Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 17 of 433
Found at i:4589238 original size:16 final size:18
Alignment explanation
Indices: 4589205--4589241 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
4589195 TAGAATTTAA
*
4589205 AAAAATTTATAATCTTTT
1 AAAAATATATAATCTTTT
4589223 AAAAATATA-AAT-TTTT
1 AAAAATATATAATCTTTT
4589239 AAA
1 AAA
4589242 TTTTTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATATATAATCTTTT
Found at i:4591009 original size:2 final size:2
Alignment explanation
Indices: 4591002--4591032 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4590992 TTAACTTCAA
4591002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4591033 ACTCTTATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4595411 original size:1 final size:1
Alignment explanation
Indices: 4595405--4595431 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
4595395 GGTAGAATTT
4595405 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
4595432 CACAACACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4600313 original size:21 final size:21
Alignment explanation
Indices: 4600287--4600328 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4600277 TTTATGATGA
4600287 AAAAATAA-ATATTTTATATAT
1 AAAAATAATA-ATTTTATATAT
*
4600308 AAAAATAATAATTTTTTATAT
1 AAAAATAATAATTTTATATAT
4600329 TTTTCCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAAATAATAATTTTATATAT
Found at i:4600324 original size:23 final size:22
Alignment explanation
Indices: 4600266--4600328 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
4600256 ATTTATCGTT
4600266 AATATAATTTCTTTATGATGAAAA
1 AATATAATTT-TTTAT-ATGAAAA
*
4600290 AATA-AATATTTTATAT-ATAAA
1 AATATAATTTTTTATATGA-AAA
4600311 AATAATAATTTTTTATAT
1 AAT-ATAATTTTTTATAT
4600329 TTTTCCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 1 0.03
21 8 0.24
22 6 0.18
23 15 0.44
24 4 0.12
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (22 bp):
AATATAATTTTTTATATGAAAA
Found at i:4600715 original size:45 final size:45
Alignment explanation
Indices: 4600661--4600752 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
4600651 ATTTACATAT
*
4600661 CAAGGTCATCATAAAAAGTCCGAGTTTTAGATACCAATAAAAAAA
1 CAAGGTCATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAA
4600706 CAAGGTCATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAA
1 CAAGGTCATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAA
4600751 CA
1 CA
4600753 TTCACATCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.13, T:0.21
Consensus pattern (45 bp):
CAAGGTCATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAA
Found at i:4600761 original size:45 final size:45
Alignment explanation
Indices: 4600667--4600766 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 45
4600657 ATATCAAGGT
* **
4600667 CATCATAAAAAGTCCGAGTTTTAGATACCAATAAAAAAACAAGGT
1 CATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAACAAGCA
**
4600712 CATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAACATTCA
1 CATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAACAAGCA
4600757 CATCATAAAA
1 CATCATAAAA
4600767 TTCAAAGATA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.50, C:0.18, G:0.10, T:0.22
Consensus pattern (45 bp):
CATCATAAAAAGTCCGAGTTTTAGACACCAATAAAAAAACAAGCA
Found at i:4602130 original size:21 final size:21
Alignment explanation
Indices: 4602089--4602130 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4602079 ATTTTTACAC
* *
4602089 TATATTTTACATGTTACTTTT
1 TATATTTTAAATGTTAATTTT
*
4602110 TATATTTTAAATTTTAATTTT
1 TATATTTTAAATGTTAATTTT
4602131 ATAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (21 bp):
TATATTTTAAATGTTAATTTT
Found at i:4602213 original size:25 final size:26
Alignment explanation
Indices: 4602185--4602240 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
4602175 TACGCGTTTC
4602185 TAAATTTCAAATTTTTAAG-T-TTATT
1 TAAATTT-AAATTTTTAAGATATTATT
* * *
4602210 TAAAATTAATTTTTTTAGATATTATT
1 TAAATTTAAATTTTTAAGATATTATT
4602236 TAAAT
1 TAAAT
4602241 ATTTCTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 9 0.36
25 7 0.28
26 9 0.36
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (26 bp):
TAAATTTAAATTTTTAAGATATTATT
Found at i:4602376 original size:24 final size:24
Alignment explanation
Indices: 4602349--4602404 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4602339 AAGTAGGTTC
*
4602349 TAATTTTATCA-AAAAAATTTAATT
1 TAATTTT-TCATAAAAAATTTAAAT
* **
4602373 TAATTGTTCATATTAAATTTAAAT
1 TAATTTTTCATAAAAAATTTAAAT
4602397 TAATTTTT
1 TAATTTTT
4602405 ATATTTAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.52
Consensus pattern (24 bp):
TAATTTTTCATAAAAAATTTAAAT
Found at i:4602412 original size:24 final size:24
Alignment explanation
Indices: 4602363--4602409 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4602353 TTTATCAAAA
*
4602363 AAATTTAATTTAATTGTTCATATT
1 AAATTTAAATTAATTGTTCATATT
*
4602387 AAATTTAAATTAATT-TTTATATT
1 AAATTTAAATTAATTGTTCATATT
4602410 TAATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (24 bp):
AAATTTAAATTAATTGTTCATATT
Found at i:4604901 original size:40 final size:42
Alignment explanation
Indices: 4604857--4604942 Score: 104
Period size: 40 Copynumber: 2.1 Consensus size: 42
4604847 AAATACATTT
4604857 AAAACAAATATTAAAACAAGAAACAA-ATAAAAAATAT-ATA
1 AAAACAAATATTAAAACAAGAAACAATATAAAAAATATAATA
* * * * * *
4604897 AAAACAATTCTTAAAACAATACACAATTTGAAAAATATAATA
1 AAAACAAATATTAAAACAAGAAACAATATAAAAAATATAATA
4604939 AAAA
1 AAAA
4604943 TTGATTATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 22 0.58
41 9 0.24
42 7 0.18
ACGTcount: A:0.67, C:0.09, G:0.02, T:0.21
Consensus pattern (42 bp):
AAAACAAATATTAAAACAAGAAACAATATAAAAAATATAATA
Found at i:4611176 original size:18 final size:17
Alignment explanation
Indices: 4611144--4611177 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4611134 TATTTTCAAA
*
4611144 TTATAAAGTAAATTAAT
1 TTATAAAGAAAATTAAT
4611161 TTATAAAGAAAAATTAA
1 TTATAAAG-AAAATTAA
4611178 GAGCGAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (17 bp):
TTATAAAGAAAATTAAT
Found at i:4611493 original size:14 final size:14
Alignment explanation
Indices: 4611453--4611493 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
4611443 CATCAAAACC
*
4611453 ATTACCAATAAATC
1 ATTACCAATAAATA
*
4611467 A-TA-CAAAAAATA
1 ATTACCAATAAATA
4611479 ATTACCAATAAATA
1 ATTACCAATAAATA
4611493 A
1 A
4611494 AATTTGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.61, C:0.15, G:0.00, T:0.24
Consensus pattern (14 bp):
ATTACCAATAAATA
Found at i:4611898 original size:14 final size:15
Alignment explanation
Indices: 4611879--4611907 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
4611869 TTATGAGAAC
4611879 TTAAATTTCA-AAAT
1 TTAAATTTCATAAAT
4611893 TTAAATTTCATAAAT
1 TTAAATTTCATAAAT
4611908 AGTGTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATTTCATAAAT
Found at i:4612006 original size:13 final size:13
Alignment explanation
Indices: 4611988--4612012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4611978 AATTCATTGT
4611988 TTTTTATTTTTTA
1 TTTTTATTTTTTA
4612001 TTTTTATTTTTT
1 TTTTTATTTTTT
4612013 CATGGTTGAA
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:4617690 original size:178 final size:178
Alignment explanation
Indices: 4617157--4617957 Score: 889
Period size: 178 Copynumber: 4.5 Consensus size: 178
4617147 TTTTTCAAGT
* * * * * ** *
4617157 AGACTTGCCCTTTCTGATCTTCTCCATAGCCGGTACATGGAGATAAGATCTGTAATTTTCAGCCC
1 AGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATCT
* * * * ** * ** * *
4617222 G-TTACCCTACT-GTTTAGGGGGTTAAGGCTCGTATCTTCAACCTACTCTCTTACTACCTCAGAG
66 GCTT-CCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAG
* *
4617285 AGATAAGGCCGGTAGCTTAAATCTGCTCCATAGCCGATACATGGAGATA
130 AGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
* * * * **
4617334 AGACTTGCCATCTTC-GATCTGTTCCATAGCCGATACAT-GAGATAATATCTACAATTTTCAGCC
1 AGACTCGCCAT-TTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATC
* * * ** * *
4617397 TG-TTACCCTACTGCTT-AGGGGGTTAAGACTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGA
65 TGCTT-CCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGA
* * * * * *
4617460 GAAATAAGGCCGGTGGCTTAAATTTGCTTCATAGCTGATACATGAAGATA
129 GAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
* ** * *
4617510 AGACTCGCCATCTTC-GATCTGTTCCATAGTTGATACATGGAGATAAAATCTATAATTTTCAGTC
1 AGACTCGCCAT-TTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATC
*
4617574 TGCTTCCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTTTTGCTACC-CTAGA
65 TGCTTCCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTCTTGCTACCTC-AGA
*** * * *
4617638 GAGATAAGGTTAGTGGCTAAAATCTGCTCTATAGCCGGTACATAGAGATA
129 GAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
* *
4617688 AGACTCGCCATTTCTGATCTGCTCCATAGCCGATCCATGGAGATAAGATCTATAATTTCCAATCT
1 AGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATCT
* * * *
4617753 ACTTCCTTGCTACTTCAGGAAGATAAGACTCATATCTTCAACCTGCTCTCTTGCTACCCCAGAGA
66 GCTTCCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
* *
4617818 GATAAGGCTGGTGGCTAAAATCTGCTCCATAACCGATACATGGAGATA
131 GATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
** ** *
4617866 AGACTCGCCATTTCTGATCTGCTCCATAGTTGATACATAAAGATAAGATCTATAATTTGCAATCT
1 AGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATCT
* * *
4617931 GTTTCCTTGCTACCTCAGGCAGATAAA
66 GCTTCCTTGCTACTTCAGGAAGATAAA
4617958 GCTGGTGGCT
Statistics
Matches: 544, Mismatches: 72, Indels: 15
0.86 0.11 0.02
Matches are distributed among these distances:
176 156 0.29
177 68 0.12
178 319 0.59
179 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (178 bp):
AGACTCGCCATTTCTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCAATCT
GCTTCCTTGCTACTTCAGGAAGATAAAACTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
GATAAGGCCGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATA
Found at i:4617981 original size:134 final size:133
Alignment explanation
Indices: 4617795--4618333 Score: 665
Period size: 133 Copynumber: 4.0 Consensus size: 133
4617785 TATCTTCAAC
* * * *
4617795 CTGCTCTCTTGCTACCCCA-GAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAACCGATACAT
1 CTGCT-TCCTGCTACCTCAGGAG-GATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACAT
** **
4617859 GGAGATAAGACTCGCCA-TTTCTGATCTGCTCCATAGTTGATACATAAAGATAAGATCTATAATT
64 GGAGATAAGACTCGCCATTTTC-GATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATT
* *
4617923 TGCAAT
128 TGTAGT
* *
4617929 CTGTTTCCTTGCTACCTCAGGCA-GATAA-AGCTGGTGGCTAAATTCTGCTCCATAGCCGATACA
1 CTGCTTCC-TGCTACCTCAGG-AGGATAAGA-CTGGTGGCTAAAATCTGCTCCATAGCCGATACA
* * * * *
4617992 TAGAGATAAGACCCGCCATTTTCGATCTGCTCCATAGCCGATATATGGAGATAAGATTTGTAATT
63 TGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATT
*
4618057 TTTAGT
128 TGTAGT
* * * *
4618063 CTACTTCCTG-TAATCTCAGGAGGATAAGACTGGTGGCCAAAATCTGCTCCATAGCCGATATATG
1 CTGCTTCCTGCT-ACCTCAGGAGGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATG
** * * *
4618127 GAGATAAGACTCGCCATTTTTTATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT
65 GAGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTG
4618192 TAGT
130 TAGT
* * ** * *
4618196 CTGCTTCCTGCAACTTCAAAAGGATAAGACTGGTGGTTAAAATTTGCTCCATAGCCGATACATGG
1 CTGCTTCCTGCTACCTCAGGAGGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGG
*
4618261 AGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATGCATGGAGATAAGATCTATAATTTGT
66 AGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGT
*
4618326 AGC
131 AGT
4618329 CTGCT
1 CTGCT
4618334 ACCCTACTGC
Statistics
Matches: 348, Mismatches: 48, Indels: 19
0.84 0.12 0.05
Matches are distributed among these distances:
132 2 0.01
133 230 0.66
134 110 0.32
135 5 0.01
136 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CTGCTTCCTGCTACCTCAGGAGGATAAGACTGGTGGCTAAAATCTGCTCCATAGCCGATACATGG
AGATAAGACTCGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTGT
AGT
Found at i:4618142 original size:267 final size:266
Alignment explanation
Indices: 4617818--4618323 Score: 712
Period size: 267 Copynumber: 1.9 Consensus size: 266
4617808 ACCCCAGAGA
* *
4617818 GATAAGGCTGGTGGCTAAAATCTGCTCCATAACCGATACATGGAGATAAGACTCGCCATTTCTGA
1 GATAAGACTGGTGGCCAAAATCTGCTCCATAACCGATACATGGAGATAAGACTCGCCATTTCTGA
* ** * *
4617883 TCTGCTCCATAGTTGATACATAAAGATAAGATCTATAATTTGCAATCTGTTTCCTTGCTACCTCA
66 TCTACTCCATAGCCGATACATAAAGATAAGATCTATAATTTGCAATCTGCTTCC-TGCAACCTCA
**
4617948 GGCA-GATAA-AGCTGGTGGCT-AAATTCTGCTCCATAGCCGATACATAGAGATAAGACCCGCCA
130 -AAAGGATAAGA-CTGGTGGCTAAAATT-TGCTCCATAGCCGATACATAGAGATAAGACCCGCCA
* * *
4618010 TTTTCGATCTGCTCCATAGCCGATATATGGAGATAAGATTTGTAATTTTTAGTCTACTTCCTGTA
192 TTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTTAGTCTACTTCCTGTA
4618075 ATCTCAGGAG
257 ATCTCAGGAG
* * * *
4618085 GATAAGACTGGTGGCCAAAATCTGCTCCATAGCCGATATATGGAGATAAGACTCGCCATTTTTTA
1 GATAAGACTGGTGGCCAAAATCTGCTCCATAACCGATACATGGAGATAAGACTCGCCATTTCTGA
** * ** * *
4618150 TCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTGCAACTTCAA
66 TCTACTCCATAGCCGATACATAAAGATAAGATCTATAATTTGCAATCTGCTTCCTGCAACCTCAA
* * *
4618215 AAGGATAAGACTGGTGGTTAAAATTTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTT
131 AAGGATAAGACTGGTGGCTAAAATTTGCTCCATAGCCGATACATAGAGATAAGACCCGCCATTTT
*
4618280 CGATCTGCTCCATAGCCGATGCATGGAGATAAGATCTATAATTT
196 CGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTT
4618324 GTAGCCTGCT
Statistics
Matches: 209, Mismatches: 27, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
265 1 0.00
266 99 0.47
267 109 0.52
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (266 bp):
GATAAGACTGGTGGCCAAAATCTGCTCCATAACCGATACATGGAGATAAGACTCGCCATTTCTGA
TCTACTCCATAGCCGATACATAAAGATAAGATCTATAATTTGCAATCTGCTTCCTGCAACCTCAA
AAGGATAAGACTGGTGGCTAAAATTTGCTCCATAGCCGATACATAGAGATAAGACCCGCCATTTT
CGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTTAGTCTACTTCCTGTAATCT
CAGGAG
Found at i:4618520 original size:61 final size:64
Alignment explanation
Indices: 4618428--4618551 Score: 200
Period size: 61 Copynumber: 2.0 Consensus size: 64
4618418 TCATGTATAT
*
4618428 ATGCTTATGCCAAATAGTTAAGATGCTATGATCAAAATGAATCAAACGCTCCTAGCTAGATGTG
1 ATGCTTATGCCAAATAGTTAAGATGCTATGATCAAAATGAATCAAACGCTCCTAACTAGATGTG
* *
4618492 ATGCTTATGCC-AA-A-TTAAGATGCTATGATCAAAATGAATCAAATGCTTCTAACTAGATGT
1 ATGCTTATGCCAAATAGTTAAGATGCTATGATCAAAATGAATCAAACGCTCCTAACTAGATGT
4618552 ACTATGAATG
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
61 43 0.75
62 1 0.02
63 2 0.04
64 11 0.19
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAGTTAAGATGCTATGATCAAAATGAATCAAACGCTCCTAACTAGATGTG
Found at i:4618950 original size:23 final size:23
Alignment explanation
Indices: 4618918--4618964 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4618908 TTTGAAAAAG
4618918 ATTATCAAAATAGACAAGATGAA
1 ATTATCAAAATAGACAAGATGAA
* * *
4618941 ATTATTAAAATGGATAAGATGAA
1 ATTATCAAAATAGACAAGATGAA
4618964 A
1 A
4618965 CTTTACTGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.04, G:0.15, T:0.26
Consensus pattern (23 bp):
ATTATCAAAATAGACAAGATGAA
Found at i:4619843 original size:20 final size:20
Alignment explanation
Indices: 4619818--4619858 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
4619808 ACCAACGTTC
4619818 GATAGGCATAGAGAGCAAAT
1 GATAGGCATAGAGAGCAAAT
4619838 GATAGGCATAGAGAGCAAAT
1 GATAGGCATAGAGAGCAAAT
4619858 G
1 G
4619859 GTAACTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.32, T:0.15
Consensus pattern (20 bp):
GATAGGCATAGAGAGCAAAT
Found at i:4629025 original size:3 final size:3
Alignment explanation
Indices: 4629017--4629146 Score: 59
Period size: 3 Copynumber: 43.3 Consensus size: 3
4629007 AATGGTAAAC
* * * *
4629017 TAA TAA TAA TAA TAA TAA TAA TAG TAC TAA TAC TGCA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA T-AA TAA
* * * * * **
4629063 TAG T-A TAA GAA T-A CAA TAA TAA AAA TAG TAA CGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** * *
4629109 TGTA TAA CAA TAA GGA TAA TAA CAA TAA TAA TAT TAA T
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
4629147 GAAAAGAATA
Statistics
Matches: 89, Mismatches: 32, Indels: 12
0.67 0.24 0.09
Matches are distributed among these distances:
2 4 0.04
3 80 0.90
4 5 0.06
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:4638348 original size:21 final size:21
Alignment explanation
Indices: 4638300--4638348 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
4638290 CTAATATATT
4638300 TTATA-TTTACTTAAATTTGA
1 TTATATTTTACTTAAATTTGA
4638320 TT-TGATTTTACTTAAATTTG-
1 TTAT-ATTTTACTTAAATTTGA
4638340 TCTATATTT
1 T-TATATTT
4638349 ATAAATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
19 1 0.04
20 4 0.16
21 19 0.76
22 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
TTATATTTTACTTAAATTTGA
Found at i:4638476 original size:22 final size:22
Alignment explanation
Indices: 4638434--4638482 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
4638424 TAATTTAACA
*
4638434 TTTATTAACTTTATATGTTTTT
1 TTTATTAAATTTATATGTTTTT
4638456 TTTATTATAATTTA-AT-TTTTT
1 TTTATTA-AATTTATATGTTTTT
*
4638477 TATATT
1 TTTATT
4638483 TCAGTATTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 9 0.38
23 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTATTAAATTTATATGTTTTT
Found at i:4652550 original size:27 final size:27
Alignment explanation
Indices: 4652520--4652575 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
4652510 AATAGAGACG
4652520 TACTTCTTATGTATAAAGACTAAATTT
1 TACTTCTTATGTATAAAGACTAAATTT
4652547 TACTTCTTATGTATAAAGACTAAATTT
1 TACTTCTTATGTATAAAGACTAAATTT
4652574 TA
1 TA
4652576 ATGGAAAGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.07, T:0.45
Consensus pattern (27 bp):
TACTTCTTATGTATAAAGACTAAATTT
Found at i:4665255 original size:17 final size:17
Alignment explanation
Indices: 4665207--4665258 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
4665197 TTATATAAAT
4665207 TTAAAATACAAAAAATGAA
1 TTAAAATACAAAAAA--AA
**
4665226 -TAAAATAGTAAAAAAA
1 TTAAAATACAAAAAAAA
4665242 TTAAAATACAAAAAAAA
1 TTAAAATACAAAAAAAA
4665259 AAAGACTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 14 0.50
18 12 0.43
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (17 bp):
TTAAAATACAAAAAAAA
Found at i:4665259 original size:18 final size:18
Alignment explanation
Indices: 4665207--4665259 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
4665197 TTATATAAAT
*
4665207 TTAAAATACAAAAAATGAA
1 TTAAAATACAAAAAA-AAA
**
4665226 -TAAAATA-GTAAAAAAA
1 TTAAAATACAAAAAAAAA
4665242 TTAAAATACAAAAAAAAA
1 TTAAAATACAAAAAAAAA
4665260 AAGACTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 2 0.07
17 11 0.41
18 14 0.52
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (18 bp):
TTAAAATACAAAAAAAAA
Found at i:4666134 original size:2 final size:2
Alignment explanation
Indices: 4666127--4666151 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4666117 CTTCAATTTC
4666127 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4666152 AAATAACCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4668883 original size:21 final size:20
Alignment explanation
