Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 16 of 214
Found at i:4403002 original size:42 final size:42
Alignment explanation
Indices: 4402943--4403045 Score: 134
Period size: 42 Copynumber: 2.5 Consensus size: 42
4402933 TGAGTTTCTG
* ** *
4402943 TTTAACCTTTATGGGTTTCCGTTCAGCTCTTTTGAGCTTTAA
1 TTTAACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAA
* **
4402985 TTTAACCCTTATGGGTTTTCGTTCAGCTCTTACGAGCTTCCG
1 TTTAACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAA
*
4403027 TTCAACCCTTATGGGTTTC
1 TTTAACCCTTATGGGTTTC
4403046 TGTTTAGCAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.16, C:0.23, G:0.17, T:0.44
Consensus pattern (42 bp):
TTTAACCCTTATGGGTTTCCGTTCAGCTCTTACGAGCTTCAA
Found at i:4422886 original size:17 final size:16
Alignment explanation
Indices: 4422854--4422897 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
4422844 AAATAAGATG
4422854 AATATTTTTATATTTTTAA
1 AATA-TTTT-TATTTTT-A
4422873 AATATTTTTATTTTTA
1 AATATTTTTATTTTTA
4422889 AATATTTTT
1 AATATTTTT
4422898 TTAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.40
17 7 0.28
18 4 0.16
19 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
AATATTTTTATTTTTA
Found at i:4422887 original size:18 final size:18
Alignment explanation
Indices: 4422854--4422925 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
4422844 AAATAAGATG
4422854 AATATTTTTATATTTTTAA
1 AATATTTTTAT-TTTTTAA
4422873 AATATTTTTA-TTTTTAA
1 AATATTTTTATTTTTTAA
* *
4422890 ATATTTTTTTAATTTTTTCA
1 A-ATATTTTT-ATTTTTTAA
* *
4422910 TATATTTTAATTTTTT
1 AATATTTTTATTTTTT
4422926 TATAAAAATA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.18
18 14 0.31
19 17 0.38
20 6 0.13
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (18 bp):
AATATTTTTATTTTTTAA
Found at i:4422899 original size:19 final size:18
Alignment explanation
Indices: 4422854--4422906 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
4422844 AAATAAGATG
*
4422854 AATATTTTTATATTTTTA
1 AATATTTTTTTATTTTTA
*
4422872 AA-ATATTTTTATTTTTA
1 AATATTTTTTTATTTTTA
4422889 AATATTTTTTTAATTTTT
1 AATATTTTTTT-ATTTTT
4422907 TCATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.50
18 9 0.30
19 6 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
AATATTTTTTTATTTTTA
Found at i:4422907 original size:37 final size:35
Alignment explanation
Indices: 4422854--4422924 Score: 88
Period size: 37 Copynumber: 2.0 Consensus size: 35
4422844 AAATAAGATG
*
4422854 AATATTTTTATATTTTTAAAATATTTTTATTTTTA
1 AATATTTTTATATTTTTAAAATATTTTAATTTTTA
* * *
4422889 AATATTTTTTTAATTTTTTCATATATTTTAATTTTT
1 AATATTTTTAT-A-TTTTTAAAATATTTTAATTTTT
4422925 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 10 0.33
36 1 0.03
37 19 0.63
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (35 bp):
AATATTTTTATATTTTTAAAATATTTTAATTTTTA
Found at i:4422912 original size:19 final size:18
Alignment explanation
Indices: 4422854--4422925 Score: 60
Period size: 18 Copynumber: 4.0 Consensus size: 18
4422844 AAATAAGATG
4422854 AATA-TTTTT-ATATTTTT
1 AATATTTTTTAAT-TTTTT
* *
4422871 AAAATATTTTT-ATTTTTA
1 AATAT-TTTTTAATTTTTT
4422889 AATATTTTTTTAATTTTTT
1 AATA-TTTTTTAATTTTTT
* *
4422908 CATATATTTTAATTTTTT
1 AATATTTTTTAATTTTTT
4422926 TATAAAAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.07
18 25 0.56
19 17 0.38
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (18 bp):
AATATTTTTTAATTTTTT
Found at i:4424225 original size:36 final size:36
Alignment explanation
Indices: 4424178--4424251 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
4424168 CACCGATTTT
4424178 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
1 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
4424214 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
1 TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
4424250 TC
1 TC
4424252 TTTGATTGGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (36 bp):
TCCATTTCTATAATAGGAAGGGTTTCAAGCTTTGAC
Found at i:4425943 original size:31 final size:30
Alignment explanation
Indices: 4425844--4426429 Score: 351
Period size: 31 Copynumber: 19.1 Consensus size: 30
4425834 CTAATTTGAA
* * * *
4425844 TTGTTTