * *
19566647 GA-ACACTATGCCTACACATTT-GGGTCAACACTTTCCTAAGTGTTGGGATAGAATTGCCAACAT
1 TAGTC-CTAAGACGACACTTTTGGGGT-GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACAT
**
19566710 ACACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGA
64 ACACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGA
*
19566775 GTCGG-TTTGTC
129 GTTGGCTTTGTC
19566786 CAAGACTATG
Statistics
Matches: 457, Mismatches: 73, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
125 1 0.00
126 100 0.22
134 1 0.00
139 6 0.01
140 226 0.49
141 123 0.27
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (140 bp):
TAGTCCTAAGACGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATAC
ACTTTGGCCAACTCTTTGTATAAGGGTTGGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGT
TGGCTTTGTC
Found at i:19566631 original size:126 final size:126
Alignment explanation
Indices: 19566406--19566910 Score: 378
Period size: 126 Copynumber: 3.9 Consensus size: 126
19566396 ACTTTTGGGG
*
19566406 CGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
1 CGACACTTTCCTAAGTGTTAGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
** * *
19566471 GTTGCAATATGTATTCCTAAGACAACGCTTAAATAAGAGTTGGCTTTGTCCAGTCCTAAGA
66 GTTGCAATATACATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGA
* * * * ** * *
19566532 CGACATTTTCCTAAGTGTTAGGATAGACTTGTCGACATACT-TTTTGGTGAACTTTTTGTATAAG
1 CGACACTTTCCTAAGTGTTAGGATAGACTTGCCAACATA-TGCTTTGGCCAACTCTTTGCATAAG
** * * *
19566596 GGTTGGGATATACATGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCGAACACTATGCCTA
65 GGTTGCAATATACATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTC---CA--GT-CCT-
*
19566661 CACATTTGGGT
123 -A-A-----GA
* * * ** *
19566672 CAACACTTTCCTAAGTGTTGGGATAGAATTGCCAACATACACTTTGGCCAACTCTTTGTATAAGG
1 CGACACTTTCCTAAGTGTTAGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
** * * ** * * *
19566737 GTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGG-TTTGTCCAAG-ACTATGC
66 GTTGCAATATACATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCC-AGTCCTAAGA
* * *
19566797 CAACACTTTCCTAA--GTT-GGATATAGACTTGTCAACA-ATGCTTTGGCCAACTCTTTGTATAA
1 CGACACTTTCCTAAGTGTTAGG--ATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAA
* * ** * * * **
19566858 -AGATGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGTTAGCTTTGTCCA
64 GGGTTGCAATATACATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCA
19566911 ATAGTATGTC
Statistics
Matches: 310, Mismatches: 49, Indels: 44
0.77 0.12 0.11
Matches are distributed among these distances:
122 40 0.13
123 33 0.11
124 13 0.04
125 15 0.05
126 96 0.31
127 1 0.00
129 2 0.01
131 2 0.01
132 3 0.01
133 2 0.01
134 1 0.00
135 1 0.00
136 1 0.00
137 1 0.00
139 6 0.02
140 93 0.30
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (126 bp):
CGACACTTTCCTAAGTGTTAGGATAGACTTGCCAACATATGCTTTGGCCAACTCTTTGCATAAGG
GTTGCAATATACATGCCTAAGACAACGCTTAAATAAGAGTCGGCTTTGTCCAGTCCTAAGA
Found at i:19566892 original size:122 final size:124
Alignment explanation
Indices: 19566672--19566898 Score: 325
Period size: 122 Copynumber: 1.8 Consensus size: 124
19566662 ACATTTGGGT
*
19566672 CAACACTTTCCTAAGTGTTGGGATAGAATTGCCAACATACACTTTGGCCAACTCTTTGTATAAGG
1 CAACACTTTCCTAAG-GTTGGGATAGAATTGCCAACATACACTTTGGCCAACTCTTTGTATAAGA
* **
19566737 GTTGGGATATGCATGCCTAAGGCAACTTTTAAATAAGAGTCGGTTTGTCCAAGACTATGC
65 GATGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTGTCCAAGACTATGC
* * * **
19566797 CAACACTTTCCTAA-GTTGGATATAGACTTGTCAACA-ATGCTTTGGCCAACTCTTTGTATAA-A
1 CAACACTTTCCTAAGGTTGG-GATAGAATTGCCAACATACACTTTGGCCAACTCTTTGTATAAGA
*
19566859 GATGGTATATGCATGCCTAAGGCAACACTTAAATAAGAGT
65 GATGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGT
19566899 TAGCTTTGTC
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
122 36 0.40
123 28 0.31
124 13 0.14
125 14 0.15
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (124 bp):
CAACACTTTCCTAAGGTTGGGATAGAATTGCCAACATACACTTTGGCCAACTCTTTGTATAAGAG
ATGGGATATGCATGCCTAAGGCAACACTTAAATAAGAGTCGGTTTGTCCAAGACTATGC
Found at i:19605044 original size:39 final size:40
Alignment explanation
Indices: 19604935--19605118 Score: 234
Period size: 39 Copynumber: 4.7 Consensus size: 40