Indices: 4668858--4668904 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
4668848 TTAATAAAAT
4668858 ATAAAAATGTAATTTTATTTA
1 ATAAAAAT-TAATTTTATTTA
* * *
4668879 TTAAAGATTATTTTTATTTA
1 ATAAAAATTAATTTTATTTA
4668899 ATAAAA
1 ATAAAA
4668905 CATACAATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (20 bp):
ATAAAAATTAATTTTATTTA
Found at i:4669138 original size:33 final size:33
Alignment explanation
Indices: 4669100--4669164 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
4669090 AACCCCACTT
4669100 TGCTAGTACTAGGATGCCTAACATCAACCCCTA
1 TGCTAGTACTAGGATGCCTAACATCAACCCCTA
*
4669133 TGCTAGTATTAGGATGCCTAACATCAACCCCT
1 TGCTAGTACTAGGATGCCTAACATCAACCCCT
4669165 TTCCATTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (33 bp):
TGCTAGTACTAGGATGCCTAACATCAACCCCTA
Found at i:4669850 original size:22 final size:21
Alignment explanation
Indices: 4669825--4669873 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4669815 AAACACAAGA
*
4669825 AGCTACAAATTCCTAACTAAAC
1 AGCTAC-AATTCCTAACAAAAC
* *
4669847 AGCTACTATTCCTAAGAAAAC
1 AGCTACAATTCCTAACAAAAC
4669868 AGCTAC
1 AGCTAC
4669874 TAAGTAGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.43, C:0.27, G:0.08, T:0.22
Consensus pattern (21 bp):
AGCTACAATTCCTAACAAAAC
Found at i:4669859 original size:21 final size:21
Alignment explanation
Indices: 4669833--4669875 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4669823 GAAGCTACAA
*
4669833 ATTCCTAACTAAACAGCTACT
1 ATTCCTAACAAAACAGCTACT
*
4669854 ATTCCTAAGAAAACAGCTACT
1 ATTCCTAACAAAACAGCTACT
4669875 A
1 A
4669876 AGTAGACAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.26, G:0.07, T:0.26
Consensus pattern (21 bp):
ATTCCTAACAAAACAGCTACT
Found at i:4670734 original size:152 final size:152
Alignment explanation
Indices: 4670458--4670761 Score: 563
Period size: 152 Copynumber: 2.0 Consensus size: 152
4670448 CAAGCAACCC
**
4670458 TATGTCAGAATGAACCAAATGAACATTTTATTCTCAACCCCAAAAGTTCCCAATTCTATTTAATT
1 TATGTCAGAATGAACCAAATGAACATTTTATTCTCAACCCCAAAAGTTCCCAACACTATTTAATT
4670523 GATATCTAATTAAGCAAGTCTTGCCATTCCAAATTAATCTAAATTGATGGCGCTGAGTCTCACTG
66 GATATCTAATTAAGCAAGTCTTGCCATTCCAAATTAATCTAAATTGATGGCGCTGAGTCTCACTG
* *
4670588 CATTTTACGGTGTAGGTATTGA
131 CATTTTACAGTGTAGGCATTGA
*
4670610 TATGTCAGAATGAACCAAATGAGCATTTTATTCTCAACCCCAAAAGTTCCCAACACTATTTAATT
1 TATGTCAGAATGAACCAAATGAACATTTTATTCTCAACCCCAAAAGTTCCCAACACTATTTAATT
4670675 GATATCTAATTAAGCAAGTCTTGCCATTCCAAATTAATCTAAATTGATGGCGCTGAGTCTCACTG
66 GATATCTAATTAAGCAAGTCTTGCCATTCCAAATTAATCTAAATTGATGGCGCTGAGTCTCACTG
4670740 CATTTTACAGTGTAGGCATTGA
131 CATTTTACAGTGTAGGCATTGA
4670762 CCACCCCCCA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
152 147 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (152 bp):
TATGTCAGAATGAACCAAATGAACATTTTATTCTCAACCCCAAAAGTTCCCAACACTATTTAATT
GATATCTAATTAAGCAAGTCTTGCCATTCCAAATTAATCTAAATTGATGGCGCTGAGTCTCACTG
CATTTTACAGTGTAGGCATTGA
Found at i:4681323 original size:13 final size:13
Alignment explanation
Indices: 4681297--4681330 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
4681287 ATTTGTAAAC
4681297 ATGC-AAGAACAA
1 ATGCTAAGAACAA
*
4681309 ATGCTAAGAAGAA
1 ATGCTAAGAACAA
4681322 ATGCTAAGA
1 ATGCTAAGA
4681331 TCTAGCCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.15
Consensus pattern (13 bp):
ATGCTAAGAACAA
Found at i:4688964 original size:6 final size:6
Alignment explanation
Indices: 4688953--4688983 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
4688943 GGAAGAGAGC
4688953 GAAATA GAAATA GAAATA GAAATA GAAATA G
1 GAAATA GAAATA GAAATA GAAATA GAAATA G
4688984 GAAGATAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (6 bp):
GAAATA
Found at i:4690724 original size:14 final size:13
Alignment explanation
Indices: 4690661--4690761 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 13
4690651 TTGCTATTAT
4690661 TTTTATGTT-TCTA
1 TTTTAT-TTATCTA
4690674 TTTATATTTAT-T-
1 TTT-TATTTATCTA
4690686 TTTTATTCTAATACTA
1 TTTTATT-T-AT-CTA
*
4690702 TCATTATTTATCTAA
1 T-TTTATTTATCT-A
4690717 TTTTATTTATCTA
1 TTTTATTTATCTA
*
4690730 TTTATATTTCTACTA
1 TTT-TATTTAT-CTA
4690745 TTATTATATT-TCTA
1 TT-TTAT-TTATCTA
4690759 TTT
1 TTT
4690762 ATTATATTTT
Statistics
Matches: 72, Mismatches: 3, Indels: 26
0.71 0.03 0.26
Matches are distributed among these distances:
11 4 0.06
12 4 0.06
13 13 0.18
14 27 0.38
15 14 0.19
16 5 0.07
17 5 0.07
ACGTcount: A:0.26, C:0.09, G:0.01, T:0.64
Consensus pattern (13 bp):
TTTTATTTATCTA
Found at i:4690763 original size:15 final size:15
Alignment explanation
Indices: 4690731--4690776 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
4690721 ATTTATCTAT
4690731 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
4690748 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
4690763 TTATATTTTTATTT
1 TTATATTTCTATTT
4690777 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:4690769 original size:23 final size:23
Alignment explanation
Indices: 4690743--4690809 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
4690733 ATATTTCTAC
4690743 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
4690766 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
4690788 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
4690809 T
1 T
4690810 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:4692161 original size:30 final size:31
Alignment explanation
Indices: 4692102--4692173 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
4692092 TTAAATTAAT
* * *
4692102 AATAGTAAAATTATACTTTAATTTCTCTAAA
1 AATAATAAAATTATAATTTAATCTCTCTAAA
*
4692133 AATAATAAAATTTTAATTTAA-CTCTCTAAA
1 AATAATAAAATTATAATTTAATCTCTCTAAA
*
4692163 AATTATAAAAT
1 AATAATAAAAT
4692174 ATAGATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.50, C:0.08, G:0.01, T:0.40
Consensus pattern (31 bp):
AATAATAAAATTATAATTTAATCTCTCTAAA
Found at i:4694351 original size:12 final size:12
Alignment explanation
Indices: 4694334--4694364 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4694324 CAGTTCCATT
4694334 GTTGTGAGCAAA
1 GTTGTGAGCAAA
4694346 GTTGTGAGCAAA
1 GTTGTGAGCAAA
4694358 GTTGTGA
1 GTTGTGA
4694365 TATGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.35, T:0.29
Consensus pattern (12 bp):
GTTGTGAGCAAA
Found at i:4696277 original size:22 final size:22
Alignment explanation
Indices: 4696249--4696293 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
4696239 TTAATAAAAA
4696249 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
4696271 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
4696293 A
1 A
4696294 CACTCCCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:4699561 original size:26 final size:26
Alignment explanation
Indices: 4699525--4699660 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
4699515 CATGATATTC
*
4699525 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
4699551 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
4699577 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4699603 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4699629 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4699655 TTATCA
1 TTATCA
4699661 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4705398 original size:26 final size:26
Alignment explanation
Indices: 4705360--4705469 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
4705350 TATGATATTC
*
4705360 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
4705386 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
4705412 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4705438 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
4705464 TTATCA
1 TTATCA
4705470 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:4709764 original size:22 final size:22
Alignment explanation
Indices: 4709739--4709780 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4709729 TTTAATAAAA
4709739 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
4709761 AAAATATTTACAGAATATTC
1 AAAATATCTACAAAATATTC
4709781 TTACAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:4718666 original size:22 final size:22
Alignment explanation
Indices: 4718641--4718687 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
4718631 CAAAGACACA
4718641 AAATAAAATAAAAAAAACACTT
1 AAATAAAATAAAAAAAACACTT
* * * *
4718663 AAATCAACTCAAAAACACACTT
1 AAATAAAATAAAAAAAACACTT
4718685 AAA
1 AAA
4718688 CTAATTAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (22 bp):
AAATAAAATAAAAAAAACACTT
Found at i:4719073 original size:87 final size:88
Alignment explanation
Indices: 4718927--4719101 Score: 307
Period size: 87 Copynumber: 2.0 Consensus size: 88
4718917 ATCTATATAC
* *
4718927 ATTCTGTGACAAAAAGCATATAAATATAATGTTTATCGTCACATTATGTTAAATTCTTGGA-GTT
1 ATTCTGTGACAAAAAGCATATAAATATAATGTTCATCGTCACATTATATTAAATTCTTGGAGGTT
*
4718991 TTTTTACATTTGTTGGAACATTT
66 TTTTTACATTTATTGGAACATTT
*
4719014 ATTCTGTGACAAAAAGCATATAAATGTAATGTTCATCGTCACATTATATTAAATTCTTGGAGGTT
1 ATTCTGTGACAAAAAGCATATAAATATAATGTTCATCGTCACATTATATTAAATTCTTGGAGGTT
4719079 TTTTTACATTTATTGGAACATTT
66 TTTTTACATTTATTGGAACATTT
4719102 GATTGCTCCG
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
87 58 0.70
88 25 0.30
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.43
Consensus pattern (88 bp):
ATTCTGTGACAAAAAGCATATAAATATAATGTTCATCGTCACATTATATTAAATTCTTGGAGGTT
TTTTTACATTTATTGGAACATTT
Found at i:4736668 original size:22 final size:23
Alignment explanation
Indices: 4736642--4736687 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4736632 CAACCAAACC
4736642 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
4736664 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
4736687 A
1 A
4736688 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:4736693 original size:23 final size:23
Alignment explanation
Indices: 4736649--4736693 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4736639 ACCAATTCAA
*
4736649 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
4736672 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
4736694 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:4753289 original size:78 final size:78
Alignment explanation
Indices: 4753195--4753348 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 78
4753185 ACGATATTTT
* *
4753195 CGGTCTCAGCTTAACTATACTACTGTTCGATAGGTGCGCTTGCCTTAGTCGAATTTTTAGTTAGT
1 CGGTCTCACCTTAACTATACTACTGTTCGATAGGTGCACTTGCCTTAGTCGAATTTTTAGTTAGT
4753260 TTAGCGACCATTC
66 TTAGCGACCATTC
* *
4753273 CGGTCTCACCTTAACTATACTACTGTTCGATTGGTGCACTTGCCTTAGTCGAATTTTTTGTTAGT
1 CGGTCTCACCTTAACTATACTACTGTTCGATAGGTGCACTTGCCTTAGTCGAATTTTTAGTTAGT
4753338 TTAGCGACCAT
66 TTAGCGACCAT
4753349 CAAGTTTTTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 72 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (78 bp):
CGGTCTCACCTTAACTATACTACTGTTCGATAGGTGCACTTGCCTTAGTCGAATTTTTAGTTAGT
TTAGCGACCATTC
Found at i:4755002 original size:55 final size:55
Alignment explanation
Indices: 4754943--4755083 Score: 167
Period size: 55 Copynumber: 2.6 Consensus size: 55
4754933 TGCAAGCCCC
** *
4754943 ACGCCCGTGTTAATTTAACAGGTTCGACCACGGGTGTTCCACACGGGCGTGTCAA
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCAA
* * * * **
4754998 ACGCCCGTGCTGTTTTAACAGGTTCG-CTCATGGTTCTTCCATACGGGCGTGTCGC
1 ACGCCCGTGTTGTTTTAACAGGTTCGAC-CACGGGTCTTCCACACGGGCGTGTCAA
* *
4755053 ACGCCCGTGTTGTTTTAGCAGGCTCGACCAC
1 ACGCCCGTGTTGTTTTAACAGGTTCGACCAC
4755084 TACCATATCG
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
54 1 0.01
55 69 0.97
56 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.27, T:0.27
Consensus pattern (55 bp):
ACGCCCGTGTTGTTTTAACAGGTTCGACCACGGGTCTTCCACACGGGCGTGTCAA
Found at i:4763905 original size:30 final size:30
Alignment explanation
Indices: 4763870--4763927 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4763860 TAGATAGTTC
* *
4763870 CACACGGGTAATCCAAACGCCCGTGTGTGA
1 CACACGGCTAAGCCAAACGCCCGTGTGTGA
* *
4763900 CACACGGCTAGGCCACACGCCCGTGTGT
1 CACACGGCTAAGCCAAACGCCCGTGTGT
4763928 AATGACTGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.22, C:0.34, G:0.28, T:0.16
Consensus pattern (30 bp):
CACACGGCTAAGCCAAACGCCCGTGTGTGA
Found at i:4765626 original size:6 final size:6
Alignment explanation
Indices: 4765617--4765648 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
4765607 CATCGTAAGG
4765617 GTAACA GTAACA GTAACA GTAACA GTAACA GT
1 GTAACA GTAACA GTAACA GTAACA GTAACA GT
4765649 CAGGTACAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
GTAACA
Found at i:4766589 original size:13 final size:13
Alignment explanation
Indices: 4766571--4766608 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4766561 TTACCTTAAT
4766571 TTATATTATTATA
1 TTATATTATTATA
*
4766584 TTATATTTTTA-A
1 TTATATTATTATA
4766596 TTATAATTATTAT
1 TTAT-ATTATTAT
4766609 TTCTTAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATTATTATA
Found at i:4773025 original size:43 final size:43
Alignment explanation
Indices: 4772777--4773094 Score: 165
Period size: 43 Copynumber: 7.5 Consensus size: 43
4772767 ATATTTTTTT
* * * *
4772777 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGTCGT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGAGCCGC
* * *
4772820 TAAAGGTCTAT-TT-TATAGTGGCATTT-TCG-GAAAA-AGCGTCGC
1 TAAAGGTC-ATGTTCTTTAGCGGCGTTTGT-GAGAAAAGAGC--CGC
* * * *
4772862 TAAAGGTCATG-TCTTTTAGTGGCGTCTGTGA-AAAAAACACCGC
1 TAAAGGTCATGTTC-TTTAGCGGCGTTTGTGAGAAAAGA-GCCGC
* ** * *
4772905 TAAAGGTCATGTTTTTTAAAGGCATTTGCT-AG-AAA-AGCACAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTG-TGAGAAAAGAGC-CGC
* * * * *
4772947 TAAAGGTC-TATTCTATAGCCGCATTT-TCGAAAAAAGAGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGT-GAGAAAAGAGCCGC
* * * * *
4772989 TAAATGTCATGTTTTTTAGTGGCGTTTGTGAGAAAAGCGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGAGCCGC
* * * * * * *
4773032 TAATGGTCATGGTCTTTAGCGGTGTTTGCGGGAAAAGCGCAGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGAGCCGC
*
4773075 TAAAGGTCATATTCTTTAGC
1 TAAAGGTCATGTTCTTTAGC
4773095 AATGTTGTTT
Statistics
Matches: 206, Mismatches: 48, Indels: 42
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 23 0.11
42 44 0.21
43 129 0.63
44 7 0.03
45 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGAAAAGAGCCGC
Found at i:4773060 original size:127 final size:128
Alignment explanation
Indices: 4772820--4773094 Score: 318
Period size: 127 Copynumber: 2.1 Consensus size: 128
4772810 AAAGCGTCGT
* ** * * *
4772820 TAAAGGTCTATTTTATAGTGGCATTTTCGGAAAAAGCGTCGCTAAAGGTCATGTCTTTTAGTGGC
1 TAAAGGTCTATTCTATAGCCGCATTTTCGAAAAAAGAGCCGCTAAAGGTCATGTCTTTTAGTGGC
* * * *
4772885 GTCTGTGAAAAAAACACCGCTAAAGGTCATGTTTTTTAAAGGCATTTGCTAGAAAAGCACA-C
66 GTCTGTGAAAAAAACACCACTAAAGGTCATGGTCTTTAAAGGCATTTGCGAGAAAAGCACAGC
* *
4772947 TAAAGGTCTATTCTATAGCCGCATTTTCGAAAAAAGAGCCGCTAAATGTCATGTTTTTTAGTGGC
1 TAAAGGTCTATTCTATAGCCGCATTTTCGAAAAAAGAGCCGCTAAAGGTCATGTCTTTTAGTGGC
* * * * * ** ** * *
4773012 GTTTGTGAGAAAAGCGCCACTAATGGTCATGGTCTTTAGCGGTGTTTGCGGGAAAAGCGCAGC
66 GTCTGTGAAAAAAACACCACTAAAGGTCATGGTCTTTAAAGGCATTTGCGAGAAAAGCACAGC
*
4773075 TAAAGGTCATATTCTTTAGC
1 TAAAGGTC-TATTCTATAGC
4773095 AATGTTGTTT
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
127 103 0.84
128 9 0.07
129 10 0.08
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (128 bp):
TAAAGGTCTATTCTATAGCCGCATTTTCGAAAAAAGAGCCGCTAAAGGTCATGTCTTTTAGTGGC
GTCTGTGAAAAAAACACCACTAAAGGTCATGGTCTTTAAAGGCATTTGCGAGAAAAGCACAGC
Found at i:4774524 original size:28 final size:28
Alignment explanation
Indices: 4774481--4774537 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
4774471 GAATTCTACT
*
4774481 TATAAGATAGTCCTAACGGACTTTCACA
1 TATAAGATAGTCCTAACGGACTTCCACA
* *
4774509 TATAAGATAGTTCTAACGGGCTTCCACA
1 TATAAGATAGTCCTAACGGACTTCCACA
4774537 T
1 T
4774538 CTTTCATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (28 bp):
TATAAGATAGTCCTAACGGACTTCCACA
Found at i:4777654 original size:19 final size:18
Alignment explanation
Indices: 4777624--4777667 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 18
4777614 AAAATCGGGT
4777624 GAAAAGAAGAAGAAGAAAAG
1 GAAAA-AAGAAGAA-AAAAG
4777644 GAAAAAAGAAGAAAAAAG
1 GAAAAAAGAAGAAAAAAG
4777662 GAAAAA
1 GAAAAA
4777668 GAAAACAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.46
19 8 0.33
20 5 0.21
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (18 bp):
GAAAAAAGAAGAAAAAAG
Found at i:4777666 original size:16 final size:18
Alignment explanation
Indices: 4777630--4777670 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
4777620 GGGTGAAAAG
4777630 AAGAAGAAGAAAAGGAAAA
1 AAGAAGAAGAAAAGG-AAA
4777649 AAGAAGAA-AAAAGGAAA
1 AAGAAGAAGAAAAGGAAA
4777666 AAGAA
1 AAGAA
4777671 AACAAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 6 0.27
19 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGAAAAGGAAA
Found at i:4783618 original size:17 final size:17
Alignment explanation
Indices: 4783598--4783630 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4783588 TAAAATTAGA
4783598 AAATAAAAATAGATCTT
1 AAATAAAAATAGATCTT
*
4783615 AAATTAAAATAGATCT
1 AAATAAAAATAGATCT
4783631 AGCTAGCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
AAATAAAAATAGATCTT
Found at i:4784949 original size:15 final size:15
Alignment explanation
Indices: 4784931--4784977 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
4784921 TTATTGTTGA
4784931 TTTAATTTTTTATAT
1 TTTAATTTTTTATAT
*
4784946 TTTAATTTAATTA-AT
1 TTTAATTT-TTTATAT
4784961 TTTAA-TTTTTATAT
1 TTTAATTTTTTATAT
4784975 TTT
1 TTT
4784978 TAAAATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 15 0.54
16 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTTATAT
Found at i:4785049 original size:16 final size:16
Alignment explanation
Indices: 4785025--4785070 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
4785015 TTTTTATAAC
4785025 TTCAA-AATTTTAAAT
1 TTCAATAATTTTAAAT
4785040 TTCAATAATTATTAAA-
1 TTCAATAATT-TTAAAT
*
4785056 TTCATTAA-TTTAAAT
1 TTCAATAATTTTAAAT
4785071 AAAATAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 11 0.41
17 5 0.19
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
TTCAATAATTTTAAAT
Found at i:4787819 original size:56 final size:56
Alignment explanation
Indices: 4787749--4787858 Score: 211
Period size: 56 Copynumber: 2.0 Consensus size: 56
4787739 GAAAAAGTAA
4787749 ATTATCGGGCCTCCGTCTTAGTGAATTAGATTCATAAACAATTATTAGAAATATAC
1 ATTATCGGGCCTCCGTCTTAGTGAATTAGATTCATAAACAATTATTAGAAATATAC
*
4787805 ATTATCGGGTCTCCGTCTTAGTGAATTAGATTCATAAACAATTATTAGAAATAT
1 ATTATCGGGCCTCCGTCTTAGTGAATTAGATTCATAAACAATTATTAGAAATAT
4787859 TTATAAGTCT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (56 bp):
ATTATCGGGCCTCCGTCTTAGTGAATTAGATTCATAAACAATTATTAGAAATATAC
Found at i:4788105 original size:15 final size:16
Alignment explanation
Indices: 4788085--4788122 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
4788075 TAATTAATGA
4788085 TATATAAATAT-AATT
1 TATATAAATATGAATT
4788100 TATAT-AATATGAATT
1 TATATAAATATGAATT
4788115 TATGATAA
1 TAT-ATAA
4788123 TTAAATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.25
15 12 0.60
16 2 0.10
17 1 0.05
