Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 89 of 135
Found at i:27666206 original size:18 final size:18
Alignment explanation
Indices: 27666165--27666223 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
27666155 AACATTATTA
*
27666165 AAAAATA-TAAAAATTATTT
1 AAAAATATTAAAAA-T-TGT
27666184 AAAAATATTAAAAAGTTGT
1 AAAAATATTAAAAA-TTGT
27666203 AAAAATATTAAAAATTGT
1 AAAAATATTAAAAATTGT
27666221 AAA
1 AAA
27666224 CTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 7 0.19
19 23 0.62
20 7 0.19
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
AAAAATATTAAAAATTGT
Found at i:27666282 original size:9 final size:10
Alignment explanation
Indices: 27666263--27666325 Score: 53
Period size: 9 Copynumber: 6.4 Consensus size: 10
27666253 ATCAAATATG
27666263 AAAATTATTT
1 AAAATTATTT
27666273 AAAA-TATTT
1 AAAATTATTT
* *
27666282 AAAAGT-TGT
1 AAAATTATTT
27666291 AAAATTATTT
1 AAAATTATTT
27666301 AAAA--ATTGT
1 AAAATTATT-T
27666310 AAAAATTATTTT
1 -AAAATTA-TTT
27666322 AAAA
1 AAAA
27666326 ATTAAGACAT
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.07
9 17 0.40
10 15 0.35
11 4 0.09
12 2 0.05
13 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (10 bp):
AAAATTATTT
Found at i:27666314 original size:20 final size:19
Alignment explanation
Indices: 27666272--27666328 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 19
27666262 GAAAATTATT
*
27666272 TAAAA-TATTTAAAAGTTG
1 TAAAATTATTTAAAAATTG
27666290 TAAAATTATTTAAAAATTG
1 TAAAATTATTTAAAAATTG
27666309 TAAAAATTATTTTAAAAATT
1 T-AAAATTA-TTTAAAAATT
27666329 AAGACATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
18 5 0.14
19 13 0.37
20 7 0.20
21 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TAAAATTATTTAAAAATTG
Found at i:27666638 original size:19 final size:18
Alignment explanation
Indices: 27666610--27666701 Score: 58
Period size: 19 Copynumber: 4.6 Consensus size: 18
27666600 CTTTTTATTA
*
27666610 TAATATTTTTTCAATTTTT
1 TAATAATTTTTCAA-TTTT
*
27666629 TAATAATTTTCTCATTTTT
1 TAATAATTTT-TCAATTTT
*
27666648 AGTAAATTTATAGTTTTCCAATTTT
1 --T-AA--TA-A-TTTTTCAATTTT
*
27666673 AAATAATTTTTACAATTTT
1 TAATAATTTTT-CAATTTT
27666692 TAATAATTTT
1 TAATAATTTT
27666702 CACATTATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 18
0.70 0.09 0.22
Matches are distributed among these distances:
18 4 0.07
19 30 0.53
20 5 0.09
21 1 0.02
22 4 0.07
24 2 0.04
25 7 0.12
26 4 0.07
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (18 bp):
TAATAATTTTTCAATTTT
Found at i:27670062 original size:32 final size:32
Alignment explanation
Indices: 27669995--27670063 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
27669985 ATAAAAGTAC
* * *
27669995 TAAAAAATAAACAAAAAAAATAAAGATAAAGA
1 TAAAAAATAAACAAAAAAAATAAAAACAAAAA
* *
27670027 TAAAAAATAAA-ACAACAAATAAAAACAAACAA
1 TAAAAAATAAACAAAAAAAATAAAAACAAA-AA
27670059 TAAAA
1 TAAAA
27670064 GGGACTGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (32 bp):
TAAAAAATAAACAAAAAAAATAAAAACAAAAA
Found at i:27670754 original size:17 final size:17
Alignment explanation
Indices: 27670732--27670765 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27670722 AATTATCATT
27670732 TTTCTCTCAAGTGGCCC
1 TTTCTCTCAAGTGGCCC
27670749 TTTCTCTCAAGTGGCCC
1 TTTCTCTCAAGTGGCCC
27670766 CTTGGTCGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.35, G:0.18, T:0.35
Consensus pattern (17 bp):
TTTCTCTCAAGTGGCCC
Found at i:27671610 original size:25 final size:26
Alignment explanation
Indices: 27671582--27671631 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
27671572 GGGTTAATGG
27671582 ACTTTAACTTATTTTTT-TTTATTGA
1 ACTTTAACTTATTTTTTGTTTATTGA
*
27671607 ACTTTAATTTATTTTTTGTTTATTG
1 ACTTTAACTTATTTTTTGTTTATTG
27671632 GTTTGGCTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (26 bp):
ACTTTAACTTATTTTTTGTTTATTGA
Found at i:27671622 original size:26 final size:25
Alignment explanation
Indices: 27671582--27671631 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
27671572 GGGTTAATGG
*
27671582 ACTTTAACTTATTTTTTTTTATTGA
1 ACTTTAACTTATTTTTGTTTATTGA
*
27671607 ACTTTAATTTATTTTTTGTTTATTG
1 ACTTTAACTTA-TTTTTGTTTATTG
27671632 GTTTGGCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (25 bp):
ACTTTAACTTATTTTTGTTTATTGA
Found at i:27672118 original size:50 final size:51
Alignment explanation
Indices: 27672063--27672413 Score: 253
Period size: 50 Copynumber: 6.9 Consensus size: 51
27672053 TTCAATCCGA
* * * *
27672063 TCCACTGCAACTTCAGGGATATAGGATTTTATGTTGTAACTTC-ATCTTGC
1 TCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCAATCTTGC
* * *
27672113 TCCACTACAACTCCTA-GG-TGATAAGATTTGCT-TCTGTAGCTTCAATC-CGAC
1 TCCACTACAACTTC-AGGGAT-ATAAGATTTGATGT-TGTAGCTTCAATCTTG-C
* * *
27672164 -CCACTGCAACTTCAAGGG-TATAAGATTTGGTGTCGTAGCTTC-ATCTTGC
1 TCCACTACAACTTC-AGGGATATAAGATTTGATGTTGTAGCTTCAATCTTGC
* * * * *
27672213 TCCATTGCAACTTCAGGGAGATAAAATATTTGCT-TCTGTAGCTTCAAT-TTGAC
1 TCCACTACAACTTCA-GG-GATATAAGATTTGATGT-TGTAGCTTCAATCTTG-C
* * * * * * * *
27672266 -CCATTACAACTTCAGGGGTATAGGATTTGGTTTTGTGGCTTCAAT-TCGA
1 TCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCAATCTTGC
*
27672315 TCCACTACAACTTCAGGGATATAAGATTTGATGTCGTAGCTTC-ATCTTGC
1 TCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCAATCTTGC
* * * *
27672365 TCCACTACGACTTTAGGGAGATAAAGATTT-ACTTTTGTAGCTTCAATCT
1 TCCACTACAACTTCAGGGATAT-AAGATTTGA-TGTTGTAGCTTCAATCT
27672414 GACCCAGTGC
Statistics
Matches: 239, Mismatches: 41, Indels: 40
0.75 0.13 0.12
Matches are distributed among these distances:
49 9 0.04
50 158 0.66
51 31 0.13
52 38 0.16
53 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (51 bp):
TCCACTACAACTTCAGGGATATAAGATTTGATGTTGTAGCTTCAATCTTGC
Found at i:27672307 original size:102 final size:100
Alignment explanation
Indices: 27672053--27672358 Score: 305
Period size: 100 Copynumber: 3.0 Consensus size: 100
27672043 CTAATATAGT
* * * ** *
27672053 TTCAATCCGATCCACTGCAACTTCAGGGATATAGGATTTTATGTTGTAACTTCATCTTGCTCCAC
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
*
27672118 TACAACTCCTAGGTGATAAGATTTGCTTCTGTAGC
66 TACAACTCCTAGGAGATAAGATTTGCTTCTGTAGC
* * * * *
27672153 TTCAATCCGACCCACTGCAACTTCAAGGGTATAAGATTTGGTGTCGTAGCTTCATCTTGCTCCAT
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
* * *
27672218 TGCAACTTC-AGGGAGATAAAATATTTGCTTCTGTAGC
66 TACAACTCCTA-GGAGAT--AAGATTTGCTTCTGTAGC
** * * * * *
27672255 TTCAATTTGACCCATTACAACTTCAGGGGTATAGGATTTGGTTTTGTGGCTTCAAT-TCGATCCA
1 TTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTTGTAGCTTC-ATCTTGCTCCA
* * *
27672319 CTACAACTTC-AGGGATATAAGATTTGATGTC-GTAGC
65 CTACAACTCCTA-GGAGATAAGATTTGCT-TCTGTAGC
27672355 TTCA
1 TTCA
27672359 TCTTGCTCCA
Statistics
Matches: 172, Mismatches: 29, Indels: 10
0.82 0.14 0.05
Matches are distributed among these distances:
99 1 0.01
100 85 0.49
101 2 0.01
102 82 0.48
103 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (100 bp):
TTCAATCCGACCCACTACAACTTCAGGGGTATAGGATTTGGTGTTGTAGCTTCATCTTGCTCCAC
TACAACTCCTAGGAGATAAGATTTGCTTCTGTAGC
Found at i:27672478 original size:151 final size:152
Alignment explanation
Indices: 27672147--27672459 Score: 432
Period size: 152 Copynumber: 2.1 Consensus size: 152
27672137 GATTTGCTTC
* * *
27672147 TGTAGCTTCAATCCGACCCACTGCAACTTCAAGGGTATAAGATTTGGTGTCGTAGCTTCATCTTG
1 TGTAGCTTCAATTCGATCCACTGCAACTTCAAGGGTATAAGATTTGATGTCGTAGCTTCATCTTG
* * * * * *
27672212 CTCCATTGCAACTTCAGGGAGATAAAATATTTGCTTCTGTAGCTTCAATTTGACCCATTACAACT
66 CTCCACTACAACTTCAGGGAGATAAAAGATTTACTTCTGTAGCTTCAATCTGACCCAGTACAACT
* *
27672277 TCAGGGGTATAGGATTTGGTTT
131 TCAAGGGTATAGGACTTGGTTT
* *
27672299 TGTGGCTTCAATTCGATCCACTACAACTTC-AGGGATATAAGATTTGATGTCGTAGCTTCATCTT
1 TGTAGCTTCAATTCGATCCACTGCAACTTCAAGGG-TATAAGATTTGATGTCGTAGCTTCATCTT
* * * *
27672363 GCTCCACTACGACTTTAGGGAGAT-AAAGATTTACTTTTGTAGCTTCAATCTGACCCAGTGCAAC
65 GCTCCACTACAACTTCAGGGAGATAAAAGATTTACTTCTGTAGCTTCAATCTGACCCAGTACAAC
* *
27672427 TTCAAGTGTATAGGCCTTGGTTT
130 TTCAAGGGTATAGGACTTGGTTT
27672450 TGTAGCTTCA
1 TGTAGCTTCA
27672460 TCTTGTTTTA
Statistics
Matches: 140, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
151 66 0.47
152 74 0.53
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (152 bp):
TGTAGCTTCAATTCGATCCACTGCAACTTCAAGGGTATAAGATTTGATGTCGTAGCTTCATCTTG
CTCCACTACAACTTCAGGGAGATAAAAGATTTACTTCTGTAGCTTCAATCTGACCCAGTACAACT
TCAAGGGTATAGGACTTGGTTT
Found at i:27672554 original size:101 final size:101
Alignment explanation
Indices: 27672303--27672554 Score: 247
Period size: 101 Copynumber: 2.5 Consensus size: 101
27672293 TGGTTTTGTG
* * * * *
27672303 GCTTCAATTCGATCCACTACAACTTCAGGGATATAAGA-TTTGATGTCGTAGCTTCATCTTGCTC
1 GCTTCAATCCGATCCACTACAACTTCAAGGATATAGGACTTT-ATATTGTAGCTTCATCTTGCTC
* * *
27672367 CACTACGACTTTAGGGAGATAAAGATTTACTTTTGTA
65 CACTACAACTTTAGAGAGATAAAGATTTACTTTCGTA
* * * * * ** * * *
27672404 GCTTCAATCTGACCCAGTGCAACTTCAAGTG-TATAGGCCTTGGTTTTGTAGCTTCATCTTGTTT
1 GCTTCAATCCGATCCACTACAACTTCAAG-GATATAGGACTTTATATTGTAGCTTCATCTTGCTC
* * *
27672468 TACTGCAACTTTAGAGAGATAAATATTTACTTTCGTA
65 CACTACAACTTTAGAGAGATAAAGATTTACTTTCGTA
* * * *
27672505 GTTTCAATCCGATTCACTATAACTTTAAGGATATAGGACTTTATATTGTA
1 GCTTCAATCCGATCCACTACAACTTCAAGGATATAGGACTTTATATTGTA
27672555 TTGATCCCTC
Statistics
Matches: 116, Mismatches: 32, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
100 1 0.01
101 112 0.97
102 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (101 bp):
GCTTCAATCCGATCCACTACAACTTCAAGGATATAGGACTTTATATTGTAGCTTCATCTTGCTCC
ACTACAACTTTAGAGAGATAAAGATTTACTTTCGTA
Found at i:27677725 original size:23 final size:23
Alignment explanation
Indices: 27677721--27677798 Score: 138
Period size: 23 Copynumber: 3.4 Consensus size: 23
27677711 ACAGTGCAAT
*
27677721 TCAGTAGGCGTACATAGCACAAA
1 TCAGTAGGCGCACATAGCACAAA
27677744 TCAGTAGGCGCACATAGCACAAA
1 TCAGTAGGCGCACATAGCACAAA
*
27677767 TCAGTAGGCGCACATAGCGCAAA
1 TCAGTAGGCGCACATAGCACAAA
27677790 TCAGTAGGC
1 TCAGTAGGC
27677799 ACACGAGGTG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (23 bp):
TCAGTAGGCGCACATAGCACAAA
Found at i:27677817 original size:23 final size:23
Alignment explanation
Indices: 27677791--27677844 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
27677781 TAGCGCAAAT
* *
27677791 CAGTAGGCACACGAGGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
27677814 CAGTAAGCACATGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
27677837 CAGTAAGC
1 CAGTAAGC
27677845 GCGCTAGCGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.39, C:0.20, G:0.30, T:0.11
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:27677818 original size:46 final size:46
Alignment explanation
Indices: 27677699--27677802 Score: 145
Period size: 46 Copynumber: 2.3 Consensus size: 46
27677689 TCTGGGGAAA
* ** * *
27677699 CAGTAGGCACACACAGTGCAATTCAGTAGGCGTACATAGCACAAAT
1 CAGTAGGCACACATAGCACAAATCAGTAGGCGCACATAGCACAAAT
* *
27677745 CAGTAGGCGCACATAGCACAAATCAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACATAGCACAAATCAGTAGGCGCACATAGCACAAAT
27677791 CAGTAGGCACAC
1 CAGTAGGCACAC
27677803 GAGGTGCGAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.37, C:0.26, G:0.23, T:0.14
Consensus pattern (46 bp):
CAGTAGGCACACATAGCACAAATCAGTAGGCGCACATAGCACAAAT
Found at i:27678473 original size:11 final size:11
Alignment explanation
Indices: 27678446--27678476 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
27678436 TCAGTCTCTA
27678446 ATGATTTTTCT
1 ATGATTTTTCT
27678457 AT-ATTTTTCT
1 ATGATTTTTCT
27678467 ATGATTTTTC
1 ATGATTTTTC
27678477 AAATTCAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.19, C:0.10, G:0.06, T:0.65
Consensus pattern (11 bp):
ATGATTTTTCT
Found at i:27683856 original size:20 final size:20
Alignment explanation
Indices: 27683815--27683871 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 20
27683805 AAGTACTAAA
*
27683815 AAAATAAACAAAATAAAGAT
1 AAAATAAACAAAATAAAAAT
*
27683835 AAAATAAA-TAAATAAATAAT
1 AAAATAAACAAAATAAA-AAT
*
27683855 AAAA-CAAC-AAATAAAAA
1 AAAATAAACAAAATAAAAA
27683872 CAAATAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 14 0.44
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAATAAACAAAATAAAAAT
Found at i:27685442 original size:26 final size:26
Alignment explanation
Indices: 27685402--27685456 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
27685392 TCTGGGTTAA
*
27685402 TGGACTTTAACTTATTTTTTGTTTAT
1 TGGACTTTAACTTATGTTTTGTTTAT
* *
27685428 TGGATTTTAATTTATGTTTTGTTTAT
1 TGGACTTTAACTTATGTTTTGTTTAT
27685454 TGG
1 TGG
27685457 TTGGGCTGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.18, C:0.04, G:0.16, T:0.62
Consensus pattern (26 bp):
TGGACTTTAACTTATGTTTTGTTTAT
Found at i:27685668 original size:21 final size:21
Alignment explanation
Indices: 27685642--27685682 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
27685632 ACACCAACTC
*
27685642 AATTAACAACATTGTTAATAT
1 AATTAACAACATTATTAATAT
27685663 AATTAACAACATTATTAATA
1 AATTAACAACATTATTAATA
27685683 CTAGAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (21 bp):
AATTAACAACATTATTAATAT
Found at i:27687730 original size:15 final size:15
Alignment explanation
Indices: 27687712--27687769 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
27687702 ATATTCAATT
27687712 TTTACTTTTTATTTT-
1 TTTA-TTTTTATTTTA
* *
27687727 TTTATTTTTCTTTTC
1 TTTATTTTTATTTTA
27687742 TTTATTTATT-TTTTA
1 TTTATTT-TTATTTTA
27687757 TTTACTTTTTATT
1 TTTA-TTTTTATT
27687770 CTCGCCTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
14 9 0.24
15 21 0.57
16 7 0.19
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTATTTTTATTTTA
Found at i:27687751 original size:4 final size:4
Alignment explanation
Indices: 27687719--27687873 Score: 59
Period size: 4 Copynumber: 37.0 Consensus size: 4
27687709 ATTTTTACTT
* * *
27687719 TTTA TTTT TTTA TTT- TTCT- TTTC TTTA TTTA TTT- TTTA TTTA CTT-
1 TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * *
27687764 TTTA TTCTCGCC TTTA TTTAA TTTA TTTA TTTTT TTTA TGTA TTTTA GTTCTT
1 TTTA TT-T---A TTTA TTT-A TTTA TTTA -TTTA TTTA TTTA -TTTA -TT-TA
* * ** *
27687817 TTTA TGTTA TTTT TTTG CCT- TTTA TTTA TTTA TTTA TTGTT TTTA TTTA
1 TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA
27687866 TTTA TTTA
1 TTTA TTTA
27687874 ATTTTATGCC
Statistics
Matches: 114, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
3 9 0.08
4 79 0.69
5 22 0.19
6 1 0.01
7 1 0.01
8 2 0.02
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:27687755 original size:34 final size:33
Alignment explanation
Indices: 27687712--27687800 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
27687702 ATATTCAATT
* * ***
27687712 TTTACTTTTTATTTTTTTATTTTTCTTTTCTTTA
1 TTTATTTTTTATTTTTTT-TTATTCTCGCCTTTA
*
27687746 TTTATTTTTTATTTACTTTTTATTCTCGCCTTTA
1 TTTATTTTTTATTT-TTTTTTATTCTCGCCTTTA
27687780 TTTAATTTATTTATTTTTTTT
1 TTT-ATTT-TTTATTTTTTTT
27687801 ATGTATTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
34 27 0.60
35 11 0.24
36 7 0.16
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTATTTTTTATTTTTTTTTATTCTCGCCTTTA
Found at i:27687808 original size:21 final size:21
Alignment explanation
Indices: 27687784--27687873 Score: 73
Period size: 21 Copynumber: 4.4 Consensus size: 21
27687774 CCTTTATTTA
*
27687784 ATTTATTTATTTTTTTTATGT
1 ATTTATTTATTCTTTTTATGT
27687805 A--T-TTTAGTTCTTTTTATGTT
1 ATTTATTTA-TTCTTTTTATG-T
* * *
27687825 ATTT-TTT-TGCCTTTTATTT
1 ATTTATTTATTCTTTTTATGT
* *
27687844 ATTTATTTATTGTTTTTATTT
1 ATTTATTTATTCTTTTTATGT
27687865 ATTTATTTA
1 ATTTATTTA
27687874 ATTTTATGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
18 4 0.07
19 16 0.29
20 13 0.23
21 19 0.34
22 4 0.07
ACGTcount: A:0.18, C:0.03, G:0.06, T:0.73
Consensus pattern (21 bp):
ATTTATTTATTCTTTTTATGT
Found at i:27687810 original size:22 final size:22
Alignment explanation
Indices: 27687776--27687819 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
27687766 TATTCTCGCC
* *
27687776 TTTATTTAATTTATTTATTTTT
1 TTTATGTAATTTAGTTATTTTT
* *
27687798 TTTATGTATTTTAGTTCTTTTT
1 TTTATGTAATTTAGTTATTTTT
27687820 ATGTTATTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTATGTAATTTAGTTATTTTT
Found at i:27692718 original size:42 final size:42
Alignment explanation
Indices: 27692665--27692761 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
27692655 AGGATTAGTA
*
27692665 TAAATGGAAGACTCATGTCTCAAGATAAGAATTAGAATATGAT
1 TAAA-GGAAGACTCATGTCTCAAGATAAGAATAAGAATATGAT
** * *
27692708 TAAAGGAAGACTCATGTCTTGATATGAGAATAAGAATATGAT
1 TAAAGGAAGACTCATGTCTCAAGATAAGAATAAGAATATGAT
27692750 TAAAGGAAGACT
1 TAAAGGAAGACT
27692762 TATGACACGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 45 0.92
43 4 0.08
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (42 bp):
TAAAGGAAGACTCATGTCTCAAGATAAGAATAAGAATATGAT
Found at i:27697705 original size:22 final size:19
Alignment explanation
Indices: 27697675--27697718 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
27697665 ACTTTCATAA
27697675 TTAACTTAATTAATCACTTAT
1 TTAACTTAATTAATC-C-TAT
27697696 TTAACCTTAATTAATCCTAT
1 TTAA-CTTAATTAATCCTAT
27697716 TTA
1 TTA
27697719 TATTTAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.27
21 5 0.23
22 11 0.50
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAACTTAATTAATCCTAT
Found at i:27700063 original size:69 final size:65
Alignment explanation
Indices: 27699940--27700079 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 65
27699930 TCATTCCTTT
* *
27699940 GTTCTTATCCAATTTGAAACATTTCATTTATACTCATACACAATTAATCATTCTTAAATTCATTC
1 GTTCTTATCCAATTTGAAACATTTCATTCATACTCATACACAATCAATCATTCTTAAATTCATTC
* *
27700005 GTTCTTGTCCAATTTGACAAACATTT-ATTCATACTTATACCATACAATCAATCATTCTTAAATT
1 GTTCTTATCCAATTTG--AAACATTTCATTCATACTCATA-C--ACAATCAATCATTCTTAAATT
*
27700069 CATTT
61 CATTC
27700074 GTTCTT
1 GTTCTT
27700080 TGGATCTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 6
0.86 0.07 0.08
Matches are distributed among these distances:
65 15 0.23
66 11 0.17
67 9 0.14
69 30 0.46
ACGTcount: A:0.32, C:0.20, G:0.04, T:0.44
Consensus pattern (65 bp):
GTTCTTATCCAATTTGAAACATTTCATTCATACTCATACACAATCAATCATTCTTAAATTCATTC
Found at i:27717486 original size:17 final size:19
Alignment explanation
Indices: 27717464--27717500 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
27717454 TTAAAAATCT
27717464 GAAAAAGAA-AACA-ATTA
1 GAAAAAGAACAACAGATTA
*
27717481 GAAAAATAACAACAGATTA
1 GAAAAAGAACAACAGATTA
27717500 G
1 G
27717501 TAAAGATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.65, C:0.08, G:0.14, T:0.14
Consensus pattern (19 bp):
GAAAAAGAACAACAGATTA
Found at i:27727405 original size:97 final size:98
Alignment explanation
Indices: 27727154--27727438 Score: 328
Period size: 101 Copynumber: 2.9 Consensus size: 98
27727144 CATAGTAGCC
* *
27727154 AATCTTTATCTCTGTGAAGTTGCAGTAGAGCAAGATGAAGCTACGACAACAAATCCTATACC-CT
1 AATCTTTATCTCTCTGAAGTTGAAGTAGAGCAAGATGAAGCTACGACAACAAATCCTATACCTC-
* *
27727218 TGAAGTTACAATAGGTCGGATTAAAGCTATAAAAGCA
65 TGAAGTTGCAATAGGTCGGATT--A-CTACAAAAGCA
* * * * *
27727255 AATCTTTATCTCCCTAAAGTT-ACAGTGGAGCAACATGAAGCTACGACATCAAATCCTATACCTC
1 AATCTTTATCTCTCTGAAGTTGA-AGTAGAGCAAGATGAAGCTACGACAACAAATCCTATACCTC
* *
27727319 TGAAGTTGCAGTAGGTCGGA-T-CTACAGAAGCA
65 TGAAGTTGCAATAGGTCGGATTACTACAAAAGCA
* * * *
27727351 AATCTTTTATCTCTTTGAAGTTGAAGTAGAGCAAGATGAAGCTACAACACCAAATCCTATATCTC
1 AATC-TTTATCTCTCTGAAGTTGAAGTAGAGCAAGATGAAGCTACGACAACAAATCCTATACCTC
*
27727416 TGAAGTTGTAAT-GGATCGGATTA
65 TGAAGTTGCAATAGG-TCGGATTA
27727439 AGACTACGAT
Statistics
Matches: 156, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
96 15 0.10
97 65 0.42
98 2 0.01
100 1 0.01
101 72 0.46
102 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (98 bp):
AATCTTTATCTCTCTGAAGTTGAAGTAGAGCAAGATGAAGCTACGACAACAAATCCTATACCTCT
GAAGTTGCAATAGGTCGGATTACTACAAAAGCA
Found at i:27727891 original size:14 final size:14
Alignment explanation
Indices: 27727872--27727906 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27727862 TGTTACTGCA
*
27727872 AACCCATTTACCCT
1 AACCCAATTACCCT
27727886 AACCCAATTACCCT
1 AACCCAATTACCCT
*
27727900 AGCCCAA
1 AACCCAA
27727907 ACCAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.43, G:0.03, T:0.20
Consensus pattern (14 bp):
AACCCAATTACCCT
Found at i:27729129 original size:18 final size:18
Alignment explanation
Indices: 27729096--27729130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27729086 TTTCTGCTTT
*
27729096 TTTTATTTTCACTTTAAA
1 TTTTATTTTAACTTTAAA
*
27729114 TTTTATTTTAATTTTAA
1 TTTTATTTTAACTTTAA
27729131 TTTAATCCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTATTTTAACTTTAAA
Found at i:27729306 original size:11 final size:11
Alignment explanation
Indices: 27729290--27729323 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
27729280 TGTTCTTTTA
27729290 TTTATTTATTT
1 TTTATTTATTT
*
27729301 TTTATTTACTT
1 TTTATTTATTT
27729312 TTTATGTTATTT
1 TTTAT-TTATTT
27729324 ATTTTCTCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (11 bp):
TTTATTTATTT
Found at i:27729342 original size:4 final size:4
Alignment explanation
Indices: 27729286--27729327 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
27729276 TTGTTGTTCT
*
27729286 TTTA TTTA TTTA TTT- TTTA TTTA CTT- TTTA TGTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTT
27729328 TCTCGCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 5 0.15
4 24 0.73
5 4 0.12
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:27729360 original size:13 final size:13
Alignment explanation
Indices: 27729344--27729385 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
27729334 CTTTATTTAA
27729344 TTTATTTATTGTT
1 TTTATTTATTGTT
* *
27729357 TTTATGTATTTTT
1 TTTATTTATTGTT
27729370 TTTATGTTA-TGTT
1 TTTAT-TTATTGTT
27729383 TTT
1 TTT
27729386 TTGCCTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 22 0.92
14 2 0.08
ACGTcount: A:0.14, C:0.00, G:0.10, T:0.76
Consensus pattern (13 bp):
TTTATTTATTGTT
Found at i:27729370 original size:56 final size:54
Alignment explanation
Indices: 27729286--27729412 Score: 154
Period size: 56 Copynumber: 2.3 Consensus size: 54
27729276 TTGTTGTTCT
*
27729286 TTTATTTATTTA-TTTTTTATTTA-CTTTTTATGTTAT-TTATTTTCTCGCC-TTTA
1 TTTATTTATTTATTTTTTTATGTATCTTTTTATGTTATGTT-TTTT-T-GCCTTTTA
*
27729339 TTTAATTTATTTATTGTTTTTATGTATTTTTTTTATGTTATGTTTTTTTGCCTTTTA
1 TTT-ATTTATTTATT-TTTTTATGTA-TCTTTTTATGTTATGTTTTTTTGCCTTTTA
27729396 TTTATTTATTTATTTTT
1 TTTATTTATTTATTTTT
27729413 ATGCCCTACA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
53 3 0.05
54 9 0.14
55 4 0.06
56 23 0.35
57 8 0.12
58 16 0.25
59 2 0.03