19604925 TTGAATGATG
* * * *
19604935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
19604975 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19605015 TCCGGGTTAAGTCCCGAA-GCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
19605054 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
19605095 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19605119 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 60 0.46
40 60 0.46
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:19605085 original size:79 final size:82
Alignment explanation
Indices: 19604935--19605118 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
19604925 TTGAATGATG
*
19604935 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
19604999 TGTGCGAGTTACTA-AA
66 TGTGCGAGTTACTATAA
* * * * **
19605015 TCCGGGTTAAGTCCCGAA-GCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
19605077 TTGTGCGAGTTACTATAA
65 TTGTGCGAGTTACTATAA
*
19605095 -CC-GGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
19605119 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 13 0.14
79 52 0.57
80 26 0.29
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATAA
Found at i:19605125 original size:79 final size:78
Alignment explanation
Indices: 19604988--19605141 Score: 206
Period size: 79 Copynumber: 2.0 Consensus size: 78
19604978 GGACTAAGAT
* **
19604988 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGCATTTGTGCGAGTTA-CTA
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGCATTTGAACGAG-TAGCTA
19605052 AATCCGGGTTAAGTC
65 AATCC-GGTTAAGTC
*
19605067 CCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA-GCATTTGAACGAGTAGCT
*
19605130 ATATCCGGTTAA
64 AAATCCGGTTAA
19605142 ATTCCAAAGG
Statistics
Matches: 67, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
78 20 0.30
79 45 0.67
80 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGCATTTGAACGAGTAGCTAA
ATCCGGTTAAGTC
Found at i:19612183 original size:39 final size:40
Alignment explanation
Indices: 19612088--19612258 Score: 213
Period size: 39 Copynumber: 4.3 Consensus size: 40
19612078 GGACTAAGAT
* *
19612088 CCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGTTAAGCC
1 CCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGTTAAGTC
*
19612128 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGG-TAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * *
19612167 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
19612207 CCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
19612246 CCGAAGGCATTTG
1 CCGAAGGCATTTG
19612259 AACGAGGAGC
Statistics
Matches: 115, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 67 0.58
40 46 0.40
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:19612183 original size:79 final size:79
Alignment explanation
Indices: 19612088--19612256 Score: 216
Period size: 79 Copynumber: 2.1 Consensus size: 79
19612078 GGACTAAGAT
* * *
19612088 CCGAAGGCATTTGTGCGAGATA-CAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTCGTGCGAGATATCAA-ATCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
*
19612152 AAATCCGGG-TAAGTC
64 AAAACCGGGCTAAGTC
* * * * *
19612167 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
19612232 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
19612246 CCGAAGGCATT
1 CCGAAGGCATT
19612257 TGAACGAGGA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 21 0.27
79 55 0.71
80 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:19612276 original size:79 final size:79
Alignment explanation
Indices: 19612115--19612291 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
19612105 AGATACAAGT
* * *
19612115 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTAAGTCCCGAAGGCATTCG
** * *
19612180 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * * *
19612194 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGG-TAAGTCCCGAAGGCATTC
*
19612258 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
19612273 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
19612292 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 37 0.45
79 46 0.55
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:19624274 original size:25 final size:25
