Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 156 of 213
Found at i:46724856 original size:28 final size:28
Alignment explanation
Indices: 46724781--46724849 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
46724771 GGTGTTACAC
*
46724781 AGCCTTTGTGGCAATCTCTGGATAAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
* *
46724809 AGCCATTGTGGCTATCTCTAGA-AAGGA
1 AGCCTTTGTGGCAATCTCTAGATAAGGA
46724836 ATGCCTTTGTGGCA
1 A-GCCTTTGTGGCA
46724850 CCATCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCCTTTGTGGCAATCTCTAGATAAGGA
Found at i:46726194 original size:14 final size:13
Alignment explanation
Indices: 46726173--46726209 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
46726163 TAATCAAAGT
46726173 TTTAATTAATTAA
1 TTTAATTAATTAA
46726186 TTGTAATTATATTAA
1 TT-TAATTA-ATTAA
46726201 TTTAATTAA
1 TTTAATTAA
46726210 AGCATAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 12 0.55
15 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:46737269 original size:21 final size:20
Alignment explanation
Indices: 46737245--46737283 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
46737235 TTCAGGACTA
* *
46737245 TGTCGTGACATCCTAAGGCTG
1 TGTCGCGACA-CCGAAGGCTG
46737266 TGTCGCGACACCGAAGGC
1 TGTCGCGACACCGAAGGC
46737284 AGTCTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (20 bp):
TGTCGCGACACCGAAGGCTG
Found at i:46737988 original size:17 final size:18
Alignment explanation
Indices: 46737966--46738000 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
46737956 TCAAGAACAG
*
46737966 TAAGCAT-AAAGTAGTTT
1 TAAGCATGAAAATAGTTT
46737983 TAAGCATGAAAATAGTTT
1 TAAGCATGAAAATAGTTT
46738001 GGCACATTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (18 bp):
TAAGCATGAAAATAGTTT
Found at i:46752240 original size:37 final size:37
Alignment explanation
Indices: 46752190--46752298 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
46752180 TTATTACGAA
* * *
46752190 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46752227 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
46752264 GTCTTACCCGGACAAAATCCCCACACGGAGTCATC
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATC
46752299 TTCCTGACAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:46752652 original size:49 final size:47
Alignment explanation
Indices: 46752387--46752896 Score: 792
Period size: 47 Copynumber: 10.7 Consensus size: 47
46752377 CCCTTCGGGA
* * * * * *
46752387 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
46752434 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
46752481 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCATTAGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46752527 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46752572 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46752619 CTTATCACATATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46752668 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
46752715 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46752762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46752811 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
46752860 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
46752897 AGAATCCTAA
Statistics
Matches: 439, Mismatches: 17, Indels: 12
0.94 0.04 0.03
Matches are distributed among these distances:
44 34 0.08
45 8 0.02
46 8 0.02
47 218 0.50
49 171 0.39
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:46752674 original size:96 final size:94
Alignment explanation
Indices: 46752387--46752896 Score: 792
Period size: 96 Copynumber: 5.4 Consensus size: 94
46752377 CCCTTCGGGA
* * * * * * * *
46752387 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
46752452 TTTCACATTCATCACATCGGCCATTAGGT
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
46752481 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCATTAGG-CTTATCAC--ATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
46752543 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
46752572 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
46752637 ACTTTCACGTTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
46752668 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
46752733 TTTCACGTTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
46752762 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
46752827 ACACTTTCACATTCATCACATCGGCCATTAGGC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
46752860 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
46752897 AGAATCCTAA
Statistics
Matches: 394, Mismatches: 13, Indels: 14
0.94 0.03 0.03
Matches are distributed among these distances:
91 79 0.20
92 8 0.02
93 6 0.02
94 89 0.23
96 137 0.35
98 75 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:46756826 original size:12 final size:12
Alignment explanation
Indices: 46756809--46756833 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46756799 GATAATTTAC
46756809 TTAATTTAAAAA
1 TTAATTTAAAAA
46756821 TTAATTTAAAAA
1 TTAATTTAAAAA
46756833 T
1 T
46756834 GATTTAATAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAATTTAAAAA
Found at i:46757847 original size:2 final size:2
Alignment explanation
Indices: 46757840--46757887 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
46757830 CTTATAATCT
46757840 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
46757882 CA CA CA
1 CA CA CA
46757888 TATACAATTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:46760005 original size:17 final size:18
Alignment explanation
Indices: 46759983--46760016 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46759973 TCAATCATAT
46759983 AATATTT-AAACAAAAAA
1 AATATTTCAAACAAAAAA
*
46760000 AATATTTCCAACAAAAA
1 AATATTTCAAACAAAAA
46760017 TTTCATATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.24
Consensus pattern (18 bp):
AATATTTCAAACAAAAAA
Found at i:46763829 original size:59 final size:60
Alignment explanation
Indices: 46763716--46763832 Score: 209
Period size: 59 Copynumber: 2.0 Consensus size: 60
46763706 ACTTGTAATG
* *
46763716 GTAAGGAGAATGATGAGTAATATACTTTTTGGTTGATCCATAACATAAATATGTTAGAAT
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAAT
46763776 GTAAGGAGAATAATGAGTAATATAC-TTTTGGTTGACCCATAACATAAATATGTTAGA
1 GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGA
46763833 GTGTTATAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 31 0.56
60 24 0.44
ACGTcount: A:0.39, C:0.08, G:0.20, T:0.33
Consensus pattern (60 bp):
GTAAGGAGAATAATGAGTAATATACTTTTTGGTTGACCCATAACATAAATATGTTAGAAT
Found at i:46765075 original size:19 final size:20
Alignment explanation
Indices: 46765038--46765075 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
46765028 TATGAGAATA
46765038 TTTTCTATTTCTATGTTTTC
1 TTTTCTATTTCTATGTTTTC
46765058 TTTT-TATTT-TATGATTTT
1 TTTTCTATTTCTATG-TTTT
46765076 TAAATTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 9 0.53
20 4 0.24
ACGTcount: A:0.13, C:0.08, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTCTATTTCTATGTTTTC
Found at i:46774241 original size:12 final size:12
Alignment explanation
Indices: 46774224--46774248 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
46774214 TTGTTTCAAA
46774224 TTTTTTAGAGAT
1 TTTTTTAGAGAT
46774236 TTTTTTAGAGAT
1 TTTTTTAGAGAT
46774248 T
1 T
46774249 ACGTTTATGT
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:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (12 bp):
TTTTTTAGAGAT
Found at i:46776882 original size:27 final size:27
Alignment explanation
Indices: 46776844--46776900 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
46776834 GGTGGATGAT
46776844 ACTCCAACAAGGGGTACTAGATTGCCC
1 ACTCCAACAAGGGGTACTAGATTGCCC
46776871 ACTCCAACAAGGGGTACTAGATTGCCC
1 ACTCCAACAAGGGGTACTAGATTGCCC
46776898 ACT
1 ACT
46776901 GACATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (27 bp):
ACTCCAACAAGGGGTACTAGATTGCCC
Found at i:46779786 original size:24 final size:24
Alignment explanation
Indices: 46779759--46779810 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
46779749 TTAGTAGGTA
*
46779759 AAATAAAATAT-TCTAATAAATGCT
1 AAATAAAATATAT-TAATAAATACT
* *
46779783 AAATATATTATATTAATAAATACT
1 AAATAAAATATATTAATAAATACT
46779807 AAAT
1 AAAT
46779811 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 23 0.96
25 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATAAAATATATTAATAAATACT
Found at i:46781773 original size:24 final size:24
Alignment explanation
Indices: 46781723--46781774 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
46781713 TTAGTAGGTC
* **
46781723 AAATAAATTATGCTAATAAATGTT
1 AAATAAATTATACTAATAAATACT
*
46781747 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
46781771 AAAT
1 AAAT
46781775 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:46782460 original size:44 final size:44
Alignment explanation
Indices: 46782410--46782498 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
46782400 TGAAGTAAAG
* * * * *
46782410 TAGAAGTAGTGATAACTATATATTTAAAAGTAATTATAATTTAA
1 TAGAAGTAGTAATAACTACACATCTAAAAATAATTATAATTTAA
* *
46782454 TAGAAGTTGTAATAATTACACATCTAAAAATAATTATAATTTAA
1 TAGAAGTAGTAATAACTACACATCTAAAAATAATTATAATTTAA
46782498 T
1 T
46782499 TTAACGCTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.38
Consensus pattern (44 bp):
TAGAAGTAGTAATAACTACACATCTAAAAATAATTATAATTTAA
Found at i:46786410 original size:24 final size:25
Alignment explanation
Indices: 46786383--46786431 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
46786373 TTAATTCCTT
*
46786383 TAAATACATTATTG-AAA-AAATAAA
1 TAAAAACATT-TTGCAAACAAATAAA
46786407 TAAAAACATTTTGCAAACAAATAAA
1 TAAAAACATTTTGCAAACAAATAAA
46786432 GTACAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.55
25 7 0.32
ACGTcount: A:0.61, C:0.08, G:0.04, T:0.27
Consensus pattern (25 bp):