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (54 bp):
TTTATTTATTTATTTTTTTATGTATCTTTTTATGTTATGTTTTTTTGCCTTTTA
Found at i:27729411 original size:26 final size:26
Alignment explanation
Indices: 27729258--27729452 Score: 63
Period size: 27 Copynumber: 7.3 Consensus size: 26
27729248 AATATTTAAT
* * *
27729258 TTTTACTTTTTTTA-TTATTTGTTGTTC
1 TTTTA-TTTATTTATTTATTTTTTG-CC
*
27729285 TTTTATTTATTTATTT-TTTATTT-AC
1 TTTTATTTATTTATTTATTT-TTTGCC
*
27729310 --TT-TTTATGTTATTTATTTTCTCGCC
1 TTTTATTTAT-TTATTTATTTT-TTGCC
27729335 -TTTATTTAATTTATTTATTGTTTT---
1 TTTTATTT-ATTTATTTATT-TTTTGCC
* *
27729359 TATGTATTTTTTTTATGTTATGTTTTTTTGCC
1 T-TTTA-TTTATTTAT-TTA--TTTT-TTGCC
27729391 TTTTATTTATTTATTTATTTTTATGCC
1 TTTTATTTATTTATTTATTTTT-TGCC
* ** *
27729418 CTACA-TTATTGT-TTTGTTTTTTTGCC
1 TTTTATTTATT-TATTT-ATTTTTTGCC
27729444 TTTTATTTA
1 TTTTATTTA
27729453 ATCACATATT
Statistics
Matches: 127, Mismatches: 17, Indels: 48
0.66 0.09 0.25
Matches are distributed among these distances:
22 5 0.04
23 9 0.07
24 4 0.03
25 2 0.02
26 35 0.28
27 47 0.37
28 6 0.05
29 7 0.06
30 8 0.06
31 3 0.02
32 1 0.01
ACGTcount: A:0.15, C:0.08, G:0.07, T:0.70
Consensus pattern (26 bp):
TTTTATTTATTTATTTATTTTTTGCC
Found at i:27729618 original size:20 final size:21
Alignment explanation
Indices: 27729574--27729619 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27729564 GCCATGATTA
* *
27729574 TTATTGCTAGTTTATTTATTG
1 TTATTACTAGTTTATTTAGTG
*
27729595 TTATTACTATTTTATTT-GTG
1 TTATTACTAGTTTATTTAGTG
27729615 TTATT
1 TTATT
27729620 TGTGATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.20, C:0.04, G:0.11, T:0.65
Consensus pattern (21 bp):
TTATTACTAGTTTATTTAGTG
Found at i:27742912 original size:55 final size:55
Alignment explanation
Indices: 27742828--27742934 Score: 214
Period size: 55 Copynumber: 1.9 Consensus size: 55
27742818 TAGGTTGAAA
27742828 AACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTAAGGTTGAAACACTTC
1 AACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTAAGGTTGAAACACTTC
27742883 AACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTAAGGTTGAAACAC
1 AACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTAAGGTTGAAACAC
27742935 CTTATTCTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (55 bp):
AACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTAAGGTTGAAACACTTC
Found at i:27742959 original size:49 final size:48
Alignment explanation
Indices: 27742819--27742948 Score: 179
Period size: 55 Copynumber: 2.5 Consensus size: 48
27742809 GTCTATTTAT
*
27742819 AGGTTGAAAAACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTA
1 AGGTTGAAACACCTTATTCTAATCAATAAC-GATAGAAGTAATGTCGTA
27742868 AGGTTGAAACACTTCAACCTTATTCTAATCAATAACTGATAGAAGTAATGTCGTA
1 AGGTTG-AA-A---C-ACCTTATTCTAATCAATAAC-GATAGAAGTAATGTCGTA
27742923 AGGTTGAAACACCTTATTCTAATCAA
1 AGGTTGAAACACCTTATTCTAATCAA
27742949 AATAAAATAG
Statistics
Matches: 74, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
49 22 0.30
50 3 0.04
51 1 0.01
53 1 0.01
54 2 0.03
55 45 0.61
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (48 bp):
AGGTTGAAACACCTTATTCTAATCAATAACGATAGAAGTAATGTCGTA
Found at i:27747519 original size:23 final size:23
Alignment explanation
Indices: 27747493--27747545 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
27747483 TAAATTTTAT
27747493 TTTTATTTTATTTTATCACTACA
1 TTTTATTTTATTTTATCACTACA
* *
27747516 TTTTATTTTATTTTATCATTATA
1 TTTTATTTTATTTTATCACTACA
27747539 TTTTATT
1 TTTTATT
27747546 AGTCTTATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATTTTATTTTATCACTACA
Found at i:27747535 original size:18 final size:18
Alignment explanation
Indices: 27747486--27747545 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 18
27747476 TTCTATTTAA
27747486 ATTTTATTTT-T-ATTTT
1 ATTTTATTTTATCATTTT
**
27747502 ATTTTATCACTA-CATTTT
1 ATTTTAT-TTTATCATTTT
*
27747520 ATTTTATTTTATCATTAT
1 ATTTTATTTTATCATTTT
27747538 ATTTTATT
1 ATTTTATT
27747546 AGTCTTATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 7 0.20
17 3 0.09
18 25 0.71
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATTTTATCATTTT
Found at i:27747584 original size:1 final size:1
Alignment explanation
Indices: 27747578--27747603 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
27747568 ACACAATAAA
27747578 CCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCC
27747604 AAAGCGAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:27782487 original size:14 final size:15
Alignment explanation
Indices: 27782448--27782487 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
27782438 TTTCTTCTAT
27782448 TAATCCTTTTTCAAA
1 TAATCCTTTTTCAAA
27782463 TAATCCTTTTTCAAA
1 TAATCCTTTTTCAAA
*
27782478 TAATTCTTTT
1 TAATCCTTTT
27782488 ATTTGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATCCTTTTTCAAA
Found at i:27816060 original size:15 final size:16
Alignment explanation
Indices: 27816030--27816060 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27816020 TATTAGAATT
27816030 TAATTAAAGTGATAAA
1 TAATTAAAGTGATAAA
27816046 TAATTAAAG-GATAAA
1 TAATTAAAGTGATAAA
27816061 ACAAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (16 bp):
TAATTAAAGTGATAAA
Found at i:27819602 original size:33 final size:31
Alignment explanation
Indices: 27819563--27819625 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
27819553 TATATCAAAC
27819563 AATAAATAATATTTAAAAACTTTTTTTATCTTA
1 AATAAATAATATTT--AAACTTTTTTTATCTTA
* * *
27819596 AATAAATATTATTTTAATTTTTTTTATCTT
1 AATAAATAATATTTAAACTTTTTTTATCTT
27819626 TTGAACCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 14 0.52
33 13 0.48
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (31 bp):
AATAAATAATATTTAAACTTTTTTTATCTTA
Found at i:27830784 original size:7 final size:7
Alignment explanation
Indices: 27830772--27830834 Score: 53
Period size: 7 Copynumber: 9.3 Consensus size: 7
27830762 ACGGTCAAAG
27830772 TCAACGA
1 TCAACGA
27830779 TCAACGA
1 TCAACGA
*
27830786 TCAAAG-
1 TCAACGA
*
27830792 TCAACGG
1 TCAACGA
27830799 TCAAC-A
1 TCAACGA
*
27830805 GTCAAAG-
1 -TCAACGA
27830812 TCAACGA
1 TCAACGA
27830819 TCAAC-A
1 TCAACGA
27830825 GTCAACGA
1 -TCAACGA
27830833 TC
1 TC
27830835 GGTCAACTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
6 11 0.24
7 33 0.73
8 1 0.02
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (7 bp):
TCAACGA
Found at i:27830824 original size:20 final size:20
Alignment explanation
Indices: 27830765--27830829 Score: 105
Period size: 20 Copynumber: 3.2 Consensus size: 20
27830755 AAAGTTAACG
27830765 GTCAAAGTCAACGATCAAC-
1 GTCAAAGTCAACGATCAACA
*
27830784 GATCAAAGTCAACGGTCAACA
1 G-TCAAAGTCAACGATCAACA
27830805 GTCAAAGTCAACGATCAACA
1 GTCAAAGTCAACGATCAACA
27830825 GTCAA
1 GTCAA
27830830 CGATCGGTCA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.17, T:0.15
Consensus pattern (20 bp):
GTCAAAGTCAACGATCAACA
Found at i:27833484 original size:34 final size:34
Alignment explanation
Indices: 27833441--27833555 Score: 160
Period size: 34 Copynumber: 3.4 Consensus size: 34
27833431 GTTAACTATT
*
27833441 CAACACACCAAATACTTC-TAAGAGCTAGTCCATC
1 CAACACACCAAATGC-TCATAAGAGCTAGTCCATC
* * * *
27833475 CAACACACCAAATGCTCGTAGGAGCTGGTCTATC
1 CAACACACCAAATGCTCATAAGAGCTAGTCCATC
*
27833509 CAACACACCAAATGCTCATAAGACCTAGTCCATC
1 CAACACACCAAATGCTCATAAGAGCTAGTCCATC
27833543 CAACACACCAAAT
1 CAACACACCAAAT
27833556 CACTGTAACA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
33 2 0.03
34 69 0.97
ACGTcount: A:0.37, C:0.33, G:0.11, T:0.18
Consensus pattern (34 bp):
CAACACACCAAATGCTCATAAGAGCTAGTCCATC
Found at i:27849350 original size:50 final size:49
Alignment explanation
Indices: 27849296--27849553 Score: 180
Period size: 50 Copynumber: 5.2 Consensus size: 49
27849286 GTCGTTGCAA
* *
27849296 CCTCAATCCTTCCCATCACATCTTCTAAGGTACCAGGTTCACTGTTGCGG
1 CCTCAA-CCTTCCCATCATATCTTCTAAGGTACCAGGTTCACCGTTGCGG
* * * * * *
27849346 CCTCAACCTTTCCCTTCATATCTTC-ATGGTACCA-GATCTGCCATTGTGG
1 CCTCAACC-TTCCCATCATATCTTCTAAGGTACCAGGTTC-ACCGTTGCGG
* * * * * * * *
27849395 CCTCGATCTTTCCCATCATGTCTTTTACGGTACCGGGTTCGCTGTTGCGG
1 CCTC-AACCTTCCCATCATATCTTCTAAGGTACCAGGTTCACCGTTGCGG
* * * * * * * *
27849445 CCTCAACCTTTCCCTTCATACCTTC-ATGGTACTAGATCCACCATTGCGA
1 CCTCAACC-TTCCCATCATATCTTCTAAGGTACCAGGTTCACCGTTGCGG
* * * * *
27849494 CCTCTATCCTTCCCATCACATCTTCTAAGGTACTAGGTTCGCCGTTGAGG
1 CCTC-AACCTTCCCATCATATCTTCTAAGGTACCAGGTTCACCGTTGCGG
27849544 CCTCAACCTT
1 CCTCAACCTT
27849554 TCCCTCCGTA
Statistics
Matches: 154, Mismatches: 46, Indels: 17
0.71 0.21 0.08
Matches are distributed among these distances:
48 3 0.02
49 72 0.47
50 76 0.49
51 3 0.02
ACGTcount: A:0.18, C:0.34, G:0.16, T:0.33
Consensus pattern (49 bp):
CCTCAACCTTCCCATCATATCTTCTAAGGTACCAGGTTCACCGTTGCGG
Found at i:27849382 original size:99 final size:99
Alignment explanation
Indices: 27849266--27849605 Score: 380
Period size: 99 Copynumber: 3.4 Consensus size: 99
27849256 TTTCTCCTCG
* * * *
27849266 ATCTTCATGGTTCCAGATTCGTCGTTGCAACCTCAATCCTTCCCATCACATCTTCTAAGGTACCA
1 ATCTTCATGGTACCAGATTCGCCATTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCA
*
27849331 GGTTCACTGTTGCGGCCTCAACCTTTCCCTTCAT
66 GGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCAT
* * * * ** * *
27849365 ATCTTCATGGTACCAGA-TCTGCCATTGTGGCCTCGATCTTTCCCATCATGTCTTTTACGGTACC
1 ATCTTCATGGTACCAGATTC-GCCATTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACC
*
27849429 GGGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCAT
65 AGGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCAT
* * * * * *
27849464 ACCTTCATGGTACTAGATCCACCATTGCGACCTCTATCCTTCCCATCACATCTTCTAAGGTACTA
1 ATCTTCATGGTACCAGATTCGCCATTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCA
* * * *
27849529 GGTTCGCCGTTGAGGCCTCAACCTTTCCCTCCGT
66 GGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCAT
* ** * *
27849563 AT-TTCCAGGGTATAAGATTCGTCATTGCGGCCTCAAT-CTTCCC
1 ATCTT-CATGGTACCAGATTCGCCATTGCGACCTCAATCCTTCCC
27849606 TTTCAAACCT
Statistics
Matches: 197, Mismatches: 41, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
98 10 0.05
99 186 0.94
100 1 0.01
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (99 bp):
ATCTTCATGGTACCAGATTCGCCATTGCGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCA
GGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCAT
Found at i:27849398 original size:49 final size:49
Alignment explanation
Indices: 27849230--27849607 Score: 212
Period size: 49 Copynumber: 7.7 Consensus size: 49
27849220 CTTCGTGATT
* ** * *
27849230 CCAGATTCGCCAATGCGGCCTCAATTTTTCTCC-TC-GATCTTCATGGTT
1 CCAGATTCGCCATTGCGGCCTCAACCTTTC-CCTTCATATCTTCATGGTA
* * ** * * *
27849278 CCAGATTCGTCGTTGCAACCTCAATCC-TTCCCATCACATCTTCTAAGGTA
1 CCAGATTCGCCATTGCGGCCTCAA-CCTTTCCCTTCATATCTTC-ATGGTA
* * **
27849328 CCAGGTTCACTGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA
1 CCAGATTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA
* * * * * * *
27849377 CCAGA-TCTGCCATTGTGGCCTCGATCTTTCCCATCATGTCTTTTACGGTA
1 CCAGATTC-GCCATTGCGGCCTCAACCTTTCCCTTCATATC-TTCATGGTA
* * ** *
27849427 CCGGGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATACCTTCATGGTA
1 CCAGATTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA
* * * * * * * *
27849476 CTAGATCCACCATTGCGACCTCTATCC-TTCCCATCACATCTTCTAAGGTA