Alignment explanation
Indices: 19624246--19624293 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
19624236 CAGAGGACCA
* *
19624246 ATCATATAACTCATGATAATGATTG
1 ATCACATAACTCATCATAATGATTG
* *
19624271 ATCACATAATTCTTCATAATGAT
1 ATCACATAACTCATCATAATGAT
19624294 AATAATAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (25 bp):
ATCACATAACTCATCATAATGATTG
Found at i:19634723 original size:20 final size:20
Alignment explanation
Indices: 19634698--19634735 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
19634688 GTCACATATA
19634698 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
19634718 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
19634736 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:19636221 original size:8 final size:8
Alignment explanation
Indices: 19636208--19636234 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
19636198 ACAAGAAAGA
19636208 AAAGTTAC
1 AAAGTTAC
19636216 AAAGTTAC
1 AAAGTTAC
19636224 AAAGTTAC
1 AAAGTTAC
19636232 AAA
1 AAA
19636235 AATAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.11, T:0.22
Consensus pattern (8 bp):
AAAGTTAC
Found at i:19643517 original size:36 final size:36
Alignment explanation
Indices: 19643477--19643545 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
19643467 TGGGAAAACA
19643477 ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
1 ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
* *
19643513 ATTCCCTTATTCTAATAAACTTCTAAAAGATAA
1 ATTCCCTTATTCTAATAAACTACTAAAACATAA
19643546 AATAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (36 bp):
ATTCCCTTATTCTAATAAACTACTAAAACATAAGGT
Found at i:19643599 original size:19 final size:18
Alignment explanation
Indices: 19643577--19643616 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
19643567 TGAATAAAAC
*
19643577 TTATCTACCTAAATAAGAT
1 TTATCCACCTAAATAA-AT
19643596 TTATCCACCTAAATAAAT
1 TTATCCACCTAAATAAAT
19643614 TTA
1 TTA
19643617 AAATATATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCCACCTAAATAAAT
Found at i:19651223 original size:46 final size:46
Alignment explanation
Indices: 19651041--19651213 Score: 283
Period size: 46 Copynumber: 3.8 Consensus size: 46
19651031 TATATATACA
* * *
19651041 CATCTCATACATATCTCACATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
*
19651087 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
* * *
19651133 CATCTCATACACGTTTCGCATTAGCCTTTCGACTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
19651179 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTT
19651214 CGCCACATAT
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
Found at i:19651268 original size:47 final size:47
Alignment explanation
Indices: 19651237--19651524 Score: 479
Period size: 47 Copynumber: 6.1 Consensus size: 47
19651227 CACTTCCACG
**
19651237 TTCATCACATTGGCCATTCTACCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
19651284 TTCATCACATTGGCCATTCGGCCTTATCACATATATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
19651331 TTCATCACATTGGTCATTCGGCCTTATCACACATATGC-TAGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCAT-GTTCACA
* * *
19651378 TTCATCACATTGGCCATTCGACCTTATCACGTATATGTATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
*
19651425 TTCATCACATTGGCCATTCGGCCTTATCACGTATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
19651472 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
19651519 TTCATC
1 TTCATC
19651525 TCATAAAATC
Statistics
Matches: 225, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 223 0.99
48 1 0.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:19651454 original size:22 final size:22
Alignment explanation
Indices: 19651428--19651503 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
19651418 GTTCACATTC
19651428 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
19651450 ATCACGTATAT-G-CATGTTC-ACATT
1 ATCAC--AT-TGGCCA--TTCGGCCTT
19651474 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
19651497 ATCACAT
1 ATCACAT
19651504 ATATGCATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 16 0.39
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:19658376 original size:137 final size:137