TAAAAACATTTTGCAAACAAATAAA
Found at i:46787174 original size:25 final size:24
Alignment explanation
Indices: 46787146--46787202 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
46787136 TTTCTTCCCT
*
46787146 CTTTCCCTCTC-TTCTTCTCTCTTTC
1 CTTTCCCTCCCTTTC-TCTC-CTTTC
*
46787171 CTTTCCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTCCCTTTCTCTCCTTTC
*
46787195 TTTTCCCT
1 CTTTCCCT
46787203 TTTCTTTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.41
25 13 0.48
26 3 0.11
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (24 bp):
CTTTCCCTCCCTTTCTCTCCTTTC
Found at i:46787209 original size:25 final size:24
Alignment explanation
Indices: 46787146--46787209 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
46787136 TTTCTTCCCT
46787146 CTTTCCCTCTCTTC-TTCTCTCTTTC
1 CTTTCCCT-T-TTCTTTCTCTCTTTC
**
46787171 CTTT-CCTTCCCTTTCTCTCCTTTC
1 CTTTCCCTTTTCTTTCTCT-CTTTC
*
46787195 TTTTCCCTTTTCTTT
1 CTTTCCCTTTTCTTT
46787210 TCTTTCTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
22 1 0.03
23 7 0.23
24 11 0.35
25 12 0.39
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (24 bp):
CTTTCCCTTTTCTTTCTCTCTTTC
Found at i:46792009 original size:59 final size:58
Alignment explanation
Indices: 46791948--46792133 Score: 155
Period size: 59 Copynumber: 3.1 Consensus size: 58
46791938 AATTGAAATT
* * *
46791948 ATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
46792007 ATATATTATGATTTTAGAA-A-ATTCATATAAGAA-TATTTAATATTAAGAATTTTCTTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTT-ATAGTATC
*
46792068 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTTATAGTATC
46792127 ATATATT
1 ATATATT
46792134 ATGATTTGAG
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
58 6 0.06
59 37 0.39
60 18 0.19
61 30 0.32
62 4 0.04
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATC
Found at i:46792059 original size:61 final size:60
Alignment explanation
Indices: 46792007--46792194 Score: 145
Period size: 61 Copynumber: 3.1 Consensus size: 60
46791997 TTATAGTATT
*
46792007 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTCTTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTT-ATAAATC
* * * * * * * *
46792068 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-TATTTTATAGTATC
1 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTT-AATATTAAGAATTTTATA-AATC
* * * * *
46792127 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-TAAATC
46792188 ATATATT
1 ATATATT
46792195 TTAATTAAAA
Statistics
Matches: 93, Mismatches: 22, Indels: 24
0.67 0.16 0.17
Matches are distributed among these distances:
58 10 0.11
59 29 0.31
60 8 0.09
61 35 0.38
62 11 0.12
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (60 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATAAATC
Found at i:46792072 original size:120 final size:120
Alignment explanation
Indices: 46791943--46792229 Score: 459
Period size: 120 Copynumber: 2.4 Consensus size: 120
46791933 TAAGTAATTG
* * *
46791943 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
* * *
46792008 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTCTT
66 TATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
46792063 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATC
* *
46792127 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
*
46792183 AAATTATATATTTTAATTAAAAAATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
46792230 ATATGATTAA
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 2 0.01
120 148 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
TATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:46792191 original size:59 final size:59
Alignment explanation
Indices: 46792008--46792191 Score: 130
Period size: 59 Copynumber: 3.1 Consensus size: 59
46791998 TATAGTATTA
* * *
46792008 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTCTTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * * ** * *
46792067 CATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATTATTTCAAATTATATTTTA-TAGTAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTA-TT--AA-GA-ATTTTATTA-AAT
* *
46792126 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
46792187 TATAT
1 TATAT
46792192 ATTTTAATTA
Statistics
Matches: 91, Mismatches: 19, Indels: 30
0.65 0.14 0.21
Matches are distributed among these distances:
53 4 0.04
54 6 0.07
55 6 0.07
56 8 0.09
57 2 0.02
58 6 0.07
59 15 0.16
61 11 0.12
62 6 0.07
63 2 0.02
64 9 0.10
65 6 0.07
66 10 0.11
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:46792399 original size:39 final size:40
Alignment explanation
Indices: 46792356--46792460 Score: 122
Period size: 44 Copynumber: 2.5 Consensus size: 40
46792346 TTCCCTTATG
46792356 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* ** *
46792395 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTAGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
46792440 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
46792461 ACACATCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 11
0.77 0.07 0.15
Matches are distributed among these distances:
39 15 0.27
40 5 0.09
44 18 0.33
45 17 0.31
ACGTcount: A:0.32, C:0.30, G:0.05, T:0.33
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:46792459 original size:45 final size:44
Alignment explanation
Indices: 46792354--46792463 Score: 140
Period size: 45 Copynumber: 2.6 Consensus size: 44
46792344 TTTTCCCTTA
46792354 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * **
46792393 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTAGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
46792438 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
46792464 CATCTATTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 16 0.27
40 1 0.02
44 17 0.29
45 25 0.42
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:46792463 original size:16 final size:16
Alignment explanation
Indices: 46792442--46792479 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
46792432 TAGATTTGCT
*
46792442 ATTACACCTCTATTCC
1 ATTACACATCTATTCC
46792458 ATTACACATCTATTCC
1 ATTACACATCTATTCC
46792474 ATTACA
1 ATTACA
46792480 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.37
Consensus pattern (16 bp):
ATTACACATCTATTCC
Found at i:46796524 original size:19 final size:19
Alignment explanation
Indices: 46796500--46796543 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
46796490 GGGACTAAAT
* *
46796500 TGAAAAGTTGTAAAATTTA
1 TGAAAAATTCTAAAATTTA
*
46796519 TGAAAAAATTCTAAATTTTA
1 TG-AAAAATTCTAAAATTTA
46796539 TGAAA
1 TGAAA
46796544 TACATGGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.36
Consensus pattern (19 bp):
TGAAAAATTCTAAAATTTA
Found at i:46797244 original size:26 final size:26
Alignment explanation
Indices: 46797204--46797272 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 26
46797194 CTTATGAGTG
* *
46797204 TCCCGATTTATGGCTCTTCGTCAGCT
1 TCCCGATTAAAGGCTCTTCGTCAGCT
* * * *
46797230 TCCCGGTTAAAGGCTTTTTGTGAGCT
1 TCCCGATTAAAGGCTCTTCGTCAGCT
* *
46797256 TCCTGATTAATGGCTCT
1 TCCCGATTAAAGGCTCT
46797273 CCGGAGCTTC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (26 bp):
TCCCGATTAAAGGCTCTTCGTCAGCT
Found at i:46797330 original size:25 final size:25
Alignment explanation
Indices: 46797251--46797331 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
46797241 GGCTTTTTGT
*
46797251 GAGCTTCCTGAT-TAATGGCTCTCCG
1 GAGCTTCCCGATAT-ATGGCTCTCCG
* **
46797276 GAGCTTCCC-A-ATATGGCTCGCTT
1 GAGCTTCCCGATATATGGCTCTCCG
* *
46797299 GAACTTCCCGATATATGGCTATCCG
1 GAGCTTCCCGATATATGGCTCTCCG
46797324 GAGCTTCC
1 GAGCTTCC
46797332 TAATTGATGG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
23 16 0.37
24 3 0.07
25 24 0.56
ACGTcount: A:0.19, C:0.30, G:0.22, T:0.30
Consensus pattern (25 bp):
GAGCTTCCCGATATATGGCTCTCCG
Found at i:46813356 original size:43 final size:43
Alignment explanation
Indices: 46813308--46813424 Score: 135
Period size: 52 Copynumber: 2.5 Consensus size: 43
46813298 AAACACATAG
46813308 TTCGCCCATTGGCAAATACTATCCACAAGCAGAATTTATATAA
1 TTCGCCCATTGGCAAATACTATCCACAAGCAGAATTTATATAA
46813351 TTCGCCCAGTTCACCCATTGGCAAATACTATCCACAAGCAGAATTTATATAA
1 TT----C-G----CCCATTGGCAAATACTATCCACAAGCAGAATTTATATAA
*
46813403 TTCGCCCATTAGCAAAGTACTA
1 TTCGCCCATTGGCAAA-TACTA
46813425 AACTTATTCA
Statistics
Matches: 63, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
43 13 0.21
44 5 0.08
47 2 0.03
48 2 0.03
52 41 0.65
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (43 bp):
TTCGCCCATTGGCAAATACTATCCACAAGCAGAATTTATATAA
Found at i:46813384 original size:52 final size:52
Alignment explanation
Indices: 46813306--46813410 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
46813296 TGAAACACAT
*
46813306 AGTTCGCCCATTGGCAAATACTATCCACAAGCAGAATTTATATAATTCGCCC
1 AGTTCACCCATTGGCAAATACTATCCACAAGCAGAATTTATATAATTCGCCC
46813358 AGTTCACCCATTGGCAAATACTATCCACAAGCAGAATTTATATAATTCGCCC
1 AGTTCACCCATTGGCAAATACTATCCACAAGCAGAATTTATATAATTCGCCC
46813410 A
1 A
46813411 TTAGCAAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (52 bp):
AGTTCACCCATTGGCAAATACTATCCACAAGCAGAATTTATATAATTCGCCC
Found at i:46834016 original size:320 final size:320
Alignment explanation
Indices: 46833434--46834052 Score: 1184
Period size: 320 Copynumber: 1.9 Consensus size: 320
46833424 TACAGTAGTC
46833434 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
46833499 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
66 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
* *
46833564 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTTTTCTTTCTAACCTTAACACTTGCTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTGCTTTT
46833629 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
46833694 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
*