1 CCAGATTCGCCATTGCGGCCTC-AACCTTTCCCTTCATATCTTC-ATGGTA
* * * * * * *
27849526 CTAGGTTCGCCGTTGAGGCCTCAACCTTTCCCTCCGTAT-TTCCAGGGTA
1 CCAGATTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTT-CATGGTA
** * *
27849575 TAAGATTCGTCATTGCGGCCTCAATC-TTCCCTT
1 CCAGATTCGCCATTGCGGCCTCAACCTTTCCCTT
27849608 TCAAACCTAT
Statistics
Matches: 243, Mismatches: 75, Indels: 24
0.71 0.22 0.07
Matches are distributed among these distances:
47 2 0.01
48 32 0.13
49 104 0.43
50 103 0.42
51 2 0.01
ACGTcount: A:0.18, C:0.33, G:0.16, T:0.33
Consensus pattern (49 bp):
CCAGATTCGCCATTGCGGCCTCAACCTTTCCCTTCATATCTTCATGGTA
Found at i:27873312 original size:21 final size:21
Alignment explanation
Indices: 27873283--27873326 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
27873273 AGTAAGTTAA
* *
27873283 AAATTAAAAAGAAAAATAAAT
1 AAATCAAAAAGAAAAACAAAT
* *
27873304 AAATCAAAATGTAAAACAAAT
1 AAATCAAAAAGAAAAACAAAT
27873325 AA
1 AA
27873327 TTTCACAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (21 bp):
AAATCAAAAAGAAAAACAAAT
Found at i:27878862 original size:7 final size:7
Alignment explanation
Indices: 27878850--27878956 Score: 54
Period size: 7 Copynumber: 14.1 Consensus size: 7
27878840 AAACAAATTT
27878850 TAAAAAA
1 TAAAAAA
27878857 TAAAAAA
1 TAAAAAA
* **
27878864 TATATGA
1 TAAAAAA
*
27878871 -AGAAAA
1 TAAAAAA
*
27878877 TAAAAAT
1 TAAAAAA
27878884 TACAAAATA
1 TA-AAAA-A
*
27878893 TTTAAAAAT
1 --TAAAAAA
*
27878902 TAAAAAT
1 TAAAAAA
*
27878909 TAAAAAT
1 TAAAAAA
27878916 TAAAAATA
1 TAAAAA-A
27878924 TAAAAATA
1 TAAAAA-A
27878932 TAAAAAA
1 TAAAAAA
27878939 CTAAAAAAA
1 -T-AAAAAA
27878948 TATAAAAA
1 TA-AAAAA
27878956 T
1 T
27878957 TTAAGAAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 17
0.74 0.10 0.16
Matches are distributed among these distances:
6 3 0.04
7 39 0.49
8 26 0.32
9 6 0.08
10 4 0.05
11 2 0.03
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAAAAA
Found at i:27878907 original size:8 final size:8
Alignment explanation
Indices: 27878878--27878967 Score: 62
Period size: 9 Copynumber: 10.9 Consensus size: 8
27878868 TGAAGAAAAT
27878878 AAAAATTA
1 AAAAATTA
*
27878886 CAAAATATTT
1 -AAAA-ATTA
27878896 AAAAATT-
1 AAAAATTA
27878903 AAAAATT-
1 AAAAATTA
27878910 AAAAATT-
1 AAAAATTA
27878917 AAAAA-TA
1 AAAAATTA
27878924 TAAAAATATA
1 -AAAAAT-TA
*
27878934 AAAAACTAA
1 AAAAA-TTA
27878943 AAAAATATA
1 AAAAAT-TA
*
27878952 AAAATTTA
1 AAAAATTA
27878960 AGAAAATT
1 A-AAAATT
27878968 CAAATAATAG
Statistics
Matches: 68, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
6 1 0.01
7 19 0.28
8 12 0.18
9 30 0.44
10 6 0.09
ACGTcount: A:0.70, C:0.02, G:0.01, T:0.27
Consensus pattern (8 bp):
AAAAATTA
Found at i:27878913 original size:6 final size:7
Alignment explanation
Indices: 27878894--27878937 Score: 70
Period size: 7 Copynumber: 6.0 Consensus size: 7
27878884 TACAAAATAT
27878894 TTAAAAA
1 TTAAAAA
27878901 TTAAAAA
1 TTAAAAA
27878908 TTAAAAA
1 TTAAAAA
27878915 TTAAAAA
1 TTAAAAA
27878922 TATAAAAA
1 T-TAAAAA
27878930 TATAAAAA
1 T-TAAAAA
27878938 ACTAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 22 0.61
8 14 0.39
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TTAAAAA
Found at i:27899614 original size:15 final size:15
Alignment explanation
Indices: 27899591--27899669 Score: 140
Period size: 15 Copynumber: 5.3 Consensus size: 15
27899581 TGGAGCCAAC
*
27899591 GAAGAAGCACAAGAT
1 GAAGGAGCACAAGAT
27899606 GAAGGAGCACAAGAT
1 GAAGGAGCACAAGAT
27899621 GAAGGAGCACAAGAT
1 GAAGGAGCACAAGAT
27899636 GAAGGAGCACAAGAT
1 GAAGGAGCACAAGAT
*
27899651 GAAGGAGCACAAGAA
1 GAAGGAGCACAAGAT
27899666 GAAG
1 GAAG
27899670 AGAAAGAAGA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 62 1.00
ACGTcount: A:0.49, C:0.13, G:0.33, T:0.05
Consensus pattern (15 bp):
GAAGGAGCACAAGAT
Found at i:27904593 original size:21 final size:21
Alignment explanation
Indices: 27904546--27904594 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
27904536 AATAGTGCAG
27904546 ACTTCTACTGATACAAGTGAC
1 ACTTCTACTGATACAAGTGAC
* *
27904567 AGTTCTACTGATACAAGTGTC
1 ACTTCTACTGATACAAGTGAC
*
27904588 TCTTCTA
1 ACTTCTA
27904595 TCGAAACAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (21 bp):
ACTTCTACTGATACAAGTGAC
Found at i:27907456 original size:18 final size:18
Alignment explanation
Indices: 27907435--27907480 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
27907425 CATTTAGTTT
27907435 TCATTACATTTTTATTTG
1 TCATTACATTTTTATTTG
*
27907453 TCATTGCA-TTTTATTTG
1 TCATTACATTTTTATTTG
* *
27907470 TTAGTACATTT
1 TCATTACATTT
27907481 GCATTGTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 14 0.61
18 9 0.39
ACGTcount: A:0.22, C:0.11, G:0.09, T:0.59
Consensus pattern (18 bp):
TCATTACATTTTTATTTG
Found at i:27917980 original size:15 final size:16
Alignment explanation
Indices: 27917960--27917992 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
27917950 AATGACGAGG
27917960 AAGAAGATGCTGA-AA
1 AAGAAGATGCTGAGAA
*
27917975 AAGAAGGTGCTGAGAA
1 AAGAAGATGCTGAGAA
27917991 AA
1 AA
27917993 AAATCAGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.52, C:0.06, G:0.30, T:0.12
Consensus pattern (16 bp):
AAGAAGATGCTGAGAA
Found at i:27918462 original size:16 final size:17
Alignment explanation
Indices: 27918424--27918462 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
27918414 ACATTGTTGT
*
27918424 TGCATTTTAATTGTCAT
1 TGCATTTTAATTGTCAG
*
27918441 TGCATTTTAA-TGTTAG
1 TGCATTTTAATTGTCAG
27918457 TGCATT
1 TGCATT
27918463 GAGGACAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.51
Consensus pattern (17 bp):
TGCATTTTAATTGTCAG
Found at i:27919111 original size:14 final size:14
Alignment explanation
Indices: 27919092--27919120 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
27919082 CATGATGCTA
27919092 GATTTGATGAAGTT
1 GATTTGATGAAGTT
27919106 GATTTGATGAAGTT
1 GATTTGATGAAGTT
27919120 G
1 G
27919121 CAATCTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (14 bp):
GATTTGATGAAGTT
Found at i:27919563 original size:19 final size:19
Alignment explanation
Indices: 27919539--27919576 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27919529 CGAATAAGAA
*
27919539 CAGAAATGTGTTAGCTGTC
1 CAGAAATGTGTGAGCTGTC
27919558 CAGAAATGTGTGAGCTGTC
1 CAGAAATGTGTGAGCTGTC
27919577 TAATTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (19 bp):
CAGAAATGTGTGAGCTGTC
Found at i:27929323 original size:20 final size:21
Alignment explanation
Indices: 27929286--27929325 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
27929276 ATGCATTTTT
*
27929286 TTTTACTTTTATTTGTTTCAC
1 TTTTACTTTTAGTTGTTTCAC
27929307 TTTTACTTTT-GTTGTTTCA
1 TTTTACTTTTAGTTGTTTCA
27929326 AATTCCTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.12, C:0.12, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTACTTTTAGTTGTTTCAC
Found at i:27930619 original size:50 final size:50
Alignment explanation
Indices: 27930540--27931355 Score: 590
Period size: 50 Copynumber: 16.5 Consensus size: 50
27930530 ACGATGTGAT
** * *
27930540 GGGAAAGG-TGAGGCCATAACGGTGAACCCGGTACCTTAAAAGATGTGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* * * * * *
27930589 GGGAAACGTTAAGGCCACAATGGCGAACCCGGTACC-TAAGAAGATGTGATA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAA-AAGATTTGA-A
* * * *
27930640 -GGAAATGTTGAGGCTGCAACGGTGAACCCAGTACCATGAAGAGA--TGATA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCAT-AAAAGATTTGA-A
* * * *
27930689 GGG-AAGGATTGAGGCCGCAATGGCGAATCCGGTACCTTAAAAGATTTGAA
1 GGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* *
27930739 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATTTGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* ** * * *
27930788 GGG-AAGGATTGAGGCCGCGACGGCAAATCTGGTACCTTAAAAGATTTGAA
1 GGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
** ** *
27930838 GGGAAAGGTTGAGGCCGCAACGACGAACCCAATACCTTAAAAGATTTGATA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGA-A
* * * *
27930889 GGGAAGGGTTGAGGCCGCAACGGTAAACCCGATACCAT-GAAGATTTGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* * *
27930938 GGGAAAGGTTGAGGCCGCAATGGTGAACCCGATACCAT-GAAGATTTGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* * ** * *
27930987 GGG-AAGGATTGAGGTCGCGACGGTGAATTCGATACCTTAAAAGATTTGATA
1 GGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGA-A
* *** * * *
27931038 GGGAAGGGTTGAGGCCGCAACGACAAACCCGATACCAT-GAAGATTTAAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* *** ** *
27931087 GGGAAAGGTTAAGGTTACAACGACGAACCCGGTACCAT-GAAGATTTGAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* *** * *
27931136 GGG-AAGGTTTGAGGCCGCGACAACGAATCCGGTATC-TCAAAAGATTTGAA
1 GGGAAAGG-TTGAGGCCGCAACGGTGAACCCGGTACCAT-AAAAGATTTGAA
* ** * * * * *
27931186 GGGAAAGGTTGAGGTCGCAACGGCAAACTCGGTA-CGTCAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCAT-AAAAGATTTGAA
* * ** * * * * * *
27931236 GGAAAAGATTGAGGCCGCAACGGCAAATCTGATACCAT-GAA-ATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
* * * * * *
27931284 GGGAAAGGTTGAGGTCGCAATGGCGAACTCGGTACCAT-GAAGATTTTAA
1 GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
*
27931333 GGGAAAGGTTAAGGCCGCAACGG
1 GGGAAAGGTTGAGGCCGCAACGG
27931356 CAAACCCAGT
Statistics
Matches: 622, Mismatches: 120, Indels: 50
0.79 0.15 0.06
Matches are distributed among these distances:
48 52 0.08
49 226 0.36
50 258 0.41
51 81 0.13
52 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCAACGGTGAACCCGGTACCATAAAAGATTTGAA
Found at i:27930874 original size:149 final size:148
Alignment explanation
Indices: 27930548--27931362 Score: 775
Period size: 149 Copynumber: 5.5 Consensus size: 148
27930538 ATGGGAAAGG
** * * * * * * *
27930548 TGAGGCCATAACGGTGAACCCGGTACCTTAAAAGATGTGAAGGGAAACGTTAAGGCCACAATGGC
1 TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGC
* * * * * * **
27930613 GAACCCGGTACCTAAGAAGATGTGATA-GGAAATGTTGAGGCTGCAACGGTGAACCC-AGTACCA
66 AAACCCGATACC-ATGAAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGGCAAACCCGA-TACCA
**
27930676 TGAAGAGATGATAGGGAAGGAT
128 TGAAGATTTGA-AGGGAAGGAT
* *
27930698 TGAGGCCGCAATGGCGAATCCGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGT
1 TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGC
* * * * * *
27930763 GAACCCGATACCATGAAGATTTGAAGGG-AAGGATTGAGGCCGCGACGGCAAATCTGGTACCTTA
66 AAACCCGATACCATGAAGATTTGAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCCGATACCAT-
*
27930827 AAAGATTTGAAGGGAAAGG-T
129 GAAGATTTGAAGGG-AAGGAT
* * ** *
27930847 TGAGGCCGCAACGACGAACCCAATACCTTAAAAGATTTGATAGGGAAGGGTTGAGGCCGCAACGG
1 TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGG
* * **
27930912 TAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGTGAACCCGATACCATG
65 CAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCATG
27930977 AAGATTTGAAGGGAAGGAT
130 AAGATTTGAAGGGAAGGAT
* * * * * * *
27930996 TGAGGTCGCGACGGTGAATTCGATACCTTAAAAGATTTGATAGGGAAGGGTTGAGGCCGCAACGA
1 TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGG
* * *** * * *
27931061 CAAACCCGATACCATGAAGATTTAAAGGGAAAGGTTAAGGTTACAACGACGAACCCGGTACCATG
65 CAAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCATG
*
27931126 AAGATTTGAAGGGAAGGTT
130 AAGATTTGAAGGGAAGGAT
* ** * * *
27931145 TGAGGCCGCGACAACGAATCCGGTATCTCAAAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGC
1 TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGC
* * * * * * * *
27931210 AAACTCGGTACGTCA-GAAGATGTGATGGAAAAGATTGAGGCCGCAACGGCAAATCTGATACCAT
66 AAACCCGATAC--CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCAT
* *
27931274 GAA-ATGTGATGGGAAAGG-T
129 GAAGATTTGAAGGG-AAGGAT
* * * * * *
27931293 TGAGGTCGCAATGGCGAA-CTCGGTACCAT-GAAGATTTTAAGGGAAAGGTTAAGGCCGCAACGG
1 TGAGGCCGCAACGGCGAATC-CGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGG
27931356 CAAACCC
65 CAAACCC
27931363 AGTACCTTAG
Statistics
Matches: 550, Mismatches: 103, Indels: 27
0.81 0.15 0.04
Matches are distributed among these distances:
147 37 0.07
148 67 0.12
149 291 0.53
150 151 0.27
151 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (148 bp):
TGAGGCCGCAACGGCGAATCCGGTACCTTAAAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGC
AAACCCGATACCATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCCGATACCATGA
AGATTTGAAGGGAAGGAT
Found at i:27931739 original size:39 final size:39
Alignment explanation
Indices: 27931704--27932260 Score: 354
Period size: 39 Copynumber: 14.4 Consensus size: 39
27931694 TTTTACCTCA
* *
27931704 AGCTTAGGGCAGATCACCATCAGCCAATCTCTTACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* * * * * *
27931743 AGCGTGGGGCAGATTGCAGC-T-ATTCGATCTTTTACCTCG
1 AGCTTGGGGCAGA-T-CACCATCAGTCAATCTCTTACCCCG
* * * *
27931782 AGCCTAGGGCAGATCACCATCAGCCAATCTCATACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* * * *
27931821 AGCTTGGGGTAGATTGCAGC-T-A-TCCGATCTCTTACCCTG
1 AGCTTGGGGCAGA-T-CACCATCAGT-CAATCTCTTACCCCG
* *
27931860 AGCTTGAGGTAGATCACCATCAGTCAATCTCTTA-CCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* *** * * * *
27931898 AGCTTGGGGCAAATCGTAACCATTCGATCTTTTACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* *
27931937 AGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* * * * *
27931976 AG-TCTGGGGTAGATTACAACCA-TCCGATCTCTTACCCCG
1 AGCT-TGGGGCAGATCACCATCAGT-CAATCTCTTACCCCG
27932015 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* * * * *
27932054 AGCCTGGGG-TGATTGCAACCATC---CGATCTTTTACCCTG
1 AGCTTGGGGCAGA-T-C-ACCATCAGTCAATCTCTTACCCCG
* * **
27932092 AGCCTGGGGTAGATCACCATCAGTCAATCTCTTACCTTG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* * * *
27932131 ATCATGGGGCAGATTGCAGCCAT---TCGATCTCTTACCCCA
1 AGCTTGGGGCAGA-T-CA-CCATCAGTCAATCTCTTACCCCG
* * * * *
27932170 AGCCT-GGGCAAATAACCATCAGTCAACCTCTTACCTCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
* ** * * * * *
27932208 AGCTTGGGGTAGATTGCAACCATTCGATCTTTTACCCCG
1 AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
27932247 AGCTTGGGGCAGAT
1 AGCTTGGGGCAGAT
27932261 TGCAGCCCTC
Statistics
Matches: 391, Mismatches: 98, Indels: 58
0.71 0.18 0.11
Matches are distributed among these distances:
35 4 0.01
36 7 0.02
37 8 0.02
38 78 0.20
39 267 0.68
40 9 0.02
41 14 0.04
42 4 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
AGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCG
Found at i:27931779 original size:78 final size:78
Alignment explanation
Indices: 27931686--27932260 Score: 674
Period size: 78 Copynumber: 7.4 Consensus size: 78
27931676 TAGATTGAAG
* * * * *
27931686 ATTCGATCTTTTACCTCAAGCTTAGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCGTGGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
* *
27931751 GCAGATTGCAGCT
66 GCAGATTGCAACC
* * *
27931764 ATTCGATCTTTTACCTCGAGCCTAGGGCAGATCACCATCAGCCAATCTCATACCCCGAGCTTGGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
* * *
27931829 GTAGATTGCAGCT
66 GCAGATTGCAACC
* * * * *
27931842 ATCCGATCTCTTACCCTGAG-CTTGAGGTAGATCACCATCAGTCAATCTCTTA-CCCGAGCTTGG
1 ATTCGATCTTTTACCCCGAGCCTAG-GGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGG
* * *
27931905 GGCAAATCGTAACC
65 GGCAGATTGCAACC
27931919 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAG-TCTGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCT-TGG
* *
27931983 GGTAGATTACAACC
65 GGCAGATTGCAACC
* * * * *
27931997 ATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCCTGGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
*
27932062 G-TGATTGCAACC
66 GCAGATTGCAACC
* * * * ** * *
27932074 ATCCGATCTTTTACCCTGAGCCTGGGGTAGATCACCATCAGTCAATCTCTTACCTTGATCATGGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
*
27932139 GCAGATTGCAGCC
66 GCAGATTGCAACC
* * * * * *
27932152 ATTCGATCTCTTACCCCAAGCCT-GGGCAAATAACCATCAGTCAACCTCTTACCTCGAGCTTGGG
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
*
27932216 GTAGATTGCAACC
66 GCAGATTGCAACC
* *
27932229 ATTCGATCTTTTACCCCGAGCTTGGGGCAGAT
1 ATTCGATCTTTTACCCCGAGCCTAGGGCAGAT
27932261 TGCAGCCCTC
Statistics
Matches: 427, Mismatches: 63, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
77 198 0.46
78 229 0.54
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (78 bp):
ATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGTCAATCTCTTACCCCGAGCTTGGG
GCAGATTGCAACC
Found at i:27931973 original size:155 final size:155
Alignment explanation
Indices: 27931673--27932260 Score: 736
Period size: 155 Copynumber: 3.8 Consensus size: 155
27931663 TAATCAAGAA
* * * * * *
27931673 GGGTAGATTGAAG--ATTCGATCTTTTACCTCAAGCTTAGGGCAGATCACCATCAGCCAATCTCT
1 GGGTAGATTGCAGCCATCCGATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGTCAATCTCT
* * * *
27931736 TACCCCGAGCGTGGGGCAGATTGCAGCTATTCGATCTTTTACCTCGAGCCTAGGGCAGATCACCA
65 TACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCA
* *
27931801 TCAGCCAATCTCATACCCCGAGCTTG
130 TCAGTCAATCTCTTACCCCGAGCTTG
* * *
27931827 GGGTAGATTGCAGCTATCCGATCTCTTACCCTGAGCTTGAGGTAGATCACCATCAGTCAATCTCT
1 GGGTAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTG-GGCAGATCACCATCAGTCAATCTCT
* * *
27931892 TA-CCCGAGCTTGGGGCAAATCGTAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCA
65 TACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCA
27931956 TCAGTCAATCTCTTACCCCGAG-TCTG
130 TCAGTCAATCTCTTACCCCGAGCT-TG
* *
27931982 GGGTAGATTACAACCATCCGATCTCTTACCCCGAGCTTGGGGCAGATCACCATCAGTCAATCTCT
1 GGGTAGATTGCAGCCATCCGATCTCTTACCCCGAGCTT-GGGCAGATCACCATCAGTCAATCTCT
* * * * * *
27932047 TACCCCGAGCCTGGGG-TGATTGCAACCATCCGATCTTTTACCCTGAGCCTGGGGTAGATCACCA
65 TACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCA
** * *
27932111 TCAGTCAATCTCTTACCTTGATCATG
130 TCAGTCAATCTCTTACCCCGAGCTTG
* * * * * * *
27932137 GGGCAGATTGCAGCCATTCGATCTCTTACCCCAAGCCTGGGCAAATAACCATCAGTCAACCTCTT
1 GGGTAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTGGGCAGATCACCATCAGTCAATCTCTT
* * * *
27932202 ACCTCGAGCTTGGGGTAGATTGCAACCATTCGATCTTTTACCCCGAGCTTGGGGCAGAT
66 ACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGAT
27932261 TGCAGCCCTC
Statistics
Matches: 375, Mismatches: 51, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
154 50 0.13
155 269 0.72
156 56 0.15
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.26
Consensus pattern (155 bp):
GGGTAGATTGCAGCCATCCGATCTCTTACCCCGAGCTTGGGCAGATCACCATCAGTCAATCTCTT
ACCCCGAGCTTGGGGCAGATTGCAACCATTCGATCTTTTACCCCGAGCCTAGGGCAGATCACCAT
CAGTCAATCTCTTACCCCGAGCTTG
Found at i:27932732 original size:17 final size:17
Alignment explanation
Indices: 27932712--27932776 Score: 69
Period size: 17 Copynumber: 3.8 Consensus size: 17
27932702 ATTGGATCCA
27932712 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
* * *
27932729 ATTTTGAATTTAAACTC
1 ATTTTAAATTTAAATTT
*
27932746 ATTCTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
27932763 AAATTT-AATTTAAA
1 -ATTTTAAATTTAAA
27932777 AGAGAGTCCA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 35 0.92
18 3 0.08
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:27932774 original size:5 final size:6
Alignment explanation
Indices: 27932714--27932776 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
27932704 TGGATCCAAT
* * * *
27932714 TTTAAA TTTAAA TTT-AT TTTGAA TTTAAA -CT-CA TTCTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
27932760 TTTAAA TTT-AA TTTAAA
1 TTTAAA TTTAAA TTTAAA
27932777 AGAGAGTCCA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
4 1 0.02
5 10 0.22
6 31 0.69
7 3 0.07
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:27934433 original size:30 final size:28
Alignment explanation
Indices: 27934399--27934622 Score: 202
Period size: 30 Copynumber: 7.6 Consensus size: 28
27934389 CCTCTGAAGT
27934399 TTTCCAAAATTACATTTTTATCCCTAAAC
1 TTTCCAAAATTACATTTTTA-CCCTAAAC
* * *
27934428 TTTTCCAAAATTACATTTTGACCCCCAAGC
1 -TTTCCAAAATTACATTTTTA-CCCTAAAC
* *
27934458 TTTTCCAAAATTATATTTTTACCCTCGAAC
1 -TTTCCAAAATTACATTTTTACCCT-AAAC
* *
27934488 -TTCCAAAAATCACATTTTTA-CCTCGAAC
1 TTTCC-AAAATTACATTTTTACCCT-AAAC
* *
27934516 -TTCCTAAAATGACAGTTTTATCCCTAAAAC
1 TTTCC-AAAATTACATTTTTA-CCCT-AAAC
*
27934546 TTTCTAAAATTACATTTTTACCCTAAAC
1 TTTCCAAAATTACATTTTTACCCTAAAC
*
27934574 TTTCTCAAAATGACATTTTTACCCTTATAAC
1 TTTC-CAAAATTACATTTTTACCC-TA-AAC
*
27934605 TTTCCAAAATTACGTTTT
1 TTTCCAAAATTACATTTT
27934623 AACATCGAAC
Statistics
Matches: 163, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
28 37 0.23
29 37 0.23
30 79 0.48
31 10 0.06
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (28 bp):
TTTCCAAAATTACATTTTTACCCTAAAC
Found at i:27934505 original size:28 final size:29
Alignment explanation
Indices: 27934472--27934598 Score: 132
Period size: 28 Copynumber: 4.4 Consensus size: 29
27934462 CCAAAATTAT
*
27934472 ATTTTTACCCTCGAACTTCCAAAAATCAC
1 ATTTTTACCCTCGAACTTCCTAAAATCAC
*
27934501 ATTTTTA-CCTCGAACTTCCTAAAATGAC
1 ATTTTTACCCTCGAACTTCCTAAAATCAC
* ** * *
27934529 AGTTTTATCCCTAAAACTTTCTAAAATTAC
1 ATTTTTA-CCCTCGAACTTCCTAAAATCAC
* * *
27934559 ATTTTTACCCT-AAACTTTCTCAAAATGAC
1 ATTTTTACCCTCGAACTTCCT-AAAATCAC
27934588 ATTTTTACCCT
1 ATTTTTACCCT
27934599 TATAACTTTC
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 34 0.40
29 29 0.34
30 23 0.27
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.38
Consensus pattern (29 bp):
ATTTTTACCCTCGAACTTCCTAAAATCAC
Found at i:27934608 original size:59 final size:58
Alignment explanation
Indices: 27934399--27934622 Score: 201
Period size: 59 Copynumber: 3.8 Consensus size: 58
27934389 CCTCTGAAGT
* * * *
27934399 TTTC-CAAAATTACATTTTTATCCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAGC
1 TTTCTCAAAATGACATTTTTATCCCTAAAC-TTTCCAAAATTACATTTTTA-CCCTAAAC
* * * * *
27934458 TTT-TCCAAAATTATATTTTTA-CCCTCGAAC-TTCCAAAAATCACATTTTTA-CCTCGAAC
1 TTTCT-CAAAATGACATTTTTATCCCT-AAACTTTCC-AAAATTACATTTTTACCCT-AAAC
* * *
27934516 TTCCT-AAAATGACAGTTTTATCCCTAAAACTTTCTAAAATTACATTTTTACCCTAAAC
1 TTTCTCAAAATGACATTTTTATCCCT-AAACTTTCCAAAATTACATTTTTACCCTAAAC
*
27934574 TTTCTCAAAATGACATTTTTA-CCCTTATAACTTTCCAAAATTACGTTTT
1 TTTCTCAAAATGACATTTTTATCCC-TA-AACTTTCCAAAATTACATTTT
27934623 AACATCGAAC
Statistics
Matches: 133, Mismatches: 20, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
57 14 0.11
58 40 0.30
59 61 0.46
60 18 0.14
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (58 bp):
TTTCTCAAAATGACATTTTTATCCCTAAACTTTCCAAAATTACATTTTTACCCTAAAC
Found at i:27934614 original size:117 final size:116
Alignment explanation
Indices: 27934400--27934633 Score: 269
Period size: 117 Copynumber: 2.0 Consensus size: 116
27934390 CTCTGAAGTT
* * *
27934400 TTCCAAAATTACATTTTTATCCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAGCTTTTCCA
1 TTCCAAAATGACAGTTTTATCCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAACTTTTCCA
* * * * *
27934465 AAATTATATTTTTACCCTCGAACTTCCAAAAATCACATTTTTACCTCGAAC
66 AAATGACATTTTTACCCTAGAACTTCCAAAAATCACATTTTAACATCGAAC
* * *
27934516 TTCCTAAAATGACAGTTTTATCCCTAAAAC-TTTCTAAAATTACATTTTTA-CCCTAAAC-TTTC
1 TTCC-AAAATGACAGTTTTATCCCT-AAACTTTTCCAAAATTACATTTTGACCCCCAAACTTTTC
* * *
27934578 TCAAAATGACATTTTTACCCTTATAACTTTCC-AAAATTACGTTTTAACATCGAAC
64 -CAAAATGACATTTTTACCC-TAGAAC-TTCCAAAAATCACATTTTAACATCGAAC
27934633 T
1 T
27934634 CTTCGAAACT
Statistics
Matches: 99, Mismatches: 14, Indels: 9
0.81 0.11 0.07
Matches are distributed among these distances:
115 4 0.04
116 27 0.27
117 60 0.61
118 8 0.08
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (116 bp):
TTCCAAAATGACAGTTTTATCCCTAAACTTTTCCAAAATTACATTTTGACCCCCAAACTTTTCCA
AAATGACATTTTTACCCTAGAACTTCCAAAAATCACATTTTAACATCGAAC
Found at i:27936044 original size:17 final size:17
Alignment explanation
Indices: 27936022--27936057 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
27936012 GTCAGTGCAC
*
27936022 ATTGTCATTGCATTTTA
1 ATTGTCACTGCATTTTA
27936039 ATTGTCACTGCATTTTA
1 ATTGTCACTGCATTTTA
27936056 AT
1 AT
27936058 GTTAGTACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (17 bp):
ATTGTCACTGCATTTTA
Found at i:27938575 original size:193 final size:194
Alignment explanation
Indices: 27938218--27938648 Score: 512
Period size: 193 Copynumber: 2.2 Consensus size: 194
27938208 TGAAACGACG
* * * *
27938218 CGATGGTTGAGGTACCGCATTTGTTACAAGTCCTCGACAGCTCGTGTGATTAGCATCGTGAGTCG
1 CGAT-GTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGAGTGAGTAGCATCGTGAGTCG
* * *
27938283 AGAAATGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGGGATTTATACATAAGT
65 AGAAAAGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATACATAAAT
* * **** *
27938348 GTGTATTCTCGATAGCTCATATGAGCAGCATCGTTAGGG-AACAGTTATGTGTACATACACCGTA
130 GTGTATTCTCGACAGCTCATATGAGCAACATCGTTAGGGCAACAGTT-TACAAACAGACACCGTA
*
27938412 T
194 C
* ** * *
27938413 CGATAGTTGGGGTACCGCATATGTTGTGAGTCCTCGACAGCTCGAGTGAGTAGTATCGTGAGTTG
1 CGAT-GTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGAGTGAGTAGCATCGTGAGTCG
* * * * * *
27938478 -GAAAAGAGATATGAATCCTA-AATGGATTATAGGCCCTACGATGGCTGAGATTTATGCTTAAAT
65 AGAAAAGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATACATAAAT
* * *
27938541 GCT-TATTCTCGACAGCT-AGTGTGAGCAACATCGTTAGGGCGACAGTTTACAAACAGACATCGT
130 G-TGTATTCTCGACAGCTCA-TATGAGCAACATCGTTAGGGCAACAGTTTACAAACAGACACCGT
27938604 AC
193 AC
27938606 CGATGTTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTC
1 CGATG-TTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTC
27938649 ATGTGAGCAT
Statistics
Matches: 199, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
192 2 0.01
193 118 0.59
194 24 0.12
195 55 0.28
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (194 bp):
CGATGTTGAGGTACCGCATATGTTACGAGTCCTCGACAGCTCGAGTGAGTAGCATCGTGAGTCGA
GAAAAGAGAAATGAATCCAAGAATGGATTACAAGCCCTACGATGGCTGAGATTTATACATAAATG
TGTATTCTCGACAGCTCATATGAGCAACATCGTTAGGGCAACAGTTTACAAACAGACACCGTAC
Found at i:27942842 original size:16 final size:16
Alignment explanation
Indices: 27942821--27942852 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27942811 AGAAATTTTT
*
27942821 ATGTTAAAGGACTAAA
1 ATGTTAAAGGAATAAA
27942837 ATGTTAAAGGAATAAA
1 ATGTTAAAGGAATAAA
27942853 TTTGTAAGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.03, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTTAAAGGAATAAA
Found at i:27943729 original size:192 final size:195
Alignment explanation
Indices: 27943320--27943731 Score: 469
Period size: 193 Copynumber: 2.1 Consensus size: 195
27943310 GAAATCGACG
** * * *
27943320 CGATGGCTAAGGTACCACATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
1 CGATGGCTGGGGTACCGCATATGTTGCAAGTCCTCGACACCTCATGTGAGCAGCATCATGAGTCG
* * * *
27943385 GGAAATGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGTTGAGATTTATGCATAAGT
66 GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGCTGAGATTTATGCATAAAT
* * * *** *
27943450 GCATATTCGCGACAGCTTGTGTGAGCAACATCGTTAGGGAACAGTTATATGTACATTTACTATAT
131 GCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGAACAGTTATAAGTACAGACACCATAT
* * ***
27943515 CGATGGTTGGGGTACTGCATATGTTTTGAGTCCTCGACACCTCATGTGAGCAGCATCATGAGTC-
1 CGATGGCTGGGGTACCGCATATGTTGCAAGTCCTCGACACCTCATGTGAGCAGCATCATGAGTCG
* * * * * *
27943579 GAAAAAGAGATATGAATCCTA-AATGGATTATAGTCCTTACGATG-GCTGGGATTTATG-ATTAA
66 GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGA-GAGCTGAGATTTATGCA-TAA
* *
27943641 ATGCATATTCTCGATAGCTCGTG-GAGCAACATCATTAGGGAGACAGTT-TACAG-ACAGACACC
129 ATGCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGA-ACAGTTATA-AGTACAGACACC
*
27943703 GTAT
192 ATAT
27943707 CGATGGCTGGGGTACCGCATATGTT
1 CGATGGCTGGGGTACCGCATATGTT
27943732 ACGACTCTTG
Statistics
Matches: 181, Mismatches: 32, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
192 51 0.28
193 58 0.32
194 18 0.10
195 54 0.30
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (195 bp):
CGATGGCTGGGGTACCGCATATGTTGCAAGTCCTCGACACCTCATGTGAGCAGCATCATGAGTCG
GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGCTGAGATTTATGCATAAAT
GCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGAACAGTTATAAGTACAGACACCATAT
Found at i:27943761 original size:192 final size:195
Alignment explanation
Indices: 27943320--27943762 Score: 477
Period size: 192 Copynumber: 2.3 Consensus size: 195
27943310 GAAATCGACG
** * * * *
27943320 CGATGGCTAAGGTACCACATATGTTGCAAGTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
1 CGATGGCTGGGGTACCGCATATGTTACGACTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
* * * *
27943385 GGAAATGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGTTGAGATTTATGCATAAGT
66 GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGCTGAGATTTATGCATAAAT
* * * *** *
27943450 GCATATTCGCGACAGCTTGTGTGAGCAACATCGTTAGGGAACAGTTATATGTACATTTACTATAT
131 GCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGAACAGTTATAAGTACAGACACCATAT
* * ** * * *
27943515 CGATGGTTGGGGTACTGCATATGTTTTGAGTCCTCGACACCTCATGTGAGCAGCATCATGAGTC-
1 CGATGGCTGGGGTACCGCATATGTTACGACTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
* * * * * *
27943579 GAAAAAGAGATATGAATCCTA-AATGGATTATAGTCCTTACGATG-GCTGGGATTTATG-ATTAA
66 GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGA-GAGCTGAGATTTATGCA-TAA
* *
27943641 ATGCATATTCTCGATAGCTCGTG-GAGCAACATCATTAGGGAGACAGTT-TACAG-ACAGACACC
129 ATGCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGA-ACAGTTATA-AGTACAGACACC
*
27943703 GTAT
192 ATAT
* * *
27943707 CGATGGCTGGGGTACCGCATATGTTACGACTCTTGGACAGCTCGTGTAAGCAGCAT
1 CGATGGCTGGGGTACCGCATATGTTACGACTCCTCGACAGCTCGTGTGAGCAGCAT
27943763 TGGGTATTGG
Statistics
Matches: 204, Mismatches: 40, Indels: 11
0.80 0.16 0.04
Matches are distributed among these distances:
192 74 0.36
193 58 0.28
194 18 0.09
195 54 0.26
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (195 bp):
CGATGGCTGGGGTACCGCATATGTTACGACTCCTCGACAGCTCGTGTGAGCAGCATCATGAGTCG
GAAAAAGAGAAATGAATCCAAGAATGGATTACAGGCCCTACGAGAGCTGAGATTTATGCATAAAT
GCATATTCGCGACAGCTCGTGTGAGCAACATCATTAGGGAACAGTTATAAGTACAGACACCATAT
Found at i:27945705 original size:17 final size:18
Alignment explanation
Indices: 27945672--27945709 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
27945662 TTTATTTAGA
*
27945672 TGTCATTGCATTTTCATT
1 TGTCACTGCATTTTCATT
27945690 TGTCACTGCA-TTTCATT
1 TGTCACTGCATTTTCATT
27945707 TGT
1 TGT
27945710 TAGTACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.16, C:0.18, G:0.13, T:0.53
Consensus pattern (18 bp):
TGTCACTGCATTTTCATT
Found at i:27946318 original size:10 final size:10
Alignment explanation
Indices: 27946305--27946352 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
27946295 AAAAATTCAC
27946305 AAAAAGAAAG
1 AAAAAGAAAG
27946315 AAAAAGAAAG
1 AAAAAGAAAG
*
27946325 AAGAAGAAAAG
1 AAAAAG-AAAG
27946336 AAAAA-AAAG
1 AAAAAGAAAG
27946345 -AAAAGAAA
1 AAAAAGAAA
27946353 TATATTACCA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 4 0.12
9 7 0.21
10 15 0.44
11 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:27948649 original size:18 final size:18
Alignment explanation
Indices: 27948613--27948656 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
27948603 AAATGTACTA
* *
27948613 ACAAAT-AAAATGCAGTG
1 ACAAATAAAAATACAATG
27948630 ACAAATAAAAATACAATG
1 ACAAATAAAAATACAATG
*
27948648 ACAACTAAA
1 ACAAATAAA
27948657 TGAGAAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.61, C:0.14, G:0.09, T:0.16
Consensus pattern (18 bp):
ACAAATAAAAATACAATG
Found at i:27962547 original size:43 final size:43
Alignment explanation
Indices: 27962498--27962638 Score: 230
Period size: 43 Copynumber: 3.3 Consensus size: 43
27962488 TTATGCGAAA
*
27962498 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCTCTTTTACAAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
* *
27962541 AAGCGCCGCTAAAAGCCATGTTCTTTAGCGGCGCTTTTACAGC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
*
27962584 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTCT-CCAC
1 AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTT-TACAAC
27962627 AAGCGCCGCTAA
1 AAGCGCCGCTAA
27962639 TATAACAGAT
Statistics
Matches: 91, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 90 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.25
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGCCATGTTCTTTAGCGGCGCTTTTACAAC
Found at i:27963021 original size:66 final size:66
Alignment explanation
Indices: 27962943--27963090 Score: 224
Period size: 66 Copynumber: 2.2 Consensus size: 66
27962933 CTCGCTGCTA
* * * *
27962943 CCTCCACTTTAAGTTGTAGCTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACAGCA
27963008 G
66 G
* * *
27963009 CCTCCTCTTTAAGTTTTAGATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGCAGCA
1 CCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACAGCA
27963074 G
66 G
*
27963075 CCTCCTCTTTCAGTTG
1 CCTCCTCTTTAAGTTG
27963091 AGCAATTTGC
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 73 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTAGATGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACAGCA
G
Found at i:27966677 original size:41 final size:41
Alignment explanation
Indices: 27966632--27966710 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
27966622 ATTTATTATT
*
27966632 TGACTTTTAGCGGTGCTTTTACATAAGCGCCGCTAATGATC
1 TGACTTTTAGCGGCGCTTTTACATAAGCGCCGCTAATGATC
*
27966673 TGACTTTTAGCGGCGCTTTTTCATAAGCGCCGCTAATG
1 TGACTTTTAGCGGCGCTTTTACATAAGCGCCGCTAATG
27966711 CTCTTTTCCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (41 bp):
TGACTTTTAGCGGCGCTTTTACATAAGCGCCGCTAATGATC
Found at i:27968137 original size:24 final size:23
Alignment explanation
Indices: 27968105--27968179 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 23
27968095 CTTATGGGAA
27968105 AGCGCCGCTATTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
* *
27968129 AGCGGCGC-TT-CT-CGA---TA
1 AGCGCCGCTTTGCTCCGACCTTT
27968146 AGCGCCGCTGTTGCTCCGACCTTT
1 AGCGCCGCT-TTGCTCCGACCTTT
*
27968170 AGCGGCGCTT
1 AGCGCCGCTT
27968180 ACACATAAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 15
0.66 0.08 0.25
Matches are distributed among these distances:
17 8 0.21
19 2 0.05
20 5 0.13
21 5 0.13
22 2 0.05
23 1 0.03
24 16 0.41
ACGTcount: A:0.12, C:0.35, G:0.27, T:0.27
Consensus pattern (23 bp):
AGCGCCGCTTTGCTCCGACCTTT
Found at i:27968138 original size:41 final size:42
Alignment explanation
Indices: 27968080--27968339 Score: 277
Period size: 41 Copynumber: 6.3 Consensus size: 42
27968070 AAATAAATCA
* ** *
27968080 GACCTTTTAGCGACGCTTATGGGA-AAGCGCCGCTATTGCTCC
1 GACC-TTTAGCGGCGCTTATCCGATAAGCGCCGCTGTTGCTCC
*
27968122 GACCTTTAGCGGCGCTTCT-CGATAAGCGCCGCTGTTGCTCC
1 GACCTTTAGCGGCGCTTATCCGATAAGCGCCGCTGTTGCTCC
* *
27968163 GACCTTTAGCGGCGCTTA-CAC-ATAAGCGCCGTTGTTGCTTC
1 GACCTTTAGCGGCGCTTATC-CGATAAGCGCCGCTGTTGCTCC
* * * * *
27968204 GACCTTTAGCGACGCCT-GCCCATAAGCGCTGCTGTTGCTCC
1 GACCTTTAGCGGCGCTTATCCGATAAGCGCCGCTGTTGCTCC
27968245 GACCTTTAGCGGCGCTT-TACCG-TAAGCGCCGCTGTTGCTCC
1 GACCTTTAGCGGCGCTTAT-CCGATAAGCGCCGCTGTTGCTCC
* * *
27968286 GACCTTTAGCGGCGCTTTTCC-ATAAGCACCGCTATTGCT-C
1 GACCTTTAGCGGCGCTTATCCGATAAGCGCCGCTGTTGCTCC
* *
27968326 TACCTTTTGCGGCG
1 GACCTTTAGCGGCG
27968340 TTTTCTTTCC
Statistics
Matches: 189, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
40 16 0.08
41 165 0.87
42 8 0.04
ACGTcount: A:0.15, C:0.32, G:0.25, T:0.28
Consensus pattern (42 bp):
GACCTTTAGCGGCGCTTATCCGATAAGCGCCGCTGTTGCTCC
Found at i:27968229 original size:82 final size:82
Alignment explanation
Indices: 27968104--27968339 Score: 307
Period size: 82 Copynumber: 2.9 Consensus size: 82
27968094 GCTTATGGGA
* *
27968104 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCG-CTTCTCGATAAGCGCCGCTGTTGCTCCGACCT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTTC-CCATAAGCGCCGCTGTTGCTCCGACCT
27968168 TTAGCGGCGC-TTACACAT
65 TTAGCGGCGCTTTAC-CAT
* * * * *
27968186 AAGCGCCGTTGTTGCTTCGACCTTTAGCGACGCCTGCCCATAAGCGCTGCTGTTGCTCCGACCTT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTTCCCATAAGCGCCGCTGTTGCTCCGACCTT
*
27968251 TAGCGGCGCTTTACCGT
66 TAGCGGCGCTTTACCAT
* * * * *
27968268 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCTTTTCCATAAGCACCGCTATTGCT-CTACCTT
1 AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTTCCCATAAGCGCCGCTGTTGCTCCGACCTT
*
27968332 TTGCGGCG
66 TAGCGGCG
27968340 TTTTCTTTCC
Statistics
Matches: 133, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
81 13 0.10
82 113 0.85
83 7 0.05
ACGTcount: A:0.14, C:0.33, G:0.25, T:0.28
Consensus pattern (82 bp):
AAGCGCCGCTGTTGCTCCGACCTTTAGCGGCGCCTTCCCATAAGCGCCGCTGTTGCTCCGACCTT
TAGCGGCGCTTTACCAT
Found at i:27968324 original size:123 final size:122
Alignment explanation
Indices: 27968104--27968332 Score: 338
Period size: 123 Copynumber: 1.9 Consensus size: 122
27968094 GCTTATGGGA
27968104 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCTCGATAAGCGCCGCTGTTGCTCCGACCTT
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCTCGATAAGCGCCGCTGTTGCTCCGACCTT
* * *
27968169 TAGCGGCGCTTACACATAAGCGCCGTTGTTGCTTCGACCTTTAGCGACGCCTGCCCAT
66 TAGCGGCGCTTACACATAAGCACCGCTATTGC-TCGACCTTTAGCGACGCCTGCCCAT
* *
27968227 AAGCGCTGCTGTTGCTCCGACCTTTAGCGGCGCTT-TACCG-TAAGCGCCGCTGTTGCTCCGACC
1 AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCT--CGATAAGCGCCGCTGTTGCTCCGACC
* *
27968290 TTTAGCGGCGCTTTTC-CATAAGCACCGCTATTGCTCTACCTTT
64 TTTAGCGGCGC-TTACACATAAGCACCGCTATTGCTCGACCTTT
27968333 TGCGGCGTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
122 9 0.09
123 82 0.85
124 5 0.05
ACGTcount: A:0.15, C:0.34, G:0.24, T:0.28
Consensus pattern (122 bp):
AAGCGCCGCTATTGCTCCGACCTTTAGCGGCGCTTCTCGATAAGCGCCGCTGTTGCTCCGACCTT
TAGCGGCGCTTACACATAAGCACCGCTATTGCTCGACCTTTAGCGACGCCTGCCCAT
Found at i:27971848 original size:28 final size:27
Alignment explanation
Indices: 27971809--27971865 Score: 96
Period size: 28 Copynumber: 2.1 Consensus size: 27
27971799 ATTGTGTAAC
*
27971809 CTAAGTTTAAAATGTTGTTTTATTTGT
1 CTAAGTTTAAAATGTCGTTTTATTTGT
27971836 CTAAGTGTTAAAATGTCGTTTTATTTGT
1 CTAAGT-TTAAAATGTCGTTTTATTTGT
27971864 CT
1 CT
27971866 TTAAGGCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.53
Consensus pattern (27 bp):
CTAAGTTTAAAATGTCGTTTTATTTGT
Found at i:27980286 original size:16 final size:17
Alignment explanation
Indices: 27980257--27980294 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
27980247 AAAAATGAGG
*
27980257 AAAAAGGAAGAAAATAA
1 AAAAAGGAAGAAAAGAA
*
27980274 AAAAATGAA-AAAAGAA
1 AAAAAGGAAGAAAAGAA
27980290 AAAAA
1 AAAAA
27980295 AATTATGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (17 bp):
AAAAAGGAAGAAAAGAA
Found at i:27984556 original size:7 final size:7
Alignment explanation
Indices: 27984544--27984571 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
27984534 ATTTAAATAT
27984544 TCAACAC
1 TCAACAC
27984551 TCAACAC
1 TCAACAC
27984558 TCAACAC
1 TCAACAC
27984565 TCAACAC
1 TCAACAC
27984572 AATTGGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
TCAACAC
Found at i:27985060 original size:12 final size:12
Alignment explanation
Indices: 27985043--27985067 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27985033 ACAATTTTAG
27985043 TTTCTTTTTCAT
1 TTTCTTTTTCAT
27985055 TTTCTTTTTCAT
1 TTTCTTTTTCAT
27985067 T
1 T
27985068 ATATGCTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTTTCAT
Found at i:27994201 original size:23 final size:23
Alignment explanation
Indices: 27994171--27994216 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
27994161 AATCTGGTGC
27994171 GATGACAATCGGAGCTTGCACCA
1 GATGACAATCGGAGCTTGCACCA
27994194 GATGACAATCGGAGCTTGCACCA
1 GATGACAATCGGAGCTTGCACCA
27994217 TCTTTGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
GATGACAATCGGAGCTTGCACCA
Found at i:28001376 original size:21 final size:21
Alignment explanation
Indices: 28001352--28001429 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
28001342 CAACTTTTCC
*
28001352 AGAACCAAAACCAGTTTTACT
1 AGAATCAAAACCAGTTTTACT
** * *
28001373 AGAATCAAAACCAACTTTGCC
1 AGAATCAAAACCAGTTTTACT
* *
28001394 AGAATCAGAACCAGTTTCACT
1 AGAATCAAAACCAGTTTTACT
28001415 A-AGATCAAAACCAGT
1 AGA-ATCAAAACCAGT
28001430 GAATGTTGAG
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
20 1 0.02
21 43 0.98
ACGTcount: A:0.44, C:0.24, G:0.12, T:0.21
Consensus pattern (21 bp):
AGAATCAAAACCAGTTTTACT
Found at i:28001406 original size:42 final size:42
Alignment explanation
Indices: 28001341--28001427 Score: 122
Period size: 42 Copynumber: 2.1 Consensus size: 42
28001331 TGTTGAAGCT
* *
28001341 CCAACTTTTCCAGAACCAAAACCAGTTTTACT-AGAATCAAAA
1 CCAACTTTGCCAGAACCAAAACCAGTTTCACTAAG-ATCAAAA
* *
28001383 CCAACTTTGCCAGAATCAGAACCAGTTTCACTAAGATCAAAA
1 CCAACTTTGCCAGAACCAAAACCAGTTTCACTAAGATCAAAA
28001425 CCA
1 CCA
28001428 GTGAATGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 38 0.95
43 2 0.05
ACGTcount: A:0.41, C:0.28, G:0.09, T:0.22
Consensus pattern (42 bp):
CCAACTTTGCCAGAACCAAAACCAGTTTCACTAAGATCAAAA
Found at i:28004625 original size:37 final size:37
Alignment explanation
Indices: 28004529--28004625 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 37
28004519 ATTTCTAGAA
* * *
28004529 TGCACCCAAGACTGTTGCTTCATAAATATTCTTCAAT
1 TGCACCCAAGACTGTCGCTGCATAAATATTCATCAAT
** * * *
28004566 TGCTTCCAAGACTATCGTTGCATAAGTATTCATCAAT
1 TGCACCCAAGACTGTCGCTGCATAAATATTCATCAAT
* *
28004603 TGCACCCAGGAATGTCGCTGCAT
1 TGCACCCAAGACTGTCGCTGCAT
28004626 GAACGTGTCC
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (37 bp):
TGCACCCAAGACTGTCGCTGCATAAATATTCATCAAT
Found at i:28007187 original size:17 final size:17
Alignment explanation
Indices: 28007167--28007239 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
28007157 ATTGTCACCA
*
28007167 CATTTCCTTTGTCATTG
1 CATTTCCTTTATCATTG
*** *
28007184 CATTTTAATTATCACTG
1 CATTTCCTTTATCATTG
* *
28007201 CATTTGCGTTATCATTG
1 CATTTCCTTTATCATTG
*
28007218 CATTTCCATTTATCAATG
1 CATTTCC-TTTATCATTG
28007236 CATT
1 CATT
28007240 GAGGATAATG
Statistics
Matches: 43, Mismatches: 12, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
17 31 0.72
18 12 0.28
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.48
Consensus pattern (17 bp):
CATTTCCTTTATCATTG
Found at i:28007205 original size:34 final size:34
Alignment explanation
Indices: 28007153--28007222 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
28007143 GTAGCTGTAA
* * *
28007153 TTTAATTGTCACCACATTTCCTTTGTCATTGCAT
1 TTTAATTATCACCACATTTCCGTTATCATTGCAT
** *
28007187 TTTAATTATCACTGCATTTGCGTTATCATTGCAT
1 TTTAATTATCACCACATTTCCGTTATCATTGCAT
28007221 TT
1 TT
28007223 CCATTTATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.21, C:0.20, G:0.10, T:0.49
Consensus pattern (34 bp):
TTTAATTATCACCACATTTCCGTTATCATTGCAT
Found at i:28008434 original size:37 final size:38
Alignment explanation
Indices: 28008360--28008459 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 38
28008350 CAAATTTGCG
* ** *
28008360 CCCAAAACTGTCGCCGTATGAGCA-TTTCCAGATTGCA
1 CCCAAAACTGTCGCCGCATGAATATTTTCCAGAATGCA
*
28008397 CCCAAAACTGTCGCCGCATGAATATTTTCGA-AATGCA
1 CCCAAAACTGTCGCCGCATGAATATTTTCCAGAATGCA
* * * *
28008434 CCCAAGACTGTTGCTGCATAAATATT
1 CCCAAAACTGTCGCCGCATGAATATT
28008460 CTTCAATTGC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 48 0.91
38 5 0.09
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (38 bp):
CCCAAAACTGTCGCCGCATGAATATTTTCCAGAATGCA
Found at i:28008524 original size:37 final size:37
Alignment explanation
Indices: 28008433--28008526 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
28008423 TTCGAAATGC
* *
28008433 ACCCAAGACTGTTGCTGCATAAATATTCTTCAATTGC
1 ACCCAGGACTGTTGCTGCATAAATATTCTTCAATTGA
* * * *
28008470 ATCCAGGACTATCGCTGCATAAGTATTCTTCAATTGA
1 ACCCAGGACTGTTGCTGCATAAATATTCTTCAATTGA
*
28008507 ACCCAGGAATGTTGCTGCAT
1 ACCCAGGACTGTTGCTGCAT
28008527 GAACGTGTCC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (37 bp):
ACCCAGGACTGTTGCTGCATAAATATTCTTCAATTGA
Found at i:28011050 original size:19 final size:20
Alignment explanation
Indices: 28011003--28011050 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
28010993 TTGATAATTC
28011003 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
28011021 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
28011040 TTAATTATTAT
1 TTAATTATTAT
28011051 CAAAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:28011431 original size:40 final size:40
Alignment explanation
Indices: 28011377--28011464 Score: 158
Period size: 40 Copynumber: 2.2 Consensus size: 40
28011367 TCCCAAGCGA
*
28011377 GCTGCTGCTGCTGCCGAGCCACGCCCAAGCCCCACGTCGT
1 GCTGCTGCTACTGCCGAGCCACGCCCAAGCCCCACGTCGT
*
28011417 GCTGCTGCTACTGCCGAGCCACGCCCGAGCCCCACGTCGT
1 GCTGCTGCTACTGCCGAGCCACGCCCAAGCCCCACGTCGT
28011457 GCTGCTGC
1 GCTGCTGC
28011465 CTTGTGCATC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.11, C:0.44, G:0.28, T:0.16
Consensus pattern (40 bp):
GCTGCTGCTACTGCCGAGCCACGCCCAAGCCCCACGTCGT
Found at i:28012602 original size:24 final size:24
Alignment explanation
Indices: 28012570--28012621 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
28012560 CAGCAAGCTA
*
28012570 AAGAAGAAGAAGAAGATTCTGAAG
1 AAGAAGAAGAAGAAGATCCTGAAG
*
28012594 AAGAAGAAGAAGAAGATCCTGAGG
1 AAGAAGAAGAAGAAGATCCTGAAG
28012618 AAGA
1 AAGA
28012622 TCCTCTGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.06, G:0.31, T:0.10
Consensus pattern (24 bp):
AAGAAGAAGAAGAAGATCCTGAAG
Found at i:28013961 original size:16 final size:15
Alignment explanation
Indices: 28013942--28013975 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
28013932 TGATGCTCAT
*
28013942 AAAAACAGAAATGAAA
1 AAAAAAAGAAA-GAAA
28013958 AAAAAAAGAAAGAAA
1 AAAAAAAGAAAGAAA
28013973 AAA
1 AAA
28013976 GAGCATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:28018912 original size:178 final size:178
Alignment explanation
Indices: 28018613--28018978 Score: 642
Period size: 178 Copynumber: 2.1 Consensus size: 178
28018603 CCACAAAAAT
* * *
28018613 AATGAGTCAACAAAGACTACTTATCTTCCAACCTTATAGTCTAGATTGGTTTGGGGTAAAGGTGT
1 AATGAGTTAACAAAGACTACTTATCTTCCAACCTCATAGTCTAGATTGGTTTAGGGTAAAGGTGT
* * *
28018678 TCACGAATGGGCAATACCAATTTTGCGTTAATTATGGTAGATCAGTGCGCTATCTCATCCTCATT
66 TCACGAATGGGCAATACCAATTTTGCATTAATTATGGCAGATCAGTGCGCTATCTCACCCTCATT
*
28018743 ACCAATGATAGAGATCGCGCCATTAGACAGTATGTTGTGCTACTCTTC
131 ACCAATGATAGAGATCGCGCCATTAGACAGTATGTTGTGCCACTCTTC
28018791 AATGAGTTAACAAAGACTACTTATCTTCCAACCTCATAGTCTAGATTGGTTTAGGGTAAAGGTGT
1 AATGAGTTAACAAAGACTACTTATCTTCCAACCTCATAGTCTAGATTGGTTTAGGGTAAAGGTGT
**
28018856 TCACGAATGGGCAATGTCAATTTTGCATTAATTATGGCAGATCAGTGCGCTATCTCACCCTCATT
66 TCACGAATGGGCAATACCAATTTTGCATTAATTATGGCAGATCAGTGCGCTATCTCACCCTCATT
*
28018921 ACCAATGATAGGGATCGCGCCATTAGACAGTATGTTGTGCCACTCTTC
131 ACCAATGATAGAGATCGCGCCATTAGACAGTATGTTGTGCCACTCTTC
28018969 AATGAGTTAA
1 AATGAGTTAA
28018979 ATCCGAGAAT
Statistics
Matches: 178, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
178 178 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (178 bp):
AATGAGTTAACAAAGACTACTTATCTTCCAACCTCATAGTCTAGATTGGTTTAGGGTAAAGGTGT
TCACGAATGGGCAATACCAATTTTGCATTAATTATGGCAGATCAGTGCGCTATCTCACCCTCATT
ACCAATGATAGAGATCGCGCCATTAGACAGTATGTTGTGCCACTCTTC
Found at i:28021482 original size:11 final size:11
Alignment explanation
Indices: 28021459--28021495 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
28021449 TAAATGTTAA
28021459 TTTTT-TTTCTC
1 TTTTTCTTT-TC
28021470 TTTTTCTTTTC
1 TTTTTCTTTTC
28021481 TTTTTC-TTTC
1 TTTTTCTTTTC
28021491 TTTTT
1 TTTTT
28021496 ATGTGACTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 9 0.36
11 13 0.52
12 3 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:28022073 original size:17 final size:17
Alignment explanation
Indices: 28022049--28022106 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
28022039 ATATATATGG
**
28022049 AAATGCAATGACAATGT
1 AAATGCAATGACAATAA
* *
28022066 AGATGCAACGACAATAA
1 AAATGCAATGACAATAA
*
28022083 AAATGCAATGACATTAA
1 AAATGCAATGACAATAA
*
28022100 TAATGCA
1 AAATGCA
28022107 GGGACAATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (17 bp):
AAATGCAATGACAATAA
Found at i:28029442 original size:21 final size:21
Alignment explanation
Indices: 28029418--28029461 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
28029408 ATTCACACTC
*
28029418 TTACTCATGATTCTTTTGTTT
1 TTACTCATGATTCTTTTCTTT
**
28029439 TTACTCATTTTTCTTTTCTTT
1 TTACTCATGATTCTTTTCTTT
28029460 TT
1 TT
28029462 GATTTTTCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.16, G:0.05, T:0.68
Consensus pattern (21 bp):
TTACTCATGATTCTTTTCTTT
Found at i:28060795 original size:20 final size:20
Alignment explanation
Indices: 28060770--28060812 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
28060760 TTGAAACAAT
*
28060770 TTTCAAACAAGTCAAAATGA
1 TTTCAAACAAGTCAAAATCA
*
28060790 TTTCAATCAAGTCAAAATCA
1 TTTCAAACAAGTCAAAATCA
28060810 TTT
1 TTT
28060813 TGACACTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.07, T:0.33
Consensus pattern (20 bp):
TTTCAAACAAGTCAAAATCA
Found at i:28071279 original size:181 final size:182
Alignment explanation
Indices: 28070964--28071328 Score: 651
Period size: 181 Copynumber: 2.0 Consensus size: 182
28070954 TGGAGAACGG
* *
28070964 AGGTAATTTGTTTTTAGAAATCAACTTCCTTTGCTGAGATACTTGTCTGATTTACGGTGAGGCTT
1 AGGTAATTTGTTTTTAGAAATCAACTTCCTTTGCTGAGATACTTGTCTGATTGACGGCGAGGCTT
* *
28071029 CCTTTTTAAATTTGACCATGTATGCTCTCCTACTTGGCATTAGGTGTTGGTATATTGATAGAAAC
66 CCTTTTTAAATTTGACCATGTATGCTCTCCTACTTGGAATTAGGTGTTGATATATTGATAGAAAC
28071094 TGCTAAAAGTGATATATGTTACCTAAGAATTGTTTCATGCACAAATTAGGAA
131 TGCTAAAAGTGATATATGTTACCTAAGAATTGTTTCATGCACAAATTAGGAA
28071146 AGGTAATTTG-TTTTAGAAATCAACTTCCTTTGCTGAGATACTTGTCTGATTGACGGCGAGGCTT
1 AGGTAATTTGTTTTTAGAAATCAACTTCCTTTGCTGAGATACTTGTCTGATTGACGGCGAGGCTT
28071210 CCTTTTTAAATTTGACCATGTATGCTCTCCTACTTGGAATTAGGTGTTGATATATTGATAGAAAC
66 CCTTTTTAAATTTGACCATGTATGCTCTCCTACTTGGAATTAGGTGTTGATATATTGATAGAAAC
* ** *
28071275 TGCTAAAAGTGATGTATGTTACCTAAGAATTGTTTCATGTGCTAATTAGGAA
131 TGCTAAAAGTGATATATGTTACCTAAGAATTGTTTCATGCACAAATTAGGAA
28071327 AG
1 AG
28071329 AGTCCTGGCC
Statistics
Matches: 175, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
181 165 0.94
182 10 0.06
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (182 bp):
AGGTAATTTGTTTTTAGAAATCAACTTCCTTTGCTGAGATACTTGTCTGATTGACGGCGAGGCTT
CCTTTTTAAATTTGACCATGTATGCTCTCCTACTTGGAATTAGGTGTTGATATATTGATAGAAAC
TGCTAAAAGTGATATATGTTACCTAAGAATTGTTTCATGCACAAATTAGGAA
Found at i:28086225 original size:36 final size:35
Alignment explanation
Indices: 28086174--28086273 Score: 112
Period size: 36 Copynumber: 2.8 Consensus size: 35
28086164 CATTATTTGT
* *
28086174 TTTACTCCCTATTGACCTAAAGGTCATGTTGCTCTA-
1 TTTACTCCCTGTTGACC-AAAGGTCATGTTACTC-AC
* *
28086210 TTTACTCCCTGTTGACCCGAAGATCATGTTACTCAC
1 TTTACTCCCTGTTGA-CCAAAGGTCATGTTACTCAC
*
28086246 TTTACTCCTTGTTGAACCAAAGGTCATG
1 TTTACTCCCTGTTG-ACCAAAGGTCATG
28086274 CCTGTTAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
35 1 0.02
36 50 0.93
37 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (35 bp):
TTTACTCCCTGTTGACCAAAGGTCATGTTACTCAC
Found at i:28088003 original size:59 final size:60
Alignment explanation
Indices: 28087880--28088039 Score: 206
Period size: 63 Copynumber: 2.7 Consensus size: 60
28087870 TTTTGGTTTG
*
28087880 TTATTTATTTATTT-AT--AATAATAAATAAATAATAAAACAAAATTAATATTATTTTACA
1 TTATTTATTTATTTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTATTTTA-A
*
28087938 TTTATTTATTTATATTCATAAAATAATAAATAAATAATAAAATAAAATAAATATTATTTT-A
1 -TTATTTATTTAT-TTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTATTTTAA
28087999 -TATTTATTTATGTTCATAAAAATAAT-AATAAATAAATAAAA
1 TTATTTATTTAT-TTCAT-AAAATAATAAATAAAT-AATAAAA
28088040 ATAATAAGAA
Statistics
Matches: 92, Mismatches: 3, Indels: 11
0.87 0.03 0.10
Matches are distributed among these distances:
59 35 0.38
60 17 0.18
61 3 0.03
63 37 0.40
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (60 bp):
TTATTTATTTATTTCATAAAATAATAAATAAATAATAAAACAAAATAAATATTATTTTAA
Found at i:28088046 original size:59 final size:60
Alignment explanation
Indices: 28087880--28088039 Score: 197
Period size: 59 Copynumber: 2.7 Consensus size: 60
28087870 TTTTGGTTTG
* *
28087880 TTATTTATTTATTT-ATAATAAT-A-AATAAATAATAAAACAAAATTAATATTATTTTACA
1 TTATTTATTTATTTCATAAAAATAATAATAAATAATAAAACAAAATAAATATTATTTTA-A
*
28087938 TTTATTTATTTATATTCAT-AAAATAATAAATAAATAATAAAATAAAATAAATATTATTTT-A
1 -TTATTTATTTAT-TTCATAAAAATAAT-AATAAATAATAAAACAAAATAAATATTATTTTAA
28087999 -TATTTATTTATGTTCATAAAAATAATAATAAATAAATAAAA
1 TTATTTATTTAT-TTCATAAAAATAATAATAAAT-AATAAAA
28088040 ATAATAAGAA
Statistics
Matches: 90, Mismatches: 4, Indels: 13
0.84 0.04 0.12
Matches are distributed among these distances:
59 35 0.39
60 21 0.23
61 4 0.04
63 30 0.33
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (60 bp):
TTATTTATTTATTTCATAAAAATAATAATAAATAATAAAACAAAATAAATATTATTTTAA
Found at i:28092609 original size:52 final size:52
Alignment explanation
Indices: 28092509--28092610 Score: 116
Period size: 52 Copynumber: 2.0 Consensus size: 52
28092499 ACCCCTATTA
* * * *
28092509 TCGCCTCAATTTTGGTGATATTATTCTTTTCAGATTTTTGAAACCTCTTCCC
1 TCGCCTCAATTCTAGTGATATTATTCTTTTCAGATTCTCGAAACCTCTTCCC
* * * *
28092561 TCGCCTCGATTCTAGTGATATTCTTCTTCTT-AGATTCTCGAGATCTCTTC
1 TCGCCTCAATTCTAGTGATATTATTCTT-TTCAGATTCTCGAAACCTCTTC
28092611 TCTCTCTATT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
52 39 0.95
53 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.45
Consensus pattern (52 bp):
TCGCCTCAATTCTAGTGATATTATTCTTTTCAGATTCTCGAAACCTCTTCCC
Found at i:28093795 original size:21 final size:21
Alignment explanation
Indices: 28093771--28093824 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
28093761 CTTGAAAAAG
*
28093771 TTCTACTAATACAAGT-GTAAC
1 TTCTACTAATACAAGTCAT-AC
28093792 TTCTACTGAA-ACAAGTCATAC
1 TTCTACT-AATACAAGTCATAC
*
28093813 TTCTACTGATAC
1 TTCTACTAATAC
28093825 TAAAAAGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 24 0.86
22 3 0.11
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.33
Consensus pattern (21 bp):
TTCTACTAATACAAGTCATAC
Found at i:28109518 original size:30 final size:30
Alignment explanation
Indices: 28109484--28109545 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
28109474 CATTTAACAA
**
28109484 GACACCCCCCACATTTTTAAGTGGTTGTAG
1 GACACCCCCCACATTTCCAAGTGGTTGTAG
28109514 GACACCCCCCACATTTCCAAGTGGTTGTAG
1 GACACCCCCCACATTTCCAAGTGGTTGTAG
28109544 GA
1 GA
28109546 TGGTTTTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (30 bp):
GACACCCCCCACATTTCCAAGTGGTTGTAG
Found at i:28110239 original size:19 final size:20
Alignment explanation
Indices: 28110205--28110242 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
28110195 ATCCCCTTCC
28110205 CACATAAAGCCTATATTAGG
1 CACATAAAGCCTATATTAGG
*
28110225 CACAT-AAGTCTATATTAG
1 CACATAAAGCCTATATTAG
28110243 ACACTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.29
Consensus pattern (20 bp):
CACATAAAGCCTATATTAGG
Found at i:28111618 original size:11 final size:11
Alignment explanation
Indices: 28111602--28111626 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
28111592 TTTTGGAAAC
28111602 TAAATCAAAAT
1 TAAATCAAAAT
28111613 TAAATCAAAAT
1 TAAATCAAAAT
28111624 TAA
1 TAA
28111627 TTCTATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
TAAATCAAAAT
Found at i:28111883 original size:81 final size:80
Alignment explanation
Indices: 28111772--28112068 Score: 253
Period size: 81 Copynumber: 3.6 Consensus size: 80
28111762 AATCCAAAAA
* * * **
28111772 TAGAATATAATCTATT-ACTCGGCAGG-AATAAATCTCGAAACAGATTTAGTCAACTTATTTTAT
1 TAGAATAAAATCTATTAAAT-GGC-GGAAATAAATCCCGAAACAGATTTA-TTTACTTATTTTAT
28111835 TTTGGAAACAAAATCAAT
63 TTTGGAAACAAAATCAAT
* *
28111853 TGGAATAAAATCTATTGAATGGCGGAAATAAATCCCGAAACAGATTTATTTACTTAATTATTA-T
1 TAGAATAAAATCTATTAAATGGCGGAAATAAATCCCGAAACAGATTTATTTACTT-ATT-TTATT
*
28111917 TTGG-AACTGAAATCCAAAT
64 TTGGAAAC-AAAAT-C-AAT
* * * * * * * *
28111936 ATAGACT-TAATCTATTCAACGACGGGAATAAATCCCGAAACATATTTATTTACTTATTTTCTTT
1 -TAGAATAAAATCTATTAAATGGCGGAAATAAATCCCGAAACAGATTTATTTACTTA-TTT-TAT
* *
28112000 TTTGGAAATAAAATCAAA
63 TTTGGAAACAAAATCAAT
* * * * *
28112018 TAGAATAAAATCTGTTAAATGGTGGAAATAAATCCGGAAACAAATTAATTT
1 TAGAATAAAATCTATTAAATGGCGGAAATAAATCCCGAAACAGATTTATTT
28112069 CCAATTTTAG
Statistics
Matches: 173, Mismatches: 30, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
80 10 0.06
81 55 0.32
82 44 0.25
83 49 0.28
84 13 0.08
85 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (80 bp):
TAGAATAAAATCTATTAAATGGCGGAAATAAATCCCGAAACAGATTTATTTACTTATTTTATTTT
GGAAACAAAATCAAT
Done.