Alignment explanation
Indices: 19657910--19658456 Score: 674
Period size: 137 Copynumber: 4.1 Consensus size: 137
19657900 GAGAACATAG
* * * * *
19657910 ATATAATTAATATATGAATTTCATTGATACAAAATATTAATTGTATATATTTTGCCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCAGACAAAATATTAATTGTATATATTTTACAGAATTTATT
* ** * * *
19657975 AATATAAACATTTATATTAATTAATTTCAATAAAAATATAAAATATATGTAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTC-TT
** *
19658040 TGGGAATA
130 TGTAAAGA
* * *
19658048 ATATAATTAATATATGAATTTGATTCATACAAAACATTAATTGTATATATTTTACTG-A---ATT
1 ATATAATTAATATATGAATTTGATTCAGACAAAATATTAATTGTATATATTTTACAGAATTTATT
* * *
19658109 --TAT---CAA-TATA--AACTAATTTCGGTCAAAATATAAAAGATATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTC-TT
*
19658166 TGGAAAGA
130 TGTAAAGA
* *
19658174 ATATAATTAATGTATGAATTTGATTCAGACAAAATATTAATTGTATATATTTTATAGAATTTATT
1 ATATAATTAATATATGAATTTGATTCAGACAAAATATTAATTGTATATATTTTACAGAATTTATT
* * *
19658239 AATATAAACAATTATATTAATTGATTTTGGTCAAAATATAAAATACATGTAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTCTTT
19658304 GTAAAGA
131 GTAAAGA
*
19658311 ATATAATTAATATATGAATTTGATTCATA-AAAATTATTAATTGTATATATTTTACCA-AATTTA
1 ATATAATTAATATATGAATTTGATTCAGACAAAA-TATTAATTGTATATATTTTA-CAGAATTTA
* *
19658374 TTAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGTAAATTAATATTCT
64 TTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTCT
19658439 TT-TCAAAAGA
129 TTGT--AAAGA
19658449 ATATAATT
1 ATATAATT
19658457 CATTTATCAA
Statistics
Matches: 359, Mismatches: 34, Indels: 32
0.84 0.08 0.08
Matches are distributed among these distances:
126 99 0.28
127 1 0.00
128 4 0.01
129 2 0.01
130 3 0.01
132 6 0.02
134 3 0.01
135 3 0.01
136 9 0.03
137 125 0.35
138 104 0.29
ACGTcount: A:0.45, C:0.06, G:0.07, T:0.42
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCAGACAAAATATTAATTGTATATATTTTACAGAATTTATT
AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGTAAATTAATATTCTTT
GTAAAGA
Found at i:19662257 original size:40 final size:40
Alignment explanation
Indices: 19662114--19662300 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
19662104 TTCGAATGAT
* * * *
19662114 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA
*
19662155 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
* * * *
19662195 TTTCGGGCTAAG-CCCGAAGGCATTGGTACGAGTTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
*
19662234 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
19662275 A-CCGGGCTATGTCACGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
19662301 AGTGAGTAGC
Statistics
Matches: 124, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 33 0.27
40 62 0.50
41 28 0.23
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:19662281 original size:79 final size:81
Alignment explanation
Indices: 19662116--19662298 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 81
19662106 CGAATGATAT
* * * *
19662116 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTGGTACTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
*
19662181 GTGCGAGTTACTAATT
66 GTGCGAGTTACTAATA
* * * **
19662197 TCGGGCTAAG-CCCGAAGGCATTGGTAC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTGGTACTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
19662259 TGTGCGAGTTACT-ATAA
65 TGTGCGAGTTACTAAT-A
* *
19662276 CCGGGCTATGTCACGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
19662299 TGAGTGAGTA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 49 0.57
80 25 0.29
81 9 0.10
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTACTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATA
Found at i:19662322 original size:79 final size:78
Alignment explanation
Indices: 19662116--19662323 Score: 203
Period size: 79 Copynumber: 2.6 Consensus size: 78
19662106 CGAATGATAT
* * *
19662116 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-G-TGAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
19662180 TGTGCGAGTTACTAATT
62 TGTGCGAGTTACTAATA
* *
19662197 TCGGGCTAAG-CCCGAAGGCA-TTGGTACGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTGGT--GAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCAT
19662258 TTGTGCGAGTTACT-ATAA
61 TTGTGCGAGTTACTAAT-A
* *
19662276 CCGGGCTATGTCACGAAGGCATTTGAGTGAGTAGCTATATCCGGTTAA
1 CCGGGCTAAGTCCCGAAGGCATTTG-GTGAGTAGCTATATCCGGTTAA
19662324 ATTTCGAAGG
Statistics
Matches: 106, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
77 1 0.01
78 4 0.04
79 56 0.53
80 31 0.29
81 12 0.11
82 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGGTGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGTTACTAATA
Found at i:19666429 original size:25 final size:25
Alignment explanation
Indices: 19666401--19666479 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
19666391 CCTAATGCCG
19666401 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
19666426 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
19666448 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
19666473 ATGTGAT
1 ATGTGAT
19666480 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:19666452 original size:47 final size:47
Alignment explanation
Indices: 19666389--19666663 Score: 395
Period size: 47 Copynumber: 6.1 Consensus size: 47
19666379 AAATGAGTAT
19666389 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19666435 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19666482 GGCCTAAT--CCGATGTGATGAATGTGAAAGTGTAATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGATAA
19666528 -GCCTAATGGCCGATGTGATGAATGTGAAAG-G--TATATGTGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19666570 GGCCT-ATGGCCGA--TG-TGAAT-TG-AAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
19666611 GGCCTAATGGCCGA--TG-TGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
19666657 GGCCTAA
1 GGCCTAA
19666664 CGTGATGTGA
Statistics
Matches: 214, Mismatches: 1, Indels: 28
0.88 0.00 0.12
Matches are distributed among these distances:
37 3 0.01
38 3 0.01
39 5 0.02
40 12 0.06
41 6 0.03
42 24 0.11
43 16 0.07
44 5 0.02
45 31 0.14
46 42 0.20
47 67 0.31
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:19666547 original size:92 final size:93
Alignment explanation
Indices: 19666389--19666677 Score: 403
Period size: 92 Copynumber: 3.2 Consensus size: 93
19666379 AAATGAGTAT
19666389 GGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
19666454 TGAATGTGAAAGTGTATATATGTGATAA
66 TGAATGTGAAAGTGTATATATGTGATAA
19666482 GGCCTAAT-CCGATGTGATGAATGTGAAAGTGTAATATATGTGATAA-GCCTAATGGCCGATGTG
1 GGCCTAATGCCGATGTGATGAATGTGAAAGTGT-ATATATGTGATAAGGCCTAATGGCCGATGTG
19666545 ATGAATGTGAAAG-G--TATATGTGAT-A
65 ATGAATGTGAAAGTGTATATATGTGATAA
19666570 GGCCT-ATGGCCGA--TG-TGAAT-TG-AAGTGTATATATGTGATAAGGCCTAATGGCCGA--TG
1 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
19666627 -TGAATGTGAAAGTGTATATATATGTGATAG
65 ATGAATGTGAAAGTG--TATATATGTGATAA
* *
19666657 GGCCTAACG-TGATGTGATGAA
1 GGCCTAATGCCGATGTGATGAA
19666678 AATGTGATAA
Statistics
Matches: 179, Mismatches: 3, Indels: 32
0.84 0.01 0.15
Matches are distributed among these distances:
81 12 0.07
82 3 0.02
83 13 0.07
84 19 0.11
85 2 0.01
86 17 0.09
87 10 0.06
88 9 0.05
89 18 0.10
91 1 0.01
92 54 0.30
93 21 0.12
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.30
Consensus pattern (93 bp):
GGCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAA
Found at i:19666598 original size:129 final size:135
Alignment explanation
Indices: 19666390--19666677 Score: 400
Period size: 129 Copynumber: 2.2 Consensus size: 135
19666380 AATGAGTATG
19666390 GCCTAATGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GCCTAATGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAATGGCCGA-GTGAT
19666455 GAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-CCGATGTGATGAATGTGAAAGTGTA-ATA
64 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGA--TG-TGAATGTGAAAGTGTATATA
19666518 TATGTGATAA
126 TATGTGATAA
19666528 GCCTAATGGCCGATGTGATGAATGTGAAAG-G-TATATGTGAT-AGGCCT-ATGGCCGA-TG-TG
1 GCCTAAT-GCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTAATGGCCGAGTGATG
19666587 AAT-TG-AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAATGTGAAAGTGTATATATAT
65 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGAATGTGAAAGTGTATATATAT
*
19666650 GTGATAGG
129 GTGATA-A
* *
19666658 GCCTAACG-TGATGTGATGAA
1 GCCTAATGCCGATGTGATGAA