46833754 AATTAGATTAATTTGAGCCTCTCTCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
1 AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
* *
46833819 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAGGGTACCA
66 TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
46833884 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTGCTTTT
131 TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTGCTTTT
*
46833949 TATTCTTCATTAATATTAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
196 TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
46834014 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGT
261 CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGT
46834053 GTCACAAGAC
Statistics
Matches: 293, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
320 293 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (320 bp):
AATTAGATTAATTTGAGCCTCTCCCTGACTGGTCAACAGAAAGTGAAACCTTCACCAGATTTTCT
TTTACCTACCCTGGATTTGGTAGGGAAATCGGGGGGTCTGAGAGTATATTTATGGGAAGGTAACA
TTTCAGATGGTTTTTCTTTCTACTTAATGTTTAGGTTCTTCTTTCTAACCTCAACACTTGCTTTT
TATTCTTCATTAATATCAGACTAAGATCTCGTCTAATGCATAGATGATTCTGTCTTCTAGTAAGT
CTTCAAGCTTTGCACATTACAGTTACAGAAGGGAAGGGTCTCCCTTCTAGTAAGTCTTCA
Found at i:46834620 original size:25 final size:25
Alignment explanation
Indices: 46834596--46834763 Score: 169
Period size: 25 Copynumber: 6.8 Consensus size: 25
46834586 ACACATAATT
*
46834596 CTCTAGAAAGCCTTTGTGGTGAATT
1 CTCTAGAAAGCCTTTGTGGTGAATC
*
46834621 CTCTAGAAAGCCATTGTGGTGAATC
1 CTCTAGAAAGCCTTTGTGGTGAATC
* * *
46834646 CTCTCGAAAGCCTTTTTGGAGAATC
1 CTCTAGAAAGCCTTTGTGGTGAATC
* * *
46834671 CTCT-GAAAATCCTTTATGGAGAATC
1 CTCTAG-AAAGCCTTTGTGGTGAATC
* * * **
46834696 CTCTAAAAAGCATTTTTGGCAAATC
1 CTCTAGAAAGCCTTTGTGGTGAATC
* *
46834721 CTCTGGAAAGCC-TTATGGTGAATC
1 CTCTAGAAAGCCTTTGTGGTGAATC
*
46834745 CTCTGGAAAGCCTTTGTGG
1 CTCTAGAAAGCCTTTGTGG
46834764 CATGTTATCT
Statistics
Matches: 119, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
24 22 0.18
25 97 0.82
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (25 bp):
CTCTAGAAAGCCTTTGTGGTGAATC
Found at i:46835837 original size:12 final size:12
Alignment explanation
Indices: 46835822--46835850 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
46835812 TGGAAAGGAA
46835822 ATTAATGATTTC
1 ATTAATGATTTC
46835834 ATTAATGATTTC
1 ATTAATGATTTC
46835846 ATTAA
1 ATTAA
46835851 AGAGTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (12 bp):
ATTAATGATTTC
Found at i:46835866 original size:22 final size:22
Alignment explanation
Indices: 46835840--46835888 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
46835830 TTTCATTAAT
*
46835840 GATTTCATTAAAGAGTAAATGA
1 GATTTCATGAAAGAGTAAATGA
*
46835862 GATTTCGTGAAAGAGTAAATGA
1 GATTTCATGAAAGAGTAAATGA
46835884 GATTT
1 GATTT
46835889 AAATACAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.33
Consensus pattern (22 bp):
GATTTCATGAAAGAGTAAATGA
Found at i:46838344 original size:51 final size:51
Alignment explanation
Indices: 46838268--46838417 Score: 245
Period size: 51 Copynumber: 3.0 Consensus size: 51
46838258 TTATGAGATT
46838268 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
*
46838319 GAAATCTTTAAATGTGATCATCAACTAAGTGAGGAAAGT---A-GAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
* *
46838366 GAAATCTTTAAATGTGGTCATCAAGTAAGTGAGGAAAGTAGAAGGAATTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
46838417 G
1 G
46838418 GGGAACATTG
Statistics
Matches: 91, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
47 44 0.48
48 1 0.01
50 1 0.01
51 45 0.49
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (51 bp):
GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
Found at i:46838381 original size:47 final size:47
Alignment explanation
Indices: 46838268--46838409 Score: 230
Period size: 47 Copynumber: 2.9 Consensus size: 47
46838258 TTATGAGATT
46838268 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGT---A-GAAGTTA
*
46838319 GAAATCTTTAAATGTGATCATCAACTAAGTGAGGAAAGTAGAAGTTA
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGTTA
*
46838366 GAAATCTTTAAATGTGGTCATCAAGTAAGTGAGGAAAGTAGAAG
1 GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAG
46838410 GAATTTAGGG
Statistics
Matches: 88, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
47 49 0.56
48 1 0.01
51 38 0.43
ACGTcount: A:0.42, C:0.08, G:0.25, T:0.26
Consensus pattern (47 bp):
GAAATCTTTAAATGTGGTCATCAACTAAGTGAGGAAAGTAGAAGTTA
Found at i:46845057 original size:20 final size:21
Alignment explanation
Indices: 46845022--46845060 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
46845012 AGACTAAATC
*
46845022 GAAAACATTTGGAAATTTTAG
1 GAAAACATTTGAAAATTTTAG
46845043 GAAAA-ATTTGAAAATTTT
1 GAAAACATTTGAAAATTTT
46845061 GGACTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.36
Consensus pattern (21 bp):
GAAAACATTTGAAAATTTTAG
Found at i:46846172 original size:42 final size:42
Alignment explanation
Indices: 46846125--46846207 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
46846115 GAACACGCCA
**
46846125 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGTGAGAGCTAG
1 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTAG
* *
46846167 ACAAAAGCTCGTGAGAGCTGAACAAAAGCTCGAAAGAGCTA
1 ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTA
46846208 ATTTACCCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.13
Consensus pattern (42 bp):
ACAAAAACTCATGAGAGCTGAACAAAAGCTCGAAAGAGCTAG
Found at i:46846206 original size:21 final size:21
Alignment explanation
Indices: 46846124--46846198 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
46846114 CGAACACGCC
* *
46846124 AACAAAAACTCATGAGAGCTG
1 AACAAAAGCTCGTGAGAGCTG
46846145 AACAAAAGCTCGTGAGAGCT-
1 AACAAAAGCTCGTGAGAGCTG
46846165 AGACAAAAGCTCGTGAGAGCTG
1 A-ACAAAAGCTCGTGAGAGCTG
46846187 AACAAAAGCTCG
1 AACAAAAGCTCG
46846199 AAAGAGCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
20 1 0.02
21 48 0.96
22 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (21 bp):
AACAAAAGCTCGTGAGAGCTG
Found at i:46846807 original size:18 final size:18
Alignment explanation
Indices: 46846784--46846822 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46846774 GACATTTTCA
46846784 CAATTCAATCCTAAAAAT
1 CAATTCAATCCTAAAAAT
46846802 CAATTCAATCCTAAAAAT
1 CAATTCAATCCTAAAAAT
46846820 CAA
1 CAA
46846823 AATCTAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (18 bp):
CAATTCAATCCTAAAAAT
Found at i:46848119 original size:39 final size:39
Alignment explanation
Indices: 46848019--46848174 Score: 188
Period size: 39 Copynumber: 3.9 Consensus size: 39
46848009 TAGATCAAAC
* *
46848019 ACACCAGATAGAAGCTCATAAGAGCTGATCCAACCGAAAT
1 ACACCA-ATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
** *
46848059 ATGCCAAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGT
1 ACACC-AATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* *
46848099 ACACCAATAGAAGCTCATAAGAGCTGGTCCACCCGAAGC
1 ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
* * *
46848138 ACCCCAACAAAAGCTCATAAGAG-TCGATCCACCCGAA
1 ACACCAATAGAAGCTCATAAGAGCT-GATCCACCCGAA
46848175 TCATGCCAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 64 0.63
40 36 0.35
41 1 0.01
ACGTcount: A:0.38, C:0.29, G:0.19, T:0.14
Consensus pattern (39 bp):
ACACCAATAGAAGCTCATAAGAGCTGATCCACCCGAAGT
Found at i:46848657 original size:21 final size:19
Alignment explanation
Indices: 46848633--46848680 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
46848623 CCATTATGTT
46848633 TTCTTATATTTTAACCTTTTA
1 TTCTTATATTTTAA--TTTTA
*
46848654 TTCTTTTATTTTAATTTTA
1 TTCTTATATTTTAATTTTA
46848673 TTACTTAT
1 TT-CTTAT
46848681 TTTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 13 0.54
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (19 bp):
TTCTTATATTTTAATTTTA
Found at i:46853868 original size:60 final size:61
Alignment explanation
Indices: 46853800--46853918 Score: 222
Period size: 61 Copynumber: 2.0 Consensus size: 61
46853790 CTTTTACATT
*
46853800 AAAATATATTCTCTTATTGTTGAAATTA-TTTTTGCATCCCGAAACTGATTTCTGTTTGTA
1 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTGTA
46853860 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTG
1 AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTG
46853919 ACTCGTTTCT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 28 0.49
61 29 0.51
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (61 bp):
AAAATATATTCTCTTATTGTTGAAATTATTTTTTGCATCCCGAAACTGATTTCTATTTGTA
Found at i:46855088 original size:14 final size:14
Alignment explanation
Indices: 46855069--46855099 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
46855059 CCACAAACTA
46855069 GAGTGTTATGGTTG
1 GAGTGTTATGGTTG
46855083 GAGTGTTATGGTTG
1 GAGTGTTATGGTTG
46855097 GAG
1 GAG
46855100 GAATTCTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (14 bp):
GAGTGTTATGGTTG
Found at i:46855519 original size:41 final size:41
Alignment explanation
Indices: 46855473--46855552 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
46855463 TTTTGAACTG
46855473 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
*
46855514 TGGCATTAGACTTAGAATTTGGGTTTTGTTTTTATATTG
1 TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTG
46855553 AACCTCAGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (41 bp):
TGGCATTAGACTTAGAATTTGAGTTTTGTTTTTATATTGCA
Found at i:46861280 original size:16 final size:16
Alignment explanation
Indices: 46861245--46861284 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
46861235 AAAGTGCACC
*
46861245 AAATATTTTTATAATA
1 AAATATTTTTAAAATA
46861261 AAATATTTTTAAAAATA
1 AAATATTTTT-AAAATA
46861278 AATATAT
1 AA-ATAT
46861285 AACAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 7 0.33
18 4 0.19
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATATTTTTAAAATA
Found at i:46861291 original size:17 final size:17