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (16 bp):
TATATAAATATGAATT
Found at i:4788131 original size:29 final size:28
Alignment explanation
Indices: 4788065--4788132 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
4788055 TTTATTTGTT
4788065 TTAAATTATATAATTAATGATATATAAA
1 TTAAATTATATAATTAATGATATATAAA
* *
4788093 TATAATTTATATAA-T-ATGAATTTATGATAA
1 T-TAAATTATATAATTAATG-ATATAT-A-AA
4788123 TTAAATTATA
1 TTAAATTATA
4788133 ATGATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
27 3 0.09
28 7 0.21
29 20 0.61
30 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAAATTATATAATTAATGATATATAAA
Found at i:4788141 original size:16 final size:17
Alignment explanation
Indices: 4788116--4788149 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4788106 ATATGAATTT
4788116 ATGATAATTAAATTATA
1 ATGATAATTAAATTATA
*
4788133 ATGAT-ATTATATTATA
1 ATGATAATTAAATTATA
4788149 A
1 A
4788150 AATAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATGATAATTAAATTATA
Found at i:4789884 original size:22 final size:23
Alignment explanation
Indices: 4789858--4789903 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4789848 CAACCAAACC
4789858 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
4789880 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
4789903 A
1 A
4789904 CATCATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:4796012 original size:18 final size:17
Alignment explanation
Indices: 4795989--4796100 Score: 89
Period size: 18 Copynumber: 6.2 Consensus size: 17
4795979 CAAATAAAAG
*
4795989 TACTGAATGACTGACTGT
1 TACTGAATAACTGA-TGT
*
4796007 TACTGAATAATTGATCGT
1 TACTGAATAACTGAT-GT
*
4796025 TACTGAATAACTGATTGC
1 TACTGAATAACTGA-TGT
** *
4796043 TACTGAGCAAATGATTGT
1 TACTGAATAACTGA-TGT
* *
4796061 TACTGAATAACTAATTGC
1 TACTGAATAACTGA-TGT
*
4796079 TACTGAATAATTGAATGT
1 TACTGAATAACTG-ATGT
4796097 TACT
1 TACT
4796101 AAATGAAACT
Statistics
Matches: 75, Mismatches: 16, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
17 1 0.01
18 72 0.96
19 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (17 bp):
TACTGAATAACTGATGT
Found at i:4796029 original size:36 final size:35
Alignment explanation
Indices: 4795989--4796100 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 35
4795979 CAAATAAAAG
* * *
4795989 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGATTGCTACTGAATAATTGAT-GT
** *
4796025 TACTGAATAACTGATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGA-TGT
*
4796061 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTGATTGCTACTGAATAATTG-ATGT
4796097 TACT
1 TACT
4796101 AAATGAAACT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
36 62 0.97
37 2 0.03
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (35 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATGT
Found at i:4801348 original size:47 final size:47
Alignment explanation
Indices: 4801295--4801390 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
4801285 AATTTTAAAA
*
4801295 TTAATTTTTTAAATTATCTTATTTGATGAAATAAAGTTGCCTCTCTT
1 TTAATTTTTTAAATAATCTTATTTGATGAAATAAAGTTGCCTCTCTT
4801342 TTAATTTTTTAAATAATCTTATTTGATGAAATAAAGTTGCCTCTCTT
1 TTAATTTTTTAAATAATCTTATTTGATGAAATAAAGTTGCCTCTCTT
4801389 TT
1 TT
4801391 TTTTCTCGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.51
Consensus pattern (47 bp):
TTAATTTTTTAAATAATCTTATTTGATGAAATAAAGTTGCCTCTCTT
Found at i:4809017 original size:43 final size:43
Alignment explanation
Indices: 4808970--4809056 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
4808960 TCAACCACAT
* *
4808970 ATCAAATTTAAAGATCAACAAAAGATTGATGCACAAGTAAAGC
1 ATCAAATTTAAACATCAACAAAAGATCGATGCACAAGTAAAGC
4809013 ATCAAATTTAAACATCAACAAAAGATCGATGCACAAGTAAAGC
1 ATCAAATTTAAACATCAACAAAAGATCGATGCACAAGTAAAGC
4809056 A
1 A
4809057 CGAAGTTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.52, C:0.16, G:0.13, T:0.20
Consensus pattern (43 bp):
ATCAAATTTAAACATCAACAAAAGATCGATGCACAAGTAAAGC
Found at i:4811854 original size:20 final size:20
Alignment explanation
Indices: 4811818--4811860 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4811808 GGCCTTTTAC
*
4811818 AAAAATAAACCATTACAACT
1 AAAAATAAACCATTACAAAT
*
4811838 AAAATTAAACCCA-TACAAAT
1 AAAAATAAA-CCATTACAAAT
4811858 AAA
1 AAA
4811861 CCTAAGACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.63, C:0.19, G:0.00, T:0.19
Consensus pattern (20 bp):
AAAAATAAACCATTACAAAT
Found at i:4812103 original size:175 final size:175
Alignment explanation
Indices: 4811807--4812156 Score: 655
Period size: 175 Copynumber: 2.0 Consensus size: 175
4811797 AAATTAGCCC
*
4811807 GGGCCTTTTACAAAAATAAACCATTACAACTAAAATTAAACCCATACAAATAAACCTAAGACCAA
1 GGGCCTTTTACAAAAATAAACCATTACAACTAAAATTAAACCCATACAAATAAACCCAAGACCAA
4811872 ACCCAAATTTAACCCAATTCAAATCCCAAAGGCCCAAAAACCTAACTACCTAGCCCAAGCCCAAT
66 ACCCAAATTTAACCCAATTCAAATCCCAAAGGCCCAAAAACCTAACTACCTAGCCCAAGCCCAAT
4811937 TAGCCCATTAGTCAAACTAGGGTTTCAGAAAAGCTGAAACCCTAG
131 TAGCCCATTAGTCAAACTAGGGTTTCAGAAAAGCTGAAACCCTAG
* * *
4811982 GGGCTTTTTACAAAAATAAACCATTGCAACTAAACTTAAACCCATACAAATAAACCCAAGACCAA
1 GGGCCTTTTACAAAAATAAACCATTACAACTAAAATTAAACCCATACAAATAAACCCAAGACCAA
4812047 ACCCAAATTTAACCCAATTCAAATCCCAAAGGCCCAAAAACCTAACTACCTAGCCCAAGCCCAAT
66 ACCCAAATTTAACCCAATTCAAATCCCAAAGGCCCAAAAACCTAACTACCTAGCCCAAGCCCAAT
*
4812112 TAGCCCATTAGTCAAACTAGGGTTTTAGAAAAGCTGAAACCCTAG
131 TAGCCCATTAGTCAAACTAGGGTTTCAGAAAAGCTGAAACCCTAG
4812157 CCACTTAACT
Statistics
Matches: 170, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 170 1.00
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (175 bp):
GGGCCTTTTACAAAAATAAACCATTACAACTAAAATTAAACCCATACAAATAAACCCAAGACCAA
ACCCAAATTTAACCCAATTCAAATCCCAAAGGCCCAAAAACCTAACTACCTAGCCCAAGCCCAAT
TAGCCCATTAGTCAAACTAGGGTTTCAGAAAAGCTGAAACCCTAG
Found at i:4812535 original size:2 final size:2
Alignment explanation
Indices: 4812528--4812553 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4812518 ACATATACAA
4812528 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
4812554 TTAAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4813551 original size:18 final size:16
Alignment explanation
Indices: 4813522--4813573 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 16
4813512 CTATATTATG
4813522 TATACATTTTTTATAT
1 TATACATTTTTTATAT
4813538 ATATACATTTTTTTATAT
1 -TATACA-TTTTTTATAT
4813556 TAT--ATTTTTATATAT
1 TATACATTTTT-TATAT
4813571 TAT
1 TAT
4813574 TATGTATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.15
15 9 0.27
17 9 0.27
18 10 0.30
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (16 bp):
TATACATTTTTTATAT
Found at i:4813559 original size:19 final size:17
Alignment explanation
Indices: 4813522--4813570 Score: 68
Period size: 17 Copynumber: 3.1 Consensus size: 17
4813512 CTATATTATG
4813522 TATACATTTTTTATATA
1 TATACATTTTTTATATA
4813539 TATACATTTTTT-TATA
1 TATACATTTTTTATATA
*
4813555 T-TATA-TTTTTATATA
1 TATACATTTTTTATATA
4813570 T
1 T
4813571 TATTATGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 5 0.17
17 12 0.40
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TATACATTTTTTATATA
Found at i:4813571 original size:15 final size:15
Alignment explanation
Indices: 4813529--4813573 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
4813519 ATGTATACAT
*
4813529 TTTTTATATATATACA
1 TTTTTATATAT-TATA
*
4813545 TTTTTTTATATTATA
1 TTTTTATATATTATA
4813560 TTTTTATATATTAT
1 TTTTTATATATTAT
4813574 TATGTATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 16 0.62
16 10 0.38
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATATATTATA
Found at i:4813574 original size:13 final size:14
Alignment explanation
Indices: 4813529--4813584 Score: 51
Period size: 15 Copynumber: 3.8 Consensus size: 14
4813519 ATGTATACAT
4813529 TTTTTATATATATACA
1 TTTTTATATATAT--A
*
4813545 TTTTTTTATATTATA
1 TTTTTATATA-TATA
4813560 TTTTTATATAT-TA
1 TTTTTATATATATA
*
4813573 TTATGTATATAT
1 TT-TTTATATAT
4813585 GTTAATATCA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
13 4 0.11
14 9 0.26
15 10 0.29
16 9 0.26
17 3 0.09
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTATATATATA
Found at i:4813629 original size:25 final size:25
Alignment explanation
Indices: 4813556--4813709 Score: 99
Period size: 25 Copynumber: 6.2 Consensus size: 25
4813546 TTTTTTATAT
4813556 TATATTTTT-ATA-TATTATTATGTA
1 TATATTTTTAATACTA-TATTATGTA
* *
4813580 TATA-TGTTAATA-T-CATTA-GTTA
1 TATATTTTTAATACTATATTATG-TA
*
4813602 TATATTTTTTATACTACT-TTATGTA
1 TATATTTTTAATACTA-TATTATGTA
* *
4813627 TATATCTTTAATACTATATTATTTA
1 TATATTTTTAATACTATATTATGTA
** *
4813652 TATATTTTTCTTAC-ATATTATCTTA
1 TATATTTTTAATACTATATTAT-GTA
*
4813677 CGTATATATTTTAATAACTATGTTATGTA
1 --TATAT-TTTTAAT-ACTATATTATGTA
4813706 TATA
1 TATA
4813710 CTATTACTAT
Statistics
Matches: 101, Mismatches: 15, Indels: 25
0.72 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 10 0.10
23 9 0.09
24 17 0.17
25 39 0.39
26 1 0.01
27 9 0.09
28 5 0.05
29 4 0.04
30 6 0.06
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (25 bp):
TATATTTTTAATACTATATTATGTA
Found at i:4813652 original size:29 final size:27
Alignment explanation
Indices: 4813619--4813702 Score: 75
Period size: 27 Copynumber: 3.0 Consensus size: 27
4813609 TTTATACTAC
4813619 TTTATGTATATATCTTTAATACTATATTA
1 TTTA-GTATATAT-TTTAATACTATATTA
**
4813648 TTTA-TATAT-TTTTCTTAC-ATATTA
1 TTTAGTATATATTTTAATACTATATTA
*
4813672 TCTTACGTATATATTTTAATAACTATGTTA
1 T-TTA-GTATATATTTTAAT-ACTATATTA
4813702 T
1 T
4813703 GTATATACTA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
24 7 0.16
25 9 0.20
26 1 0.02
27 10 0.23
28 5 0.11
29 6 0.14
30 6 0.14
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (27 bp):
TTTAGTATATATTTTAATACTATATTA
Found at i:4813851 original size:29 final size:29
Alignment explanation
Indices: 4813781--4813855 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
4813771 TTCCTAATAT
* *
4813781 ATATTATGT-ATACAT-TTTTTAAATACT
1 ATATTATGTAATATATATTTTTAAATACC
*
4813808 ATATTATATATATATATATTTTT-AATACC
1 ATATTATGTA-ATATATATTTTTAAATACC
4813837 ATATTATGTACATAT-TATT
1 ATATTATGTA-ATATATATT
4813856 ATTATATCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 8 0.20
28 4 0.10
29 23 0.57
30 5 0.12
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (29 bp):
ATATTATGTAATATATATTTTTAAATACC
Found at i:4813954 original size:16 final size:17
Alignment explanation
Indices: 4813920--4813959 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
4813910 ATTATACGTG
4813920 TATATATATATACTTTT
1 TATATATATATACTTTT
4813937 TATATAGTAT-TA-TTTT
1 TATATA-TATATACTTTT
4813953 TATATAT
1 TATATAT
4813960 CATTATATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 1 0.05
16 10 0.45
17 8 0.36
18 3 0.14
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (17 bp):
TATATATATATACTTTT
Found at i:4813964 original size:16 final size:15
Alignment explanation
Indices: 4813920--4813965 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 15
4813910 ATTATACGTG
4813920 TATATATATATACTTTT
1 TATATATAT-TA-TTTT
4813937 TATATAGTATTATTTT
1 TATATA-TATTATTTT
4813953 TATATATCATTAT
1 TATATAT-ATTAT
4813966 ATTCATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.04
16 15 0.56
17 8 0.30
18 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (15 bp):
TATATATATTATTTT
Found at i:4813986 original size:3 final size:3
Alignment explanation
Indices: 4813944--4814035 Score: 50
Period size: 3 Copynumber: 30.3 Consensus size: 3
4813934 TTTTATATAG
* *
4813944 TAT TAT TTT TAT ATAT CAT TA- TAT TCAT TAT TA- TACT TAT TAT T-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT
* * *
4813989 TCAC TAT TGT TACT TAT TAT T-T TAT T-T TAA TAT TAT TAT GTAT TAT
1 T-AT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
4814035 T
1 T
4814036 TGGTATGTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
2 10 0.15
3 43 0.63
4 15 0.22
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4819162 original size:18 final size:19
Alignment explanation
Indices: 4819129--4819165 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4819119 ACCAAAACAG
*
4819129 TAAAAAAAAACTCTGAAAA
1 TAAAAAAAAACGCTGAAAA
4819148 TAAAAAAAAA-GCTGAAAA
1 TAAAAAAAAACGCTGAAAA
4819166 ACGAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.70, C:0.08, G:0.08, T:0.14
Consensus pattern (19 bp):
TAAAAAAAAACGCTGAAAA
Found at i:4819166 original size:19 final size:20
Alignment explanation
Indices: 4819129--4819177 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
4819119 ACCAAAACAG
*
4819129 TAAAAAAAAACTCTGAAAA-
1 TAAAAAAAAACGCTGAAAAC
4819148 TAAAAAAAAA-GCTGAAAAAC
1 TAAAAAAAAACGCTG-AAAAC
*
4819168 GAAAAAAAAA
1 TAAAAAAAAA
4819178 ATAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (20 bp):
TAAAAAAAAACGCTGAAAAC
Found at i:4819379 original size:15 final size:15
Alignment explanation
Indices: 4819322--4819384 Score: 56
Period size: 15 Copynumber: 3.9 Consensus size: 15
4819312 ATTCAGCAGC
*
4819322 AAGGAGAAGAAAATAA
1 AAGGAGAAGAAAA-AG
*
4819338 AAGGA-AAGAAAGGAG
1 AAGGAGAAGAAA-AAG
4819353 AAGAGAAGGAAGAAAAAG
1 AAG-G-A-GAAGAAAAAG
4819371 AAGGAGAAGAAAAA
1 AAGGAGAAGAAAAA
4819385 AAGAAGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
15 19 0.49
16 7 0.18
17 2 0.05
18 5 0.13
19 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:4823736 original size:33 final size:33
Alignment explanation
Indices: 4823679--4823747 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
4823669 GAGTACCGCA
*
4823679 GTGGATACGGGCCGGGGGCAGTGCTATAATGCG
1 GTGGATACGGGCCGGGAGCAGTGCTATAATGCG
* **
4823712 GTGGATATGGGCCGGGAG-AGGTGCTATGCTGCG
1 GTGGATACGGGCCGGGAGCA-GTGCTATAATGCG
4823745 GTG
1 GTG
4823748 TGTACGACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 1 0.03
33 30 0.97
ACGTcount: A:0.16, C:0.16, G:0.48, T:0.20
Consensus pattern (33 bp):
GTGGATACGGGCCGGGAGCAGTGCTATAATGCG
Found at i:4823912 original size:72 final size:72
Alignment explanation
Indices: 4823795--4823935 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
4823785 GCCCCCCGAT
*
4823795 GAGCCCGAGAAATTGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCAAAAGTGAATG
1 GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCAAAAGTGAATG
4823860 CGATGAC
66 CGATGAC
* * * * * *
4823867 GAGCCCG-GAAAATAGTCATTGCCTGCCAAATCTGGATGATAAGAAGTATCAGTCGAATGTGAAT
1 GAGCCCGAG-AAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCAAAAGTGAAT
4823931 GCGAT
65 GCGAT
4823936 CGCTCGGACT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
71 1 0.02
72 60 0.98
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (72 bp):
GAGCCCGAGAAATAGTCATTGCCCGCAAAATCCGGATGATAAGAAGTATCAGCCAAAAGTGAATG
CGATGAC
Found at i:4824768 original size:12 final size:13
Alignment explanation
Indices: 4824753--4824782 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
4824743 ATTTTGACAC
4824753 TTTTTCGTAT-TT
1 TTTTTCGTATCTT
4824765 TTTTTCGTATCTT
1 TTTTTCGTATCTT
4824778 TTTTT
1 TTTTT
4824783 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.07, C:0.10, G:0.07, T:0.77
Consensus pattern (13 bp):
TTTTTCGTATCTT
Found at i:4824865 original size:22 final size:21
Alignment explanation
Indices: 4824837--4824878 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
4824827 TAGTACATAA
4824837 TGTTTTAAATATATTATTTAAG
1 TGTTTTAAATAT-TTATTTAAG
*
4824859 TGTTTTAAATATTTTTTTAA
1 TGTTTTAAATATTTATTTAA
4824879 TAAATAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TGTTTTAAATATTTATTTAAG
Found at i:4824929 original size:15 final size:14
Alignment explanation
Indices: 4824909--4824972 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 14
4824899 ACTTTATTCA
4824909 TATTTTTTCGTATAT
1 TATTTTTTC-TATAT
*
4824924 TATTTTTTAAAATATAT
1 TATTTTTT---CTATAT
* *
4824941 TA-TTTTCCTATTT
1 TATTTTTTCTATAT
4824954 TATTTTTT-TATAT
1 TATTTTTTCTATAT
4824967 TATTTT
1 TATTTT
4824973 AGCAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
13 16 0.41
14 4 0.10
15 8 0.21
16 4 0.10
17 7 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.69
Consensus pattern (14 bp):
TATTTTTTCTATAT
Found at i:4825060 original size:145 final size:140
Alignment explanation
Indices: 4824649--4825559 Score: 481
Period size: 155 Copynumber: 6.1 Consensus size: 140
4824639 ATAAGTAAAA
* * * * *
4824649 TATTTTCGTATATTA-TTTTTTATATTATTTTAGC-AAAAATGTTTTAAATGTATTATGTAAGTA
1 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTCAGTA
* *
4824712 TTTTTTTATATTAATTT-AATAAATAACACTGATTTT-GACACTTTTTCGTATTTTTTTTCGTAT
66 -TTTTTTATA-TAATTTCAATAAATAACCCTGATTTTAG-CAC--TATC----TTTTTTTCGTAT
*
4824775 CTT-TTTTTT-AAATATAT
122 ATTATTTTTTAAAATATAT
* * * * * * * *
4824792 TACTTTCGTA--TTATTTAATTTTAAAACCCTTATTTTAGTACATAATGTTTTAAATATATTATT
1 TATTTTCCTATTTTATTT--TTTT-ATA---TTATTTTAGCAAAAAATGTTTCAAATGTATTATT
* * ** ** *
4824855 TAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTATTCATATTTTTTCGT
60 TCAGTATTTTTTATATAATTTCAATAAATAACCCTGATTTTAGCAC--TA-TC-T-TTTTTTCGT
4824920 ATATTATTTTTTAAAATATAT
120 ATATTATTTTTTAAAATATAT
*
4824941 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATT
1 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTA--T-T-TC
*
4825006 ATGTAAGTGTTTTTTTATACTAATTT-AATAAATAACCCTGATTTT-GACACTTTTTTCGTATTT
62 A-GT-A----TTTTTTATA-TAATTTCAATAAATAACCCTGATTTTAG-CAC---TATC-T-TTT
* *
4825069 TTTTGTATCTTATTTTTTAAAATATAT
114 TTTCGTATATTATTTTTTAAAATATAT
* * * * * *
4825096 TATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTTCAAATGTATTATTTCAGTA
1 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTCAGTA
** *
4825161 TTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATATT
66 TTTTTTATATAATTTCAATAAATAACCCTGATTTTAGCAC--TA-TC---TTTTTTTCGTATATT
4825226 ATTTTTTAAAATATAT
125 ATTTTTTAAAATATAT
* ** * * * *
4825242 TATTTTCTTATTTTA-TTTTTTATATTATTTTAGCAAAAAA-AATTCAAATGTATTAATTAACTG
1 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTCAGTA
* * * * **
4825305 TTTCTTTATATTAAGGGTTTTTTACTAAATAA-CCTGATTTT-GATACTTTCTTCGTAATTTTTT
66 TTT-TTTATA-TAA-----TTTCAATAAATAACCCTGATTTTAG-CACTATCTT--T--TTTTCG
* *
4825368 TATTTTCGTATATTATTTTTTAAA-ATA-
119 TA---T-AT-TA-T-TTTTTAAAATATAT
* * *** * * *
4825395 TATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTGCATAATGCTTCAAATGTATTATTTAA
1 TA-T-TTT-CCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTCA
** * *
4825460 GTA-TTTTTATATTTTTTTAATAAATAA-CCTGATTTTAGCATTTATTCGTATTTTTTTCGTATA
63 GTATTTTTTATATAATTTCAATAAATAACCCTGATTTTAGCA-CTA-TC---TTTTTTTCGTATA
4825523 TTATTTTTTAAAATATAT
123 TTATTTTTTAAAATATAT
**
4825541 TATTTTGGTATTTTATTTT
1 TATTTTCCTATTTTATTTT
4825560 AGCATAAAAT
Statistics
Matches: 608, Mismatches: 94, Indels: 132
0.73 0.11 0.16
Matches are distributed among these distances:
141 3 0.00
142 2 0.00
143 20 0.03
144 44 0.07
145 92 0.15
146 50 0.08
147 22 0.04
148 57 0.09
149 51 0.08
150 37 0.06
151 27 0.04
152 4 0.01
153 6 0.01
154 6 0.01
155 126 0.21
156 21 0.03
157 22 0.04
158 18 0.03
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.56
Consensus pattern (140 bp):
TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTCAGTA
TTTTTTATATAATTTCAATAAATAACCCTGATTTTAGCACTATCTTTTTTTCGTATATTATTTTT
TAAAATATAT
Found at i:4825068 original size:155 final size:146
Alignment explanation
Indices: 4825014--4825717 Score: 634
Period size: 145 Copynumber: 4.8 Consensus size: 146
4825004 TTATGTAAGT
* *
4825014 GTTTTTTTATACTAATTTAATAAATAACCCTGATTTT-GACACTTTTTTCGTATTTTTTT-GTAT
1 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAG-CACTTTATTCGTATTTTTTTCGTAT
* * * * * *
4825077 CTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACATAATGTTT
65 ATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTT
*
4825142 CAAATGTATTAT-TTCA
130 CAAATGTATTATATTAA
* *
4825158 GTATTTTTTATATT-TTTTCAATAAATATCCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
1 GT-TTTTTTATATTAATTT-AATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTA
* **
4825222 TATTATTTTTTAAAATATATTATTTTCTTATTTTA-TTTTTTATATTATTTTAGCAAAAAA-AAT
64 TATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTT
4825285 TCAAATGTATTA-ATTAA
129 TCAAATGTATTATATTAA
* * * *
4825302 CTGTTTCTTTATATTAAGGGTTTTTTACTAAATAA-CCTGATTTT-GATACTTTCTTCGTAATTT
1 --GTTTTTTTATATTAA------TTTAATAAATAACCCTGATTTTAG-CACTTTATTCGT-A---
*
4825365 TTTTATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTT
53 -TTT-TTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTT
*** * *
4825430 AGTGCATAATGCTTCAAATGTATTAT-TTAA
116 AGCAAAAAATGTTTCAAATGTATTATATTAA
* **
4825460 GTATTTTTATATTTTTTTAATAAATAA-CCTGATTTTAGCA-TTTATTCGTATTTTTTTCGTATA
1 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
* * *
4825523 TTATTTTTTAAAATATATTATTTT-G----GTA------T-T-TTATTTTAGCATAAAATCTTTC
66 TTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
4825575 AAATGTATTAT-TTAA
131 AAATGTATTATATTAA
* * * * *
4825590 GTTTTTTTATATTAATTTAATAAGTAA-CCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTC
1 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA----TTT-TTTTC
* * * * * * *
4825654 GGATTTTATTTTTTTAATTATACTATTTTCATATTTTATTTTTTTATATTATTTTAACAAAAAA
61 GTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAA
4825718 CTCGTCACCA
Statistics
Matches: 457, Mismatches: 59, Indels: 83
0.76 0.10 0.14
Matches are distributed among these distances:
130 65 0.14
131 9 0.02
132 1 0.00
135 3 0.01
136 29 0.06
138 2 0.00
141 2 0.00
142 1 0.00
143 34 0.07
144 24 0.05
145 77 0.17
146 39 0.09
147 1 0.00
148 2 0.00
149 23 0.05
150 40 0.09
151 9 0.02
152 3 0.01
155 3 0.01
156 53 0.12
157 20 0.04
158 17 0.04
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (146 bp):
GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTTCGTATA
TTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTC
AAATGTATTATATTAA
Found at i:4825269 original size:12 final size:13
Alignment explanation
Indices: 4825237--4825272 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
4825227 TTTTTTAAAA
4825237 TATATTATTTTCT
1 TATATTATTTTCT
*
4825250 TATTTTATTTT-T
1 TATATTATTTTCT
4825262 TATATTATTTT
1 TATATTATTTT
4825273 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (13 bp):
TATATTATTTTCT
Found at i:4825455 original size:302 final size:290
Alignment explanation
Indices: 4824649--4825709 Score: 1191
Period size: 300 Copynumber: 3.6 Consensus size: 290
4824639 ATAAGTAAAA
* * * *
4824649 TATTTTCGTATATTATTTTTTATATTATTTTAGCAAAAATGTTTTAAATGTATT-ATGTAAGTAT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTAATGTAAGTGT
4824713 TTTTTTATATTAATTTAATAAATAACACTGATTTTGACACTTTTTCGTATTTTTTTTCGTATCTT
66 TTTTTTATATTAATTTAATAAATAAC-CTGATTTTGACACTTTTTCGTATTTTTTTTCGTATCTT
* * *
4824778 -TTTTTT-AAATATATTACTTTCGTATTATTTAATT-TTAAAACCCTTATTTTAGTACATAATGT
130 ATTTTTTAAAATATATTATTTTCGTA-T-TTTATTTCTTAATA---TTATTTTAGTACATAATGT
* * * **
4824840 TTTAAATATATTATTTAAGTGTTTTAAATATTTTTTTAATAAATAACCCTGATTTTAGCACTTTA
190 TTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAAT-ACCCTGATTTTAGCACTTTA
*
4824905 TTCATA-TTTTTTCGTATATTATTTTTTAAAATATAT
254 TTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
*
4824941 TATTTTCCTATTTTATTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTAGGTATATT
1 TATTTTCGTATTTTA-TTTTTTATATTATTTTAGCAAAAAA-GTTTCAAATG---TA--T-TA--
*
4825006 ATGTAAGTGTTTTTTTATACTAATTTAATAAATAACCCTGATTTTGACACTTTTTTCGTA-TTTT
56 ATGTAAGTGTTTTTTTATATTAATTTAATAAATAA-CCTGATTTTGACAC-TTTTTCGTATTTTT
*
4825070 TTT-GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTCATATTATTTTAGTACA
119 TTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACA
* *
4825134 TAATGTTTCAAATGTATTATTTCAGTATTTTTTATATTTTTTCAATAAATATCCCTGATTTTAGC
184 TAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATA-CCCTGATTTTAGC
4825199 ACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
248 ACTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
* ** *
4825242 TATTTTCTTATTTTATTTTTTATATTATTTTAGCAAAAAAAATTCAAATGTATTAAT-TAACTGT
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTAATGTAAGTGT
* * *
4825306 TTCTTTATATTAAGGGTTTTTTACTAAATAACCTGATTTTGATACTTTCTTCGTAATTTTTTTAT
66 TTTTTTATATTAA------TTTAATAAATAACCTGATTTTGACACTTT-TTCGT-A---TTTT-T
* * *
4825371 TTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTGCA
119 TTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACA
* *
4825436 TAATGCTTCAAATGTATTATTTAAGTA-TTTTTATATTTTTTTAATAAATAACCTGATTTTAGCA
184 TAATGTTTCAAATGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATACCCTGATTTTAGCA
4825500 -TTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
249 CTTTATTCGTATTTTTTTCGTATATTATTTTTTAAAATATAT
* ** *
4825541 TATTTT-G----GTA-----T-T-TTATTTTAGCATAAAATCTTTCAAATGTATT-ATTTAA--G
1 TATTTTCGTATTTTATTTTTTATATTATTTTAGCA-AAAAAGTTTCAAATGTATTAATGTAAGTG
* * * * *
4825591 TTTTTTTATATTAATTTAATAAGTAACCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTCGG
65 TTTTTTTATATTAATTTAATAAATAACCTGATTTTGACA-CTTTTTCGTA---TTTT-TTTTCGT
* * * * * * *
4825656 ATTTTATTTTTTTAATTATACTATTTTCATATTTTATTTTTTTATATTATTTTA
125 ATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTA
4825710 ACAAAAAACT
Statistics
Matches: 682, Mismatches: 52, Indels: 83
0.83 0.06 0.10
Matches are distributed among these distances:
279 63 0.09
280 25 0.04
281 3 0.00
286 14 0.02
287 13 0.02
288 20 0.03
289 1 0.00
290 17 0.02
291 2 0.00
292 13 0.02
293 26 0.04
294 15 0.02
295 18 0.03
296 14 0.02
297 2 0.00
299 57 0.08
300 122 0.18
301 70 0.10
302 96 0.14
303 64 0.09
304 27 0.04
ACGTcount: A:0.29, C:0.08, G:0.07, T:0.56
Consensus pattern (290 bp):
TATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAAGTTTCAAATGTATTAATGTAAGTGT
TTTTTTATATTAATTTAATAAATAACCTGATTTTGACACTTTTTCGTATTTTTTTTCGTATCTTA
TTTTTTAAAATATATTATTTTCGTATTTTATTTCTTAATATTATTTTAGTACATAATGTTTCAAA
TGTATTATTTAAGTATTTTTTATATTTTTTTAATAAATACCCTGATTTTAGCACTTTATTCGTAT
TTTTTTCGTATATTATTTTTTAAAATATAT
Found at i:4825683 original size:30 final size:31
Alignment explanation
Indices: 4825647--4825705 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
4825637 CGTATTTTTT
*
4825647 TATTTTCGGATTTTATTTTTTTA-ATTATAC
1 TATTTTCAGATTTTATTTTTTTATATTATAC
*
4825677 TATTTTCATATTTTATTTTTTTATATTAT
1 TATTTTCAGATTTTATTTTTTTATATTAT
4825706 TTTAACAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (31 bp):
TATTTTCAGATTTTATTTTTTTATATTATAC
Found at i:4826207 original size:14 final size:14
Alignment explanation
Indices: 4826144--4826215 Score: 60
Period size: 14 Copynumber: 5.1 Consensus size: 14
4826134 AAAAAATTAC
4826144 CTTTTTCTTTC-CTT
1 CTTTTTCTTTCTC-T
* *
4826158 CTTTTTCCTTCCCT
1 CTTTTTCTTTCTCT
*
4826172 CTTCTTCTTCTCCTTCT
1 CTTTTTCTT-T-C-TCT
4826189 CTTTTTCTTTCTCT
1 CTTTTTCTTTCTCT
4826203 -TTTTTC-TTCTCT
1 CTTTTTCTTTCTCT
4826215 C
1 C
4826216 AGCCTGCCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
12 6 0.12
13 6 0.12
14 21 0.44
15 3 0.06
16 2 0.04
17 10 0.21
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTTTCTTTCTCT
Found at i:4826262 original size:3 final size:3
Alignment explanation
Indices: 4826243--4826302 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
4826233 TCCTCCTCTC
* *
4826243 CTT CTT TTT CTTT CTT CTT CTT C-T CTT CTT C-C CTT CTT CTCT CTT
1 CTT CTT CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT-T CTT
*
4826288 TTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT
4826303 TGCCGAAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 3 0.06
3 38 0.81
4 6 0.13
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:4826264 original size:16 final size:16
Alignment explanation
Indices: 4826243--4826299 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
4826233 TCCTCCTCTC
4826243 CTTCTTTTTCTTTCTT
1 CTTCTTTTTCTTTCTT
*
4826259 CTTCTTCTCTTCTTCCCTT
1 CTTCTT-T-TTCTT-TCTT
*
4826278 CTTCTCTCTT-TTTCTT
1 CTTCT-TTTTCTTTCTT
4826294 CTTCTT
1 CTTCTT
4826300 CTTTGCCGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.41
17 3 0.09
18 7 0.21
19 8 0.24
20 1 0.03
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (16 bp):
CTTCTTTTTCTTTCTT
Found at i:4826271 original size:8 final size:8
Alignment explanation
Indices: 4826258--4826302 Score: 51
Period size: 8 Copynumber: 5.9 Consensus size: 8
4826248 TTTTCTTTCT
4826258 TCTTCTTC
1 TCTTCTTC
4826266 TCTTCTTC
1 TCTTCTTC
*
4826274 CCTTCTTC
1 TCTTCTTC
4826282 TC-TCTT-
1 TCTTCTTC
4826288 T-TTCTTC
1 TCTTCTTC
4826295 TTCTTCTT
1 -TCTTCTT
4826303 TGCCGAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
6 5 0.16
7 4 0.13
8 17 0.55
9 5 0.16
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (8 bp):
TCTTCTTC
Found at i:4826271 original size:38 final size:38
Alignment explanation
Indices: 4826229--4826302 Score: 98
Period size: 38 Copynumber: 1.9 Consensus size: 38
4826219 CTGCCTACTC
4826229 CTTC-TCCTCCTCTCCT-TCTTTTTCTTTCTTCTTCTTCT
1 CTTCTTCC-CCTCTCCTCTCTTTTTC-TTCTTCTTCTTCT
* *
4826267 CTTCTTCCCTTCTTCTCTCTTTTTCTTCTTCTTCTT
1 CTTCTTCCCCTCTCCTCTCTTTTTCTTCTTCTTCTT
4826303 TGCCGAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 21 0.66
39 11 0.34
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (38 bp):
CTTCTTCCCCTCTCCTCTCTTTTTCTTCTTCTTCTTCT
Found at i:4826629 original size:13 final size:13
Alignment explanation
Indices: 4826611--4826638 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4826601 ACCAATTGTT
4826611 TTATGCATTTATA
1 TTATGCATTTATA
4826624 TTATGCATTTATA
1 TTATGCATTTATA
4826637 TT
1 TT
4826639 GAAATTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (13 bp):
TTATGCATTTATA
Found at i:4828585 original size:29 final size:29
Alignment explanation
Indices: 4828543--4828601 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
4828533 ATGACTTGAC
4828543 TACAAATAGTTTAAATTATGGTTTAATCA
1 TACAAATAGTTTAAATTATGGTTTAATCA
4828572 TACAAATAGTTTAAATTATGGTTTAATCA
1 TACAAATAGTTTAAATTATGGTTTAATCA
4828601 T
1 T
4828602 TCTATTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (29 bp):
TACAAATAGTTTAAATTATGGTTTAATCA
Found at i:4830396 original size:17 final size:16
Alignment explanation
Indices: 4830367--4830407 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
4830357 ACCGAGTAAA
4830367 TAAAAATATTTTATAT
1 TAAAAATATTTTATAT
*
4830383 TAAAAATATATT-TA-
1 TAAAAATATTTTATAT
4830397 TAAAAATATTT
1 TAAAAATATTT
4830408 CAAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TAAAAATATTTTATAT
Found at i:4841907 original size:23 final size:23
Alignment explanation
Indices: 4841881--4841934 Score: 56
Period size: 25 Copynumber: 2.3 Consensus size: 23
4841871 GACGGCTGGT
4841881 GAGAGGAAGACAAGTG-GAGAAAG
1 GAGAGGAA-ACAAGTGAGAGAAAG
* *
4841904 GAGATTGAAACACGTGTAGAGAAAG
1 GAGA-GGAAACAAGTG-AGAGAAAG
4841929 GAGAGG
1 GAGAGG
4841935 TGGGGAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 10 0.40
24 4 0.16
25 11 0.44
ACGTcount: A:0.44, C:0.06, G:0.41, T:0.09
Consensus pattern (23 bp):
GAGAGGAAACAAGTGAGAGAAAG
Found at i:4842771 original size:19 final size:20
Alignment explanation
Indices: 4842727--4842774 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4842717 TAAATTATTC
*
4842727 ATAAAATTTAGTTCAAATAT
1 ATAAAATATAGTTCAAATAT
* *
4842747 ATAAAATATATTTTAAATA-
1 ATAAAATATAGTTCAAATAT
4842766 ATAAAATAT
1 ATAAAATAT
4842775 GACCAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
ATAAAATATAGTTCAAATAT
Found at i:4847382 original size:27 final size:27
Alignment explanation
Indices: 4847352--4847504 Score: 91
Period size: 27 Copynumber: 5.7 Consensus size: 27
4847342 GCAATTTAAT
*
4847352 CAGAGTACTCTACAAAGGCAATCC-ATA
1 CAGAGTACTCCACAAAGGCAA-CCTATA
* *
4847379 CAGAGTA-TGCCACAAAAGCGACCTATA
1 CAGAGTACT-CCACAAAGGCAACCTATA
* * *
4847406 CAGAGTACGCCACAAAGGCGA-CTCATT
1 CAGAGTACTCCACAAAGGCAACCT-ATA
* *
4847433 CAGAGTA-TGCCACAAAGGCTATCTATA
1 CAGAGTACT-CCACAAAGGCAACCTATA
* ** ** *
4847460 CAAAGTA-TACCACAAAGGTGATTTATT
1 CAGAGTACT-CCACAAAGGCAACCTATA
*
4847487 CAGAGTACGCCACAAAGG
1 CAGAGTACTCCACAAAGG
4847505 TTGATAAGAT
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
26 5 0.05
27 95 0.93
28 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (27 bp):
CAGAGTACTCCACAAAGGCAACCTATA
Found at i:4847411 original size:54 final size:54
Alignment explanation
Indices: 4847352--4847477 Score: 146
Period size: 54 Copynumber: 2.3 Consensus size: 54
4847342 GCAATTTAAT
* *
4847352 CAGAGTACTCTACAAAGGCAA-TCCATACAGAGTATGCCACAAAAGCGACCTATA
1 CAGAGTACGCCACAAAGGCAACT-CATACAGAGTATGCCACAAAAGCGACCTATA
* * * * *
4847406 CAGAGTACGCCACAAAGGCGACTCATTCAGAGTATGCCACAAAGGCTATCTATA
1 CAGAGTACGCCACAAAGGCAACTCATACAGAGTATGCCACAAAAGCGACCTATA
* **
4847460 CAAAGTATACCACAAAGG
1 CAGAGTACGCCACAAAGG
4847478 TGATTTATTC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
54 60 0.98
55 1 0.02
ACGTcount: A:0.40, C:0.25, G:0.18, T:0.17
Consensus pattern (54 bp):
CAGAGTACGCCACAAAGGCAACTCATACAGAGTATGCCACAAAAGCGACCTATA
Found at i:4847488 original size:54 final size:54
Alignment explanation
Indices: 4847379--4847504 Score: 162
Period size: 54 Copynumber: 2.3 Consensus size: 54
4847369 GCAATCCATA
* * *
4847379 CAGAGTATGCCACAAAAGCGACCTATACAGAGTACGCCACAAAGGCGACTCATT
1 CAGAGTATGCCACAAAGGCGACCTATACAAAGTACACCACAAAGGCGACTCATT
* * * * * *
4847433 CAGAGTATGCCACAAAGGCTATCTATACAAAGTATACCACAAAGGTGATTTATT
1 CAGAGTATGCCACAAAGGCGACCTATACAAAGTACACCACAAAGGCGACTCATT
*
4847487 CAGAGTACGCCACAAAGG
1 CAGAGTATGCCACAAAGG
4847505 TTGATAAGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.18
Consensus pattern (54 bp):
CAGAGTATGCCACAAAGGCGACCTATACAAAGTACACCACAAAGGCGACTCATT
Found at i:4847505 original size:27 final size:27
Alignment explanation
Indices: 4847376--4847505 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
4847366 AAGGCAATCC
* *
4847376 ATACAGAGTATGCCACAAAAGCGACCT
1 ATACAGAGTATGCCACAAAGGTGACCT
* *
4847403 ATACAGAGTACGCCACAAAGGCGA-CT
1 ATACAGAGTATGCCACAAAGGTGACCT
* *
4847429 CATTCAGAGTATGCCACAAAGGCT-ATCT
1 -ATACAGAGTATGCCACAAAGG-TGACCT
* * **
4847457 ATACAAAGTATACCACAAAGGTGATTT
1 ATACAGAGTATGCCACAAAGGTGACCT
* *
4847484 ATTCAGAGTACGCCACAAAGGT
1 ATACAGAGTATGCCACAAAGGT
4847506 TGATAAGATG
Statistics
Matches: 86, Mismatches: 13, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
26 3 0.03
27 81 0.94
28 2 0.02
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (27 bp):
ATACAGAGTATGCCACAAAGGTGACCT
Found at i:4855691 original size:15 final size:15
Alignment explanation
Indices: 4855671--4855708 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4855661 TATAAAATGT
*
4855671 AATAAAATATTAAAA
1 AATAAAATACTAAAA
4855686 AAT-AAATACTAAAA
1 AATAAAATACTAAAA
4855700 AA-AAAATAC
1 AATAAAATAC
4855709 ATGTTAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (15 bp):
AATAAAATACTAAAA
Found at i:4856474 original size:51 final size:47
Alignment explanation
Indices: 4856376--4856476 Score: 114
Period size: 51 Copynumber: 2.1 Consensus size: 47
4856366 AATTATTTTT
* * *
4856376 ATTCAAATCAAATATTATTATTTACCGAATATCCGAATTCATGAAAA
1 ATTCAAATCAAATATTATTATCTACCGAATATCCAAATTCATAAAAA
*
4856423 ATTCAAATTCAAAATATTAAATTATCTACCGAATATTCAAATTACA-AAAAA
1 ATTCAAA-TC-AAATATT--ATTATCTACCGAATATCCAAATT-CATAAAAA
4856474 ATT
1 ATT
4856477 TGAACCCATT
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
47 7 0.16
48 2 0.04
49 7 0.16
51 27 0.60
52 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.34
Consensus pattern (47 bp):
ATTCAAATCAAATATTATTATCTACCGAATATCCAAATTCATAAAAA
Found at i:4857829 original size:20 final size:20
Alignment explanation
Indices: 4857805--4857850 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
4857795 TAATTTTAAG
4857805 AAATAAAAACACA-TTTATA
1 AAATAAAAACACATTTTATA
*
4857824 ATAAT-ATAACACATTTTATA
1 A-AATAAAAACACATTTTATA
4857844 AAATAAA
1 AAATAAA
4857851 TAGGCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAAAAACACATTTTATA
Found at i:4874435 original size:5 final size:5
Alignment explanation
Indices: 4874425--4874453 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
4874415 TGTTCATTGT
4874425 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
4874454 TCACAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:4876448 original size:28 final size:28
Alignment explanation
Indices: 4876390--4876448 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
4876380 TCCTGCAATT
* *
4876390 TTTGGCAGTAACACTACAAATTTTTGTA
1 TTTGGCAGTAACACTACAAATATCTGTA
* *
4876418 TTTGGCAGTTAACACTGCATATATCTG-A
1 TTTGGCAG-TAACACTACAAATATCTGTA
4876446 TTT
1 TTT
4876449 TGGTGATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
29 14 0.54
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (28 bp):
TTTGGCAGTAACACTACAAATATCTGTA
Found at i:4882165 original size:12 final size:12
Alignment explanation
Indices: 4882148--4882176 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4882138 TTATTAGGTT
4882148 ATGTGTTGAGAA
1 ATGTGTTGAGAA
4882160 ATGTGTTGAGAA
1 ATGTGTTGAGAA
4882172 ATGTG
1 ATGTG
4882177 CTCATATTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (12 bp):
ATGTGTTGAGAA
Found at i:4892640 original size:20 final size:20
Alignment explanation
Indices: 4892589--4892643 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
4892579 AATGACATCA
4892589 AAGCAACAAC-AAACAGTAG
1 AAGCAACAACAAAACAGTAG
* * * *
4892608 AAACAACAGCAAAATAGTGG
1 AAGCAACAACAAAACAGTAG
4892628 AAGCAACAACAAAACA
1 AAGCAACAACAAAACA
4892644 CAATAGTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.60, C:0.20, G:0.15, T:0.05
Consensus pattern (20 bp):
AAGCAACAACAAAACAGTAG
Found at i:4893124 original size:20 final size:20
Alignment explanation
Indices: 4893073--4893126 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4893063 AATGACATCA
*
4893073 AAGCAACAAC-AAACAGTAG
1 AAGCAACAACAAAATAGTAG
* * *
4893092 AAACAACAGCAAAATAGTGG
1 AAGCAACAACAAAATAGTAG
4893112 AAGCAACAACAAAAT
1 AAGCAACAACAAAAT
4893127 GCAATAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (20 bp):
AAGCAACAACAAAATAGTAG
Found at i:4893610 original size:20 final size:20
Alignment explanation
Indices: 4893559--4893612 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4893549 AATGACATCA
*
4893559 AAGCAACAAC-AAACAGTAG
1 AAGCAACAACAAAATAGTAG
* * *
4893578 AAACAACAGCAAAATAGTGG
1 AAGCAACAACAAAATAGTAG
4893598 AAGCAACAACAAAAT
1 AAGCAACAACAAAAT
4893613 GCAATAGTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.59, C:0.19, G:0.15, T:0.07
Consensus pattern (20 bp):
AAGCAACAACAAAATAGTAG
Done.