19666678 AATGTGATAA
Statistics
Matches: 142, Mismatches: 3, Indels: 20
0.86 0.02 0.12
Matches are distributed among these distances:
128 27 0.19
129 42 0.30
130 8 0.06
131 9 0.06
132 2 0.01
134 8 0.06
135 6 0.04
136 10 0.07
138 8 0.06
139 22 0.15
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (135 bp):
GCCTAATGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTAATGGCCGAGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGAATGTGAAAGTGTATATATATGT
GATAA
Found at i:19668772 original size:43 final size:43
Alignment explanation
Indices: 19668724--19668813 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
19668714 TTGGTTTTCA
19668724 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
19668767 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
19668810 GCAC
1 GCAC
19668814 ACATGGCACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:19669526 original size:40 final size:40
Alignment explanation
Indices: 19669172--19669512 Score: 393
Period size: 40 Copynumber: 8.5 Consensus size: 40
19669162 TCGAATGATG
* *
19669172 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
19669212 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
19669252 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
19669292 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
19669332 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
19669372 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
19669412 TCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * * *
19669452 TCCGTGCTAAACCCCAAAGAGCATTCGTGTTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
19669492 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
19669513 TAATCATGCT
Statistics
Matches: 256, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
39 1 0.00
40 237 0.93
41 18 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:19673153 original size:47 final size:47
Alignment explanation
Indices: 19673037--19673303 Score: 459
Period size: 46 Copynumber: 5.7 Consensus size: 47
19673027 ATGATAGTAT
19673037 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19673084 -GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
19673130 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
19673177 GGCCTAATGG-CGATGTGATGAAT-TGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
19673222 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
19673271 GGCCTAATGGTCGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
19673304 CCCGAAGGGC
Statistics
Matches: 211, Mismatches: 3, Indels: 9
0.95 0.01 0.04
Matches are distributed among these distances:
45 32 0.15
46 72 0.34
47 63 0.30
49 40 0.19
50 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:19673197 original size:93 final size:94
Alignment explanation
Indices: 19673037--19673303 Score: 459
Period size: 93 Copynumber: 2.8 Consensus size: 94
19673027 ATGATAGTAT
19673037 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA-GCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19673101 ATGAATGTGAAAGTGTATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATGTGATAA
*
19673130 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
19673194 ATGAAT-TGAAAGTGTATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATGTGATAA
* *
19673222 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGTCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATG
19673287 TGATGAATGTGATAAGT
64 TGATGAATGTGA-AAGT
19673304 CCCGAAGGGC
Statistics
Matches: 165, Mismatches: 3, Indels: 8
0.94 0.02 0.05
Matches are distributed among these distances:
92 54 0.33
93 59 0.36
94 32 0.19
95 13 0.08
96 3 0.02
97 4 0.02
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (94 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATGTGATAA
Found at i:19673477 original size:37 final size:37
Alignment explanation
Indices: 19673421--19673499 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
19673411 CCGAGCTCTA
* * *
19673421 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
19673458 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
19673495 AAGAC
1 AAGAC
19673500 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:19682488 original size:31 final size:30