Alignment explanation
Indices: 46861271--46861306 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
46861261 AAATATTTTT
*
46861271 AAAAATAAATATATAAC
1 AAAAATAAACATATAAC
*
46861288 AAAAATAGACATATAAC
1 AAAAATAAACATATAAC
46861305 AA
1 AA
46861307 TTTTTAGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (17 bp):
AAAAATAAACATATAAC
Found at i:46880693 original size:40 final size:40
Alignment explanation
Indices: 46880638--46880719 Score: 121
Period size: 40 Copynumber: 2.0 Consensus size: 40
46880628 GCCCATTTGA
*
46880638 GATAGTGCATGTTTATCCTCAT-GAGGTTATAGAAGTTAAT
1 GATAGTGCATGTTTATCCTCATGGA-GCTATAGAAGTTAAT
* *
46880678 GATAGTTCATGTTTATCCTCATGGAGCTGTAGAAGTTAAT
1 GATAGTGCATGTTTATCCTCATGGAGCTATAGAAGTTAAT
46880718 GA
1 GA
46880720 CAACAAGACT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 36 0.95
41 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (40 bp):
GATAGTGCATGTTTATCCTCATGGAGCTATAGAAGTTAAT
Found at i:46890302 original size:24 final size:24
Alignment explanation
Indices: 46890268--46890313 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
46890258 TGTTCTTTTT
*
46890268 TAATTTCTATTTCTTATTTATTTG
1 TAATTTCTATTTATTATTTATTTG
* *
46890292 TAATTTTTATTTATTTTTTATT
1 TAATTTCTATTTATTATTTATT
46890314 CTCAAATTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (24 bp):
TAATTTCTATTTATTATTTATTTG
Found at i:46891530 original size:6 final size:6
Alignment explanation
Indices: 46891519--46891563 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
46891509 GCAAATAGAT
46891519 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CAT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CAT
46891564 CTCAATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.18, C:0.33, G:0.00, T:0.49
Consensus pattern (6 bp):
CATTTC
Found at i:46902740 original size:27 final size:26
Alignment explanation
Indices: 46902684--46902741 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
46902674 GTTAACACTT
* *
46902684 AAAAACTAAAGAATTTAAAGTTCATC
1 AAAAACTAAAGAAATTAAAGTGCATC
* * *
46902710 AAAACACTAAATAAATTAATGTGCATG
1 AAAA-ACTAAAGAAATTAAAGTGCATC
46902737 AAAAA
1 AAAAA
46902742 TGTATGAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.57, C:0.10, G:0.09, T:0.24
Consensus pattern (26 bp):
AAAAACTAAAGAAATTAAAGTGCATC
Found at i:46907874 original size:26 final size:25
Alignment explanation
Indices: 46907845--46908013 Score: 99
Period size: 26 Copynumber: 6.5 Consensus size: 25
46907835 ATACATAGTA
* *
46907845 CCTGATAAATATACACCGGCTCAAAG
1 CCTGCTAAATA-ACACAGGCTCAAAG
** *
46907871 CCTGCTAAATAACCACAAACTCAAGG
1 CCTGCTAAATAA-CACAGGCTCAAAG
* *
46907897 TCTGCTAAATAAACACTGGCTCAAAG
1 CCTGCTAAAT-AACACAGGCTCAAAG
* *
46907923 CCTGCTAAATAA-ACATCGTCTCAATG
1 CCTGCTAAATAACACA--GGCTCAAAG
** * * *
46907949 TTTGCTAAATAAC-CATTAGCTCGAGG
1 CCTGCTAAATAACACA--GGCTCAAAG
* * *
46907975 CCTGCTAAATAATCACTGACTTAAAG
1 CCTGCTAAATAA-CACAGGCTCAAAG
46908001 CCTGCTAAATAAC
1 CCTGCTAAATAAC
46908014 CACTGGTTCA
Statistics
Matches: 107, Mismatches: 29, Indels: 15
0.71 0.19 0.10
Matches are distributed among these distances:
24 2 0.02
25 4 0.04
26 97 0.91
27 3 0.03
28 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (25 bp):
CCTGCTAAATAACACAGGCTCAAAG
Found at i:46907928 original size:52 final size:51
Alignment explanation
Indices: 46907850--46908024 Score: 161
Period size: 52 Copynumber: 3.4 Consensus size: 51
46907840 TAGTACCTGA
* * * * *
46907850 TAAATATACACCGGCTCAAAGCCTGCTAAATAACCACAAACTCAAGGTCTGC
1 TAAATAAACACTGGCTCAAAGCCTGCTAAATAAACAC-GACTCAAAGTCTGC
* * *
46907902 TAAATAAACACTGGCTCAAAGCCTGCTAAATAAACATCGTCTCAATGTTTGC
1 TAAATAAACACTGGCTCAAAGCCTGCTAAATAAACA-CGACTCAAAGTCTGC
* * * * * * * *
46907954 TAAATAACCATTAGCTCGAGGCCTGCTAAATAATCACTGACTTAAAGCCTGC
1 TAAATAAACACTGGCTCAAAGCCTGCTAAATAAACAC-GACTCAAAGTCTGC
* *
46908006 TAAATAACCACTGGTTCAA
1 TAAATAAACACTGGCTCAA
46908025 GGTTCTGCTT
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
51 1 0.01
52 97 0.98
53 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (51 bp):
TAAATAAACACTGGCTCAAAGCCTGCTAAATAAACACGACTCAAAGTCTGC
Found at i:46908017 original size:26 final size:26
Alignment explanation
Indices: 46907864--46908018 Score: 134
Period size: 26 Copynumber: 6.0 Consensus size: 26
46907854 TATACACCGG
**
46907864 CTCAAAGCCTGCTAAATAACCACAAA
1 CTCAAAGCCTGCTAAATAACCACTGA
* * * *
46907890 CTCAAGGTCTGCTAAATAAACACTGG
1 CTCAAAGCCTGCTAAATAACCACTGA
* *
46907916 CTCAAAGCCTGCTAAATAAACA-TCGT
1 CTCAAAGCCTGCTAAATAACCACT-GA
* ** *
46907942 CTCAATGTTTGCTAAATAACCA-TTA
1 CTCAAAGCCTGCTAAATAACCACTGA
* * *
46907967 GCTCGAGGCCTGCTAAATAATCACTGA
1 -CTCAAAGCCTGCTAAATAACCACTGA
*
46907994 CTTAAAGCCTGCTAAATAACCACTG
1 CTCAAAGCCTGCTAAATAACCACTG
46908019 GTTCAAGGTT
Statistics
Matches: 101, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
25 1 0.01
26 98 0.97
27 2 0.02
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.24
Consensus pattern (26 bp):
CTCAAAGCCTGCTAAATAACCACTGA
Found at i:46910490 original size:9 final size:10
Alignment explanation
Indices: 46910459--46910518 Score: 56
Period size: 9 Copynumber: 6.4 Consensus size: 10
46910449 TTAATTATTC
46910459 TTTTTAAAT-
1 TTTTTAAATA
**
46910468 TTTAAAAATA
1 TTTTTAAATA
46910478 TTTTTAAAT-
1 TTTTTAAATA
*
46910487 TTTTTATATA
1 TTTTTAAATA
*
46910497 TTGTT-AATA
1 TTTTTAAATA
46910506 TTTTTAAAT-
1 TTTTTAAATA
46910515 TTTT
1 TTTT
46910519 CAAAATAATT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
9 26 0.65
10 14 0.35
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (10 bp):
TTTTTAAATA
Found at i:46910497 original size:19 final size:19
Alignment explanation
Indices: 46910459--46910513 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
46910449 TTAATTATTC
*
46910459 TTTTTAAATTTTAAAAATA
1 TTTTTAAATTTTTAAAATA
* *
46910478 TTTTTAAATTTTTTATATA
1 TTTTTAAATTTTTAAAATA
*
46910497 TTGTTAATATTTTTAAA
1 TTTTTAA-ATTTTTAAA
46910514 TTTTTCAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTTTTAAAATA
Found at i:46910729 original size:12 final size:12
Alignment explanation
Indices: 46910696--46910729 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
46910686 ATTAAAAAAG
46910696 ATAAAAATTAAA
1 ATAAAAATTAAA
46910708 ATAAATAATTAAA
1 ATAAA-AATTAAA
*
46910721 ATAACAATT
1 ATAAAAATT
46910730 TTTTATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
ATAAAAATTAAA
Found at i:46911660 original size:11 final size:11
Alignment explanation
Indices: 46911634--46911691 Score: 62
Period size: 11 Copynumber: 5.2 Consensus size: 11
46911624 AACTAATCCT
*
46911634 CTCTCAAATCTC
1 CTCTC-AATTTC
46911646 CTCTCAATTTC
1 CTCTCAATTTC
*
46911657 CTCTAAATTTC
1 CTCTCAATTTC
*
46911668 CTCTCAATTTG
1 CTCTCAATTTC
* *
46911679 CTTTCAAATTC
1 CTCTCAATTTC
46911690 CT
1 CT
46911692 TCCAAATTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
11 34 0.87
12 5 0.13
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:46911669 original size:22 final size:23
Alignment explanation
Indices: 46911634--46911710 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
46911624 AACTAATCCT
46911634 CTCTCAAATCTCCTCTCAATTTC
1 CTCTCAAATCTCCTCTCAATTTC
* *
46911657 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATCTCCTCTCAATTTC
*
46911679 CTTTCAAAT-TCCT-TCCAAATTT-
1 CTCTCAAATCTCCTCT-C-AATTTC
46911701 CTCTCAAATC
1 CTCTCAAATC
46911711 CATATTTAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 1 0.02
22 32 0.70
23 13 0.28
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATCTCCTCTCAATTTC
Found at i:46911708 original size:11 final size:11
Alignment explanation
Indices: 46911633--46911709 Score: 54
Period size: 11 Copynumber: 6.9 Consensus size: 11
46911623 AAACTAATCC
46911633 TCTCTCAAATCT
1 TCTCTCAAAT-T
*
46911645 CCTCTC-AATT
1 TCTCTCAAATT
46911655 TC-CTCTAAATT
1 TCTCTC-AAATT
46911666 TCCTCTC-AATT
1 T-CTCTCAAATT
*
46911677 TGCTTTCAAATT
1 T-CTCTCAAATT
*
46911689 CCT-TCCAAATT
1 TCTCT-CAAATT
46911700 TCTCTCAAAT
1 TCTCTCAAAT
46911710 CCATATTTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
9 3 0.06
10 3 0.06
11 32 0.62
12 11 0.21
13 3 0.06
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:46911726 original size:51 final size:51
Alignment explanation
Indices: 46911669--46911768 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
46911659 CTAAATTTCC
*
46911669 TCTCAATTTGCTTTCAAATTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * * *
46911720 TCTCAATTTGCTCTCAAGTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTT
46911769 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 42 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:46912921 original size:7 final size:7
Alignment explanation
Indices: 46912909--46912934 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
46912899 TTGTCGATTG
46912909 GTATTTA
1 GTATTTA
46912916 GTATTTA
1 GTATTTA
46912923 GTATTTA
1 GTATTTA
46912930 GTATT
1 GTATT
46912935 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:46913891 original size:21 final size:21
Alignment explanation
Indices: 46913865--46913911 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
46913855 CAACTCCGAC
*
46913865 AACCAG-ATGCCCTACCGGAAG
1 AACCAGAAT-CCCCACCGGAAG
*
46913886 AACCAGAATCCCCGCCGGAAG
1 AACCAGAATCCCCACCGGAAG
46913907 AACCA
1 AACCA
46913912 CAACCTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.36, C:0.36, G:0.21, T:0.06
Consensus pattern (21 bp):
AACCAGAATCCCCACCGGAAG
Found at i:46913922 original size:21 final size:21
Alignment explanation
Indices: 46913879--46913927 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
46913869 AGATGCCCTA
*
46913879 CCGGAAGAACCAGAATCCCCG
1 CCGGAAGAACCACAATCCCCG
*
46913900 CCGGAAGAACCACAA-CCTTCG
1 CCGGAAGAACCACAATCC-CCG
46913921 CCGGAAG
1 CCGGAAG
46913928 CTGGACAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 2 0.08
21 23 0.92
ACGTcount: A:0.33, C:0.37, G:0.24, T:0.06
Consensus pattern (21 bp):
CCGGAAGAACCACAATCCCCG
Found at i:46914206 original size:27 final size:27
Alignment explanation
Indices: 46914174--46914227 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
46914164 ACAAACCTTA
*
46914174 AACCCTTAACCTAAAAATCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
*
46914201 AACCCTTAACTTAAAAACCCTAACCCT
1 AACCCTTAACCTAAAAACCCTAACCCT
46914228 TAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (27 bp):
AACCCTTAACCTAAAAACCCTAACCCT
Found at i:46914247 original size:22 final size:21
Alignment explanation
Indices: 46914195--46914772 Score: 726
Period size: 21 Copynumber: 27.0 Consensus size: 21
46914185 TAAAAATCCT
46914195 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46914216 AACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAA
*
46914237 AACCCTAAACCATTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
46914259 AACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAA
46914281 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46914302 AACCATAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
46914324 AACCCTAACCCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAA
46914346 AACCCTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
46914368 AACCCTAACCCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAA
* * *
46914390 ACCCCTAAACCATTAACTTCAA
1 AACCCT-AACCCTTAACTTAAA
46914412 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
* *
46914433 AACCCTAAACCCTTAAATTTAA
1 AACCCT-AACCCTTAACTTAAA
*
46914455 AACCTTAAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
46914477 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46914498 AACCCTAAAACCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
*
46914520 AACCCTAACTCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
*
46914541 AACCCTAAACCTTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAA
* *
46914563 AACTCTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
46914584 AACCCTAAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAA
* * *
46914606 AATCGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * *
46914627 AATCGTAACCCTTAA-ATAAA
1 AACCCTAACCCTTAACTTAAA
* *
46914647 AACCCTAACACTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
*
46914668 AACTCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
** *
46914689 AACTGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAA
* * * *
46914710 AATCATAACCCTTAAATAAAA
1 AACCCTAACCCTTAACTTAAA
* *
46914731 AACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46914752 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46914773 TATAATTTGA
Statistics
Matches: 487, Mismatches: 59, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
20 15 0.03
21 245 0.50
22 223 0.46
23 4 0.01
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (21 bp):
AACCCTAACCCTTAACTTAAA
Found at i:46914296 original size:43 final size:42
Alignment explanation
Indices: 46914195--46914772 Score: 726
Period size: 43 Copynumber: 13.5 Consensus size: 42
46914185 TAAAAATCCT
*
46914195 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
46914237 AACCCTAAACCATTAACTTAAAAACCATAAACCCTTAACCTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
*
46914281 AACCCTAACCCTTAACTTAAAAACCATAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
46914324 AACCCTAACCCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAA-CCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * *
46914368 AACCCTAACCCCTTAACTTAAAACCCCTAAACCATTAACTTCAA
1 AACCCTAA-CCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* *
46914412 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAAATTTAA
1 AACCCTAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
*
46914455 AACCTTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* *
46914498 AACCCTAAAACCTTAACTTAAAAACCCTAACTCTTAACTTAAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
46914541 AACCCTAAACCTTTAACTTAAAAACTCTAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
46914584 AACCCTAAACCCTTAACTTTAAAATCGTAACCCTTAACTTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * *
46914627 AATCGTAACCCTTAA-ATAAAAACCCTAACACTTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* ** *
46914668 AACTCTAACCCTTAACTTAAAAACTGTAACCCTTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * * *
46914710 AATCATAACCCTTAAATAAAAAACTCTAACACTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
46914752 AACCCTAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
46914773 TATAATTTGA
Statistics
Matches: 475, Mismatches: 56, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
41 33 0.07
42 88 0.19
43 231 0.49
44 123 0.26
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.26
Consensus pattern (42 bp):
AACCCTAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:46917230 original size:17 final size:18
Alignment explanation
Indices: 46917203--46917246 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
46917193 AGATTATAAA
*
46917203 ATATGAAAATATAAACAT
1 ATATAAAAATATAAACAT
*
46917221 -TATAAAAATATAAATAT
1 ATATAAAAATATAAACAT
46917238 ATATAAAAA
1 ATATAAAAA
46917247 AACTATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
ATATAAAAATATAAACAT
Found at i:46917577 original size:10 final size:10
Alignment explanation
Indices: 46917562--46917595 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
46917552 AAATACAATA
46917562 ATAATACTAT
1 ATAATACTAT
46917572 ATAATACTAT
1 ATAATACTAT
46917582 ATAATA-TA-
1 ATAATACTAT
46917590 ATAATA
1 ATAATA
46917596 AACTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.25
9 2 0.08
10 16 0.67
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATACTAT
Found at i:46919273 original size:50 final size:50
Alignment explanation
Indices: 46919218--46919592 Score: 277
Period size: 50 Copynumber: 7.5 Consensus size: 50
46919208 CAGGGAAACC
* *
46919218 AGATCCGCGGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * * ** * * * * * **
46919268 AGATCCGCCGTTGTGGCTTCAATCT-TTTTAGTTGCGCTGTCGGGGAAACCA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCA-CTGCACCGCCAGGG-AAGTA
* *
46919319 A-ATCTGCCGTTGTGACTTCAATCTGCTCCACTGCATCGCCCGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
** * ** ** * * *** * ***
46919368 AGATCCACCGTTGTGGCTTCAATCTTTTTAATTGCGCTATCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* *
46919418 AGATCTACAGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
* * ** ** * * * * * ***
46919468 AGATCTGCCGTTATGGCTTCAATCTTTTTAATTGCGCTGTCGGGGAAACC
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
46919518 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
1 AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
*
46919568 AGATCTGCCGTTGTGGCTTCAATCT
1 AGATCTGCCGTTGTGACTTCAATCT
46919593 TTTAAATTGC
Statistics
Matches: 232, Mismatches: 89, Indels: 8
0.71 0.27 0.02
Matches are distributed among these distances:
49 6 0.03
50 220 0.95
51 6 0.03
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.28
Consensus pattern (50 bp):
AGATCTGCCGTTGTGACTTCAATCTGCTCCACTGCACCGCCAGGGAAGTA
Found at i:46919353 original size:100 final size:100
Alignment explanation
Indices: 46919138--46919602 Score: 704
Period size: 100 Copynumber: 4.7 Consensus size: 100
46919128 GCCGTCGTAG
* * * * *
46919138 CTTCAATCTGTTCAACTGCACCGCTAAGGAGGTAAGATCCGCCGTTGTGGCTTCAA----TTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* * * *
46919199 TTACGCTATCAGGGAAACCAGATCCGCGGTTGTGA
66 TTGCGCTATCGGGGAAACCAGATCTGCCGTTGTGA
*
46919234 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAG
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* *
46919299 TTGCGCTGTCGGGGAAACCAAATCTGCCGTTGTGA
66 TTGCGCTATCGGGGAAACCAGATCTGCCGTTGTGA
* * *
46919334 CTTCAATCTGCTCCACTGCATCGCCCGGGAAGTAAGATCCACCGTTGTGGCTTCAATCTTTTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
* *
46919399 TTGCGCTATCGGGGAAACCAGATCTACAGTTGTGA
66 TTGCGCTATCGGGGAAACCAGATCTGCCGTTGTGA
* *
46919434 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTATGGCTTCAATCTTTTTAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
*
46919499 TTGCGCTGTCGGGGAAACCAGATCTGCCGTTGTGA
66 TTGCGCTATCGGGGAAACCAGATCTGCCGTTGTGA
* *
46919534 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTAAA
1 CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
46919599 TTGC
66 TTGC
46919603 AATGTCAAAG
Statistics
Matches: 335, Mismatches: 30, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
96 51 0.15
100 284 0.85
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.29
Consensus pattern (100 bp):
CTTCAATCTGCTCCACTGCACCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAA
TTGCGCTATCGGGGAAACCAGATCTGCCGTTGTGA
Found at i:46921071 original size:6 final size:7
Alignment explanation
Indices: 46921044--46921092 Score: 66
Period size: 7 Copynumber: 7.0 Consensus size: 7
46921034 TTAGCCTCTC
46921044 CATTTTT
1 CATTTTT
46921051 -ACTTTTT
1 CA-TTTTT
46921058 CCATTTTT
1 -CATTTTT
46921066 CATTTTT
1 CATTTTT
46921073 CATTTTT
1 CATTTTT
46921080 CA-TTTT
1 CATTTTT
46921086 CATTTTT
1 CATTTTT
46921093 TCACATCTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 25 0.66
8 5 0.13
9 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (7 bp):
CATTTTT
Found at i:46921095 original size:14 final size:14
Alignment explanation
Indices: 46921044--46921092 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
46921034 TTAGCCTCTC
46921044 CATTTTT-ACTTTTT
1 CATTTTTCA-TTTTT
46921058 CCATTTTTCATTTTT
1 -CATTTTTCATTTTT
46921073 CATTTTTCA-TTTT
1 CATTTTTCATTTTT
46921086 CATTTTT
1 CATTTTT
46921093 TCACATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.33
14 9 0.27
15 12 0.36
16 1 0.03
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.69
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:46921616 original size:1 final size:1