Alignment explanation
Indices: 19682394--19682499 Score: 85
Period size: 31 Copynumber: 3.5 Consensus size: 30
19682384 TCTCAAAATT
* * *
19682394 ATATTTAAATTATATCTTTTTTTTCTTAAATTG
1 ATATCTAAATTATA-C-TTTTTATC-TAAAGTG
* *
19682427 GTATCTAAATTAT--TTTTTGTC-ACAAGTG
1 ATATCTAAATTATACTTTTTATCTA-AAGTG
19682455 ATATCTAAATTATACTTTGTTATCTAAAGTG
1 ATATCTAAATTATACTTT-TTATCTAAAGTG
19682486 ATA-CATAAATTATA
1 ATATC-TAAATTATA
19682500 TCTCGTTACC
Statistics
Matches: 61, Mismatches: 6, Indels: 14
0.75 0.07 0.17
Matches are distributed among these distances:
27 1 0.02
28 16 0.26
29 7 0.11
30 4 0.07
31 21 0.34
32 1 0.02
33 11 0.18
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (30 bp):
ATATCTAAATTATACTTTTTATCTAAAGTG
Found at i:19692163 original size:16 final size:16
Alignment explanation
Indices: 19692142--19692172 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19692132 CCAAACTTTC
*
19692142 AGCTTTTCGGCATTTT
1 AGCTTTTCGACATTTT
19692158 AGCTTTTCGACATTT
1 AGCTTTTCGACATTT
19692173 CGACTTTTCA
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:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (16 bp):
AGCTTTTCGACATTTT
Found at i:19694658 original size:17 final size:18
Alignment explanation
Indices: 19694636--19694669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19694626 CACATTGAAG
19694636 TGTTTT-AGTGAAAACCT
1 TGTTTTCAGTGAAAACCT
*
19694653 TGTTTTCATTGAAAACC
1 TGTTTTCAGTGAAAACC
19694670 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (18 bp):
TGTTTTCAGTGAAAACCT
Found at i:19695105 original size:29 final size:28
Alignment explanation
Indices: 19695045--19695124 Score: 108
Period size: 28 Copynumber: 2.8 Consensus size: 28
19695035 CATACATGCT
*
19695045 TATGGCCTACTAGGCCCAATCTCAATCA
1 TATGGCCTACTAGGCCCAATCACAATCA
* *
19695073 TATGGCCCAATAGGCCCAAATCAC-ATCTA
1 TATGGCCTACTAGGCCC-AATCACAATC-A
19695102 TATGGCCTACTAGGCCCAATCAC
1 TATGGCCTACTAGGCCCAATCAC
19695125 TTTTACAGTC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.30, C:0.33, G:0.15, T:0.23
Consensus pattern (28 bp):
TATGGCCTACTAGGCCCAATCACAATCA
Found at i:19695374 original size:16 final size:16
Alignment explanation
Indices: 19695334--19695376 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
19695324 GTAGCCAAAC
19695334 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
* *
19695350 TTTTAGCTTTTCTGCA
1 TTTCAGCTTTTCGGCA
*
19695366 TTTCGGCTTTT
1 TTTCAGCTTTT
19695377 TGGGATTTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.09, C:0.21, G:0.16, T:0.53
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:19696165 original size:4 final size:4
Alignment explanation
Indices: 19696158--19696184 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
19696148 ATATATACTA
19696158 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
19696185 AATACAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:19699114 original size:28 final size:28
Alignment explanation
Indices: 19699070--19699149 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 28
19699060 CAGACATGCT
* * *
19699070 TATGGCCTACTAGGCCCAATCTCAT-TCA
1 TATGGCCCACTAAGCCCAATCACATCT-A
* *
19699098 TATGGTCCATTAAGCCCAAATCACATCTA
1 TATGGCCCACTAAGCCC-AATCACATCTA
*
19699127 TATGGCCCACTAGGCCCAATCAC
1 TATGGCCCACTAAGCCCAATCAC
19699150 TTTTATAGTC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 19 0.45
29 22 0.52
30 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.25
Consensus pattern (28 bp):
TATGGCCCACTAAGCCCAATCACATCTA
Found at i:19699156 original size:28 final size:28
Alignment explanation
Indices: 19699070--19699156 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
19699060 CAGACATGCT
* * *
19699070 TATGGCCTACTAGGCCCAATCTCATTCA
1 TATGGCCCACTAGGCCCAATCACATTTA
* * * *
19699098 TATGGTCCATTAAGCCCAAATCACATCTA
1 TATGGCCCACTAGGCCC-AATCACATTTA
*
19699127 TATGGCCCACTAGGCCCAATCACTTTTA
1 TATGGCCCACTAGGCCCAATCACATTTA
19699155 TA
1 TA
19699157 GTCATGCTCA
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
28 24 0.52
29 22 0.48
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.29
Consensus pattern (28 bp):
TATGGCCCACTAGGCCCAATCACATTTA
Done.