Alignment explanation
Indices: 46921601--46921687 Score: 57
Period size: 1 Copynumber: 87.0 Consensus size: 1
46921591 CCAGTGGAGG
* * * * * * * * * **
46921601 TTTTTTGTTTCTTTTTGTTTTTGTTTTTTTTTCTTTTTTTCTTTTTTTCTTCTTCTTTTTTTTCC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
46921666 TTTTCTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTT
46921688 GCATTGAATC
Statistics
Matches: 62, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.85
Consensus pattern (1 bp):
T
Found at i:46921623 original size:16 final size:15
Alignment explanation
Indices: 46921601--46921681 Score: 71
Period size: 15 Copynumber: 5.4 Consensus size: 15
46921591 CCAGTGGAGG
46921601 TTTTTTGTTTCTTTT
1 TTTTTTGTTTCTTTT
46921616 TGTTTTTGTTT-TTTT
1 T-TTTTTGTTTCTTTT
46921631 TTCTTTT-TTTCTTTT
1 TT-TTTTGTTTCTTTT
* *
46921646 TTTCTT-CTTCTTTT
1 TTTTTTGTTTCTTTT
*
46921660 TTTTCCT-TTTCTTTT
1 TTTT-TTGTTTCTTTT
46921675 TTCTTTT
1 TT-TTTT
46921682 TTTTTTGCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
14 17 0.31
15 27 0.49
16 11 0.20
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (15 bp):
TTTTTTGTTTCTTTT
Found at i:46921633 original size:22 final size:21
Alignment explanation
Indices: 46921600--46921688 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 21
46921590 CCCAGTGGAG
46921600 GTTTTTTGTTTCTTTTTGTTTTT
1 GTTTTTT-TTTCTTTTT-TTTTT
46921623 GTTTTTTTTTCTTTTTTTCTTT
1 GTTTTTTTTTCTTTTTTT-TTT
*
46921645 -TTTTCTTCTTCTTTTTTTTCCTT
1 GTTTT-TTTTTCTTTTTTTT--TT
*
46921668 -TTCTTTTTTCTTTTTTTTTT
1 GTTTTTTTTTCTTTTTTTTTT
46921688 G
1 G
46921689 CATTGAATCT
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
20 2 0.03
21 7 0.12
22 37 0.64
23 12 0.21
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (21 bp):
GTTTTTTTTTCTTTTTTTTTT
Found at i:46921685 original size:16 final size:15
Alignment explanation
Indices: 46921601--46921687 Score: 79
Period size: 16 Copynumber: 5.7 Consensus size: 15
46921591 CCAGTGGAGG
*
46921601 TTTTTTGTTTCTTTTTG
1 TTTTTT-TTT-TTTTTC
46921618 TTTTTGTTTTTTTTTC
1 TTTTT-TTTTTTTTTC
46921634 TTTTTTTCTTTTTTTC
1 TTTTTTT-TTTTTTTC
* *
46921650 TTCTTCTTTTTTTTC
1 TTTTTTTTTTTTTTC
* *
46921665 --CTTTTCTTTTTTC
1 TTTTTTTTTTTTTTC
46921678 TTTTTTTTTT
1 TTTTTTTTTT
46921688 GCATTGAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
13 11 0.19
15 16 0.27
16 23 0.39
17 8 0.14
18 1 0.02
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.85
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:46925816 original size:24 final size:25
Alignment explanation
Indices: 46925752--46925843 Score: 71
Period size: 28 Copynumber: 3.6 Consensus size: 25
46925742 GAAAGTACAT
* * *
46925752 ATATATATATATATATATTATAAAGA
1 ATATAAATGTATATACATTATAAA-A
** *
46925778 ATGTATAAACATATATAGATTAT-AAA
1 A--TATAAATGTATATACATTATAAAA
*
46925804 ATATGAAA-GTATAAACATTATAAAA
1 ATAT-AAATGTATATACATTATAAAA
46925829 ATATAAATGTATATA
1 ATATAAATGTATATA
46925844 AAAAAACTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
24 16 0.30
25 16 0.30
26 3 0.06
27 2 0.04
28 17 0.31
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (25 bp):
ATATAAATGTATATACATTATAAAA
Found at i:46926181 original size:28 final size:26
Alignment explanation
Indices: 46926142--46926194 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
46926132 TGCATACGCA
46926142 TATATAAATAAATACA-ATAATAATAC
1 TATATAAATAAATA-ATATAATAATAC
46926168 TATATAATACTAAATAATATAATAATA
1 TATATAA-A-TAAATAATATAATAATA
46926195 AACTAACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 7 0.29
27 2 0.08
28 15 0.62
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
TATATAAATAAATAATATAATAATAC
Found at i:46926199 original size:20 final size:21
Alignment explanation
Indices: 46926148--46926200 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
46926138 CGCATATATA
*
46926148 AATAAA-TACAATAATAATACT
1 AATAAACTA-AATAATAATAAT
46926169 ATATAATACTAAATAAT-ATAAT
1 A-ATAA-ACTAAATAATAATAAT
46926191 AATAAACTAA
1 AATAAACTAA
46926201 CAATGATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 5 0.18
21 5 0.18
22 9 0.32
23 7 0.25
24 2 0.07
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAAACTAAATAATAATAAT
Found at i:46929469 original size:127 final size:126
Alignment explanation
Indices: 46929030--46929591 Score: 734
Period size: 126 Copynumber: 4.5 Consensus size: 126
46929020 AACATGCTAT
* * * * * *
46929030 TGTAGTAAAAACGCGTCCACGTGGGTGCGATTTCATAAATTCTTCTCATAAAACATCCTGCTAGA
1 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
** * * *
46929095 AGCG--ACTTTATACTGTTTGCTCAAAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
66 AGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
46929154 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCTTG
1 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTTG
* * * * * * *
46929218 CAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCACGAGCTAC
65 AAGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* **
46929280 TGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* *
46929345 AGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAAC
66 AGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCTAC
* * * * *
46929407 TGCAGCAAAAGCGCGTCCATGAGGATGCGATTTCAAAAATTTTTCTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
*
46929472 AGCATTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
66 AGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
* * * * * * * * * *
46929533 TGTAGCAAAAGCGTGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCT
1 TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCT
46929592 CCTTTGACTT
Statistics
Matches: 384, Mismatches: 49, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
123 2 0.01
124 59 0.15
126 209 0.54
127 114 0.30
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (126 bp):
TGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGTTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCTAC
Found at i:46929491 original size:253 final size:250
Alignment explanation
Indices: 46929025--46929591 Score: 767
Period size: 253 Copynumber: 2.3 Consensus size: 250
46929015 GCCCAAACAT
* * * * *
46929025 GCTATTGTAGTAAAAACGCGTCCACGTGGGTGCGATTTCATAAATTCTTCTCATAAAACATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAACATCCTG
* * * *
46929090 CTAGAAGCGACTTTATACTGTTTGCTCAAAAACGTCAAGTCGAAATTATTTTTCCAGGACCTACT
66 CTAGAAGCGACTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACT
* * * *
46929155 GTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGCA
131 GCAGCAAAAGCGCGTCCACGAGGATGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGCTTGAA
* * * *
46929220 GCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCACGA
196 GCATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCACGA
* * *
46929275 GCTACTGTAGCAAAAGCGCGTCCACGTGGGCACGATTTCACAAATTCTTCTCATAAAGCATCCTG
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAACATCCTG
* ** *
46929340 CTTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 CTAGAAGCG--ACTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTT-TTCCAGGACCA
* *
46929405 ACTGCAGCAAAAGCGCGTCCATGAGGATGCGATTTCAAAAATTTTTCTCATAA-AGCATCCTGCT
128 ACTGCAGCAAAAGCGCGTCCACGAGGATGCGATTTCAAAAATTCTTCTCA-AATAGCATCCTGCT
* *
46929469 TGAAGCATTTTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGA
192 TGAAGCATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCACGA
* * * * * * * *
46929528 CCTACTGTAGCAAAAGCGTGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAACATCCT
46929592 CCTTTGACTT
Statistics
Matches: 276, Mismatches: 37, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
250 66 0.24
252 36 0.13
253 172 0.62
254 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (250 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCAAAAATTCTTCTCATAAAACATCCTG
CTAGAAGCGACTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCAGGACCAACT
GCAGCAAAAGCGCGTCCACGAGGATGCGATTTCAAAAATTCTTCTCAAATAGCATCCTGCTTGAA
GCATTGTTTTAAACTATTTGCTCAAAAACGTCAACTCGAAATTATTTTTCCACGA
Found at i:46929848 original size:40 final size:38
Alignment explanation
Indices: 46929820--46929928 Score: 92
Period size: 40 Copynumber: 2.7 Consensus size: 38
46929810 GACGTGGACA
* *
46929820 CAAACCGCGCTTACGTGGACGCGATTTGCTCCCACGTCAG
1 CAAACCGCGCTGACGTGGACGCGATTTGCT--GACGTCAG
* * **
46929860 TAAACCGCGCTGACGTGGACGCGATTTACTGACACGTCTC
1 CAAACCGCGCTGACGTGGACGCGATTTGCTG--ACGTCAG
* *
46929900 CTGACATCGCGCTGACGTGGACGCGATTT
1 C--AAACCGCGCTGACGTGGACGCGATTT
46929929 AGGGGAAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
40 32 0.57
42 24 0.43
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.22
Consensus pattern (38 bp):
CAAACCGCGCTGACGTGGACGCGATTTGCTGACGTCAG
Found at i:46930303 original size:32 final size:31
Alignment explanation
Indices: 46930267--46930333 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 31
46930257 GTTCTAATTG
46930267 AATATAATATAATATTTTT-ATGCTTATAATAT
1 AATATAATATAATATTTTTCAT--TTATAATAT
46930299 AATATAATATAATATTTTTCATTTATAATAT
1 AATATAATATAATATTTTTCATTTATAATAT
46930330 AATA
1 AATA
46930334 CTCTTATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 13 0.38
32 19 0.56
33 2 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
AATATAATATAATATTTTTCATTTATAATAT
Found at i:46935907 original size:4 final size:4
Alignment explanation
Indices: 46935892--46935928 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
46935882 ACAATTTCAT
*
46935892 TATG TGTG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
46935929 TTTTCAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:46938791 original size:20 final size:19
Alignment explanation
Indices: 46938766--46938807 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
46938756 CATAATAATA
*
46938766 TATATAAATATATATTTTAT
1 TATATAAATACATA-TTTAT
*
46938786 TATATAATTACATATTTAT
1 TATATAAATACATATTTAT
46938805 TAT
1 TAT
46938808 TTTATTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATAAATACATATTTAT
Found at i:46945680 original size:14 final size:15
Alignment explanation
Indices: 46945657--46945697 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
46945647 ATTTATCACC
46945657 TTTTTG-TATTATTA
1 TTTTTGTTATTATTA
*
46945671 -TTTTGTTATTACTA
1 TTTTTGTTATTATTA
46945685 TTTTTGTT-TTATT
1 TTTTTGTTATTATT
46945698 CCCGTTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 7 0.30
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.73
Consensus pattern (15 bp):
TTTTTGTTATTATTA
Found at i:46947938 original size:26 final size:26
Alignment explanation
Indices: 46947901--46947965 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
46947891 AACAAACATT
*
46947901 TTTTTCTTCTTTTACA-AATTTTAATAA
1 TTTTT-TTCTTTTACATAA-GTTAATAA
*
46947928 TTTTTTTCTTTTTCATAAGTTAATAA
1 TTTTTTTCTTTTACATAAGTTAATAA
*
46947954 TTTTTTTATTTT
1 TTTTTTTCTTTT
46947966 TGTGCAACCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 27 0.79
27 7 0.21
ACGTcount: A:0.25, C:0.08, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTTTTTCTTTTACATAAGTTAATAA
Found at i:46951969 original size:22 final size:21
Alignment explanation
Indices: 46951943--46951983 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
46951933 CGACAACCAG
*
46951943 ATCCCCTACCGGAGGAACCAAA
1 ATCCCC-ACCGGAGCAACCAAA
*
46951965 ATCCCCGCCGGAGCAACCA
1 ATCCCCACCGGAGCAACCA
46951984 CAACCCGGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.32, C:0.41, G:0.20, T:0.07
Consensus pattern (21 bp):
ATCCCCACCGGAGCAACCAAA
Found at i:46954369 original size:16 final size:16
Alignment explanation
Indices: 46954348--46954385 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
46954338 GGTTTAAATT
*
46954348 TAAAATT-AGAATGATG
1 TAAAATTAAGAAT-AAG
46954364 TAAAATTAAGAATAAG
1 TAAAATTAAGAATAAG
46954380 TAAAAT
1 TAAAAT
46954386 ATTTTATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (16 bp):
TAAAATTAAGAATAAG
Found at i:46956545 original size:47 final size:46
Alignment explanation
Indices: 46956494--46956619 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 46
46956484 ATCGTTCTCG
**
46956494 GGCCATTTTAGATGGTAGTATATTGAAATAGAAAGCCATCGTTGCTA
1 GGCCATTCGAGATGGTAGTATATTGAAATAGAAAGCCATCGTTG-TA
* * *
46956541 GGCCATTCGGGATGGTAGTCTATTGGAAA-AGAAAGCCATCGTTGTC
1 GGCCATTCGAGATGGTAGTATATT-GAAATAGAAAGCCATCGTTGTA
* *
46956587 GGCCCATCCGAGATGGTAGAATATTGAAATAGA
1 GG-CCATTCGAGATGGTAGTATATTGAAATAGA
46956620 GTAAATCATC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 7 0.10
47 56 0.84
48 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (46 bp):
GGCCATTCGAGATGGTAGTATATTGAAATAGAAAGCCATCGTTGTA
Found at i:46957694 original size:21 final size:21
Alignment explanation
Indices: 46957670--46957715 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
46957660 GACATGGCCG
46957670 TGTGGCTACCCCACACACCCA
1 TGTGGCTACCCCACACACCCA
* * *
46957691 TGTGGCTACTCCACACGCCTA
1 TGTGGCTACCCCACACACCCA
46957712 TGTG
1 TGTG
46957716 CTTAGACCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.22
Consensus pattern (21 bp):
TGTGGCTACCCCACACACCCA
Found at i:46959512 original size:18 final size:18
Alignment explanation
Indices: 46959489--46959527 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
46959479 CACATTTTCC
46959489 AAACATAGTACTCAACTT
1 AAACATAGTACTCAACTT
46959507 AAACATAGTACTCAACTT
1 AAACATAGTACTCAACTT
46959525 AAA
1 AAA
46959528 TATCATCACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (18 bp):
AAACATAGTACTCAACTT
Found at i:46968499 original size:25 final size:25
Alignment explanation
Indices: 46968471--46968518 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
46968461 CCCGTTATTT
**
46968471 AGCTCTCGTGAGCATCCTGATATAG
1 AGCTCTCACGAGCATCCTGATATAG
*
46968496 AGCTCTCACGAGCTTCCTGATAT
1 AGCTCTCACGAGCATCCTGATAT
46968519 TGGCTCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCTCTCACGAGCATCCTGATATAG
Found at i:46968599 original size:25 final size:25
Alignment explanation
Indices: 46968529--46968599 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
46968519 TGGCTCTTTG
* *
46968529 GAGCTTCCCAATA-ATTGGCTCGCAA
1 GAGCTTCCCATTATATT-GCTCACAA
** ** *
46968554 GAGCTTCCTGTTATACAGCTCACAT
1 GAGCTTCCCATTATATTGCTCACAA
46968579 GAGCTTCCCATTATATTGCTC
1 GAGCTTCCCATTATATTGCTC
46968600 GGAAAAGCTT
Statistics
Matches: 34, Mismatches: 11, Indels: 2
0.72 0.23 0.04
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (25 bp):
GAGCTTCCCATTATATTGCTCACAA
Found at i:46978160 original size:15 final size:15
Alignment explanation
Indices: 46978140--46978170 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
46978130 TATCAAGCCA
46978140 CTTGATAACTTCTTT
1 CTTGATAACTTCTTT
46978155 CTTGATAACTTCTTT
1 CTTGATAACTTCTTT
46978170 C
1 C
46978171 ATAATTGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.23, G:0.06, T:0.52
Consensus pattern (15 bp):
CTTGATAACTTCTTT
Found at i:46982348 original size:123 final size:123
Alignment explanation
Indices: 46982130--46982506 Score: 531
Period size: 125 Copynumber: 3.0 Consensus size: 123
46982120 TAAATGATTT
* * * * * *
46982130 ATGTTTTATTTTGGGTCATATGAGTCTAATGTTGTGTTTAAAAATGGTGAC-AAACATGCTGCAA
1 ATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCGA
* *
46982194 ATACATATTATTGTACAAGTGAGTGAGTATTTGCATATGTTCATTGCATGTTAAACAG
66 ATACATATTGTTGTACAAGTGTGTGAGTATTTGCATATGTTCATTGCATGTTAAACAG
* *
46982252 ATGTTGTATTATGGGTCATATGAGTCCAATATTATGTGTAAAAATGGTGACTGAACATGCTGCGA
1 ATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCGA
* * *
46982317 ATACATATTGTTGTACAAGTGTGTGAGTATTTGCATGTATGTTAATTACATGTTAAACAT
66 ATACATATTGTTGTACAAGTGTGTGAGTATTTGCA--TATGTTCATTGCATGTTAAACAG
* * * * *
46982377 ATGTTGTATTGTAGGTCATATAAGTCCAATGTTGTGTGTAAAAACGGTGACTGAACATGATGCGA
1 ATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCGA
* *
46982442 ATACATATTGTTGTACAAGTGTGTAAGTATTTGCATATACGTTCATTGCATGTTAAACGG
66 ATACATATTGTTGTACAAGTGTGTGAGTATTTGCATAT--GTTCATTGCATGTTAAACAG
46982502 ATGTT
1 ATGTT
46982507 ACATGGTATG
Statistics
Matches: 225, Mismatches: 25, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
122 45 0.20
123 47 0.21
125 133 0.59
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (123 bp):
ATGTTGTATTATGGGTCATATGAGTCCAATGTTGTGTGTAAAAATGGTGACTGAACATGCTGCGA
ATACATATTGTTGTACAAGTGTGTGAGTATTTGCATATGTTCATTGCATGTTAAACAG
Found at i:46983447 original size:13 final size:14
Alignment explanation
Indices: 46983419--46983464 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 14
46983409 TATGCAAGTC
*
46983419 TATGTTTTAT-GA-
1 TATGTTTTATAAAT
46983431 TATGTTTT-TAAAT
1 TATGTTTTATAAAT
46983444 TATGGTTTTATAAAT
1 TAT-GTTTTATAAAT
46983459 TATGTT
1 TATGTT
46983465 GTTACACACT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 1 0.03
12 9 0.31
13 3 0.10
14 8 0.28
15 8 0.28
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (14 bp):
TATGTTTTATAAAT
Found at i:46985398 original size:26 final size:26
Alignment explanation
Indices: 46985367--46985420 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
46985357 CTGTTTGGCG
*
46985367 AACTAGGGTTCTCC-AGCTAAGTTGCA
1 AACTAGGGTTCGCCAAG-TAAGTTGCA
*
46985393 AACTAGTGTTCGCCAAGTAAGTTGCA
1 AACTAGGGTTCGCCAAGTAAGTTGCA
46985419 AA
1 AA
46985421 TTGGGGGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTAGGGTTCGCCAAGTAAGTTGCA
Found at i:46985965 original size:13 final size:13
Alignment explanation
Indices: 46985947--46986004 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
46985937 TCTGACACTC
46985947 TGTTTTTAAAATA
1 TGTTTTTAAAATA
* * *
46985960 TGTTTTCAATACA
1 TGTTTTTAAAATA
*
46985973 TGTTTTTAAAGCTA
1 TGTTTTTAAA-ATA
46985987 TG-TTTTAAAATA
1 TGTTTTTAAAATA
*
46985999 AGTTTT
1 TGTTTT
46986005 ACTCGTGCTC
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (13 bp):
TGTTTTTAAAATA
Found at i:46991799 original size:3 final size:3
Alignment explanation
Indices: 46991791--46991829 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
46991781 TCTGCTAATG
* *
46991791 TTA TTA TTA TTG TTA TTA TTA TTA TTA TT- TTA TTC TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
46991830 GAGTTTGGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:46993670 original size:18 final size:18
Alignment explanation
Indices: 46993649--46993688 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
46993639 AAAATTTTCA
46993649 AAAATTAAAAATAATTT-T
1 AAAATTAAAAAT-ATTTAT
46993667 AAAATTAAAAATATTTAT
1 AAAATTAAAAATATTTAT
46993685 AAAA
1 AAAA
46993689 ACTCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATTAAAAATATTTAT
Found at i:46993751 original size:27 final size:25
Alignment explanation
Indices: 46993712--46993769 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
46993702 TATATATATT
*
46993712 TTTAAAGATTATA-AAAGTTTTAAAAAA
1 TTTAAAGAATATACAAAG--TT-AAAAA
46993739 TTTAAAGAATATACAAAGTTAAAAA
1 TTTAAAGAATATACAAAGTTAAAAA
46993764 TTTAAA
1 TTTAAA
46993770 AGTTTTTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 11 0.38
26 2 0.07
27 12 0.41
28 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (25 bp):
TTTAAAGAATATACAAAGTTAAAAA
Found at i:47000751 original size:27 final size:27
Alignment explanation
Indices: 47000721--47000898 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47000711 ATATCGAGTC
* *
47000721 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47000748 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47000775 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47000803 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
47000830 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47000857 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47000884 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47000899 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47007303 original size:1 final size:1
Alignment explanation
Indices: 47007297--47007321 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
47007287 TCGAACACGA
47007297 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
47007322 GGTGTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:47008660 original size:27 final size:27
Alignment explanation
Indices: 47008630--47008807 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47008620 ATATTGAGTC
* * * *
47008630 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47008657 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47008684 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47008712 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47008739 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47008766 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47008793 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47008808 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47008769 original size:82 final size:81
Alignment explanation
Indices: 47008651--47008806 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47008641 TGCTATATAA
* *
47008651 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47008716 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47008733 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47008797 CACTTAGTGC
65 CACTTAGTGC
47008807 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47022626 original size:16 final size:16
Alignment explanation
Indices: 47022600--47022632 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
47022590 AAAATTTTCA
47022600 AAAATTAAAAATAATTT
1 AAAATTAAAAAT-ATTT
47022617 AAAATT-AAAATATTT
1 AAAATTAAAAATATTT
47022632 A
1 A
47022633 TAAAAACTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 5 0.31
17 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTAAAAATATTT
Found at i:47022698 original size:25 final size:25
Alignment explanation
Indices: 47022661--47022717 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
47022651 TATATATATT
*
47022661 TTTAAAGATTATA-AAAGTTTAAAAA
1 TTTAAAGAATATACAAAG-TTAAAAA
47022686 TTTAAAGAATATACAAAGTTAAAAA
1 TTTAAAGAATATACAAAGTTAAAAA
47022711 TTTAAAG
1 TTTAAAG
47022718 TTTTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (25 bp):
TTTAAAGAATATACAAAGTTAAAAA
Found at i:47029684 original size:27 final size:27
Alignment explanation
Indices: 47029654--47029831 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
47029644 ATATCGAGTC
* *
47029654 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47029681 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47029708 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47029736 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
47029763 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47029790 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47029817 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47029832 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47037871 original size:27 final size:27
Alignment explanation
Indices: 47037841--47038099 Score: 216
Period size: 27 Copynumber: 9.6 Consensus size: 27
47037831 ATATCGAGTC
* *
47037841 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
47037868 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
47037895 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
47037923 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
47037950 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47037977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
47038004 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
47038031 CGCACACTTAGTGC-ATCATGTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
47038058 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
47038085 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47038100 GTACAATTTA
Statistics
Matches: 197, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
27 172 0.87
28 25 0.13
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:47038001 original size:54 final size:54
Alignment explanation
Indices: 47037841--47038098 Score: 263
Period size: 54 Copynumber: 4.8 Consensus size: 54
47037831 ATATCGAGTC
* * * * * *
47037841 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
47037895 CGCACACTTAGTGC-TACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAGTC-AATTCGCACACTTAGTGCAACATAGTCAAAT
*
47037950 CGCACACTTAGTGCATCAT-GTTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAG-TCAATTCGCACACTTAGTGCAACATAGTCAAAT
** * * **
47038004 CGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGCATCAT-GTTCATTT
1 CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGCAACATAG-TCAAAT
* *
47038058 CGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGC
47038099 TGTACAATTT
Statistics
Matches: 173, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 125 0.72
55 45 0.26
56 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAGTCAATTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:47038043 original size:81 final size:81
Alignment explanation
Indices: 47037894--47038098 Score: 392
Period size: 81 Copynumber: 2.5 Consensus size: 81
47037884 CGTAATCAAA
*
47037894 TCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTT
1 TCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTT
47037959 AGTGCATCATGTTCATT
65 AGTGCATCATGTTCATT
47037976 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
47038041 GTGCATCATGTTCATT
66 GTGCATCATGTTCATT
47038057 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGC
47038099 TGTACAATTT
Statistics
Matches: 122, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 96 0.79
82 26 0.21
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
GTGCATCATGTTCATT
Found at i:47044957 original size:81 final size:81
Alignment explanation
Indices: 47044807--47045066 Score: 292
Period size: 81 Copynumber: 3.2 Consensus size: 81
47044797 GCATTTTTCT
* * * * * * *
47044807 AAAAACGCCGTTAAAAACC-GAGCATTACCAGTGCTTTTTCGAAAAACGCCGCTAAAGACCAGAG
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC-ATTTCCAAAAACGCCGCTAAAGACCAGAG
* *
47044871 CATTAGCTGCACTTCTTT
65 CATTAGC-GCGCTTCTTC
* * * * *
47044889 AAAAACGCTGCTAAAGACCAGAGCATTAGCGGCGCTTTTCCAAAAATG-TGCTAAAGACCATAGC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCATTTCCAAAAACGCCGCTAAAGACCAGAGC
47044953 ATTAGCGGCGCTT-TTCC
66 ATTAGC-GCGCTTCTT-C
* * *
47044970 AAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGCATTTCCAAAAACGCCACTAAAGACCCGAGC
1 AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCATTTCCAAAAACGCCGCTAAAGACCAGAGC
*
47045035 ATTAGCGACGCTTCTTG
66 ATTAGCG-CGCTTCTTC
47045052 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
47045067 TCCCCGAAAA
Statistics
Matches: 150, Mismatches: 23, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 70 0.47
82 64 0.43
83 14 0.09
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (81 bp):
AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGCATTTCCAAAAACGCCGCTAAAGACCAGAGC
ATTAGCGCGCTTCTTC
Found at i:47045073 original size:41 final size:40
Alignment explanation
Indices: 47044801--47045066 Score: 284
Period size: 41 Copynumber: 6.5 Consensus size: 40
47044791 TTTGCGGCAT
* * * * *
47044801 TTTTCTAAAAACGCCGTTAAAAACC-GAGCATTACCAGTGC
1 TTTTC-AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
* *
47044841 TTTTTCGAAAAACGCCGCTAAAGACCAGAGCATTAGCTGCAC
1 -TTTTC-AAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
* *
47044883 TTCTTTAAAAACGCTGCTAAAGACCAGAGCATTAGCGGCGC
1 TT-TTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
* * *
47044924 TTTTCCAAAAATG-TGCTAAAGACCATAGCATTAGCGGCGC
1 TTTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
*
47044964 TTTTCCAAAAATGCCGCTAAAGACCAGAGCATTAGCGGCGC
1 TTTT-CAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
* * * *
47045005 ATTTCCAAAAACGCCACTAAAGACCCGAGCATTAGCGACGC
1 -TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
*
47045046 TTCTTGAAAAACGCCGCTAAA
1 TT-TTCAAAAACGCCGCTAAA
47045067 TCCCCGAAAA
Statistics
Matches: 195, Mismatches: 24, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
40 43 0.22
41 136 0.70
42 16 0.08
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (40 bp):
TTTTCAAAAACGCCGCTAAAGACCAGAGCATTAGCGGCGC
Found at i:47057635 original size:27 final size:27
Alignment explanation
Indices: 47057605--47057668 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 27
47057595 CTCGACTTTG
*
47057605 ACTGGCGAACCATAACTCACCAAACCA
1 ACTGGAGAACCATAACTCACCAAACCA
* * * *
47057632 ACTGGAAAACCCTAGCTCGCCAAACCA
1 ACTGGAGAACCATAACTCACCAAACCA
*
47057659 ACTGGTGAAC
1 ACTGGAGAAC
47057669 TGTAACTCGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.34, G:0.16, T:0.12
Consensus pattern (27 bp):
ACTGGAGAACCATAACTCACCAAACCA
Found at i:47057677 original size:27 final size:27
Alignment explanation
Indices: 47057612--47057663 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
47057602 TTGACTGGCG
* *
47057612 AACCATAACTCACCAAACCAACTGGAA
1 AACCCTAACTCGCCAAACCAACTGGAA
*
47057639 AACCCTAGCTCGCCAAACCAACTGG
1 AACCCTAACTCGCCAAACCAACTGG
47057664 TGAACTGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.37, G:0.12, T:0.12
Consensus pattern (27 bp):
AACCCTAACTCGCCAAACCAACTGGAA
Found at i:47058761 original size:11 final size:11
Alignment explanation
Indices: 47058742--47058780 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
47058732 AGGAGGGAAT
* *
47058742 GATGCTTGATG
1 GATGATTGAGG
47058753 GATGATTGAGG
1 GATGATTGAGG
47058764 GATGATTGAGG
1 GATGATTGAGG
47058775 GATGAT
1 GATGAT
47058781 GAACGAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.26, C:0.03, G:0.41, T:0.31
Consensus pattern (11 bp):
GATGATTGAGG
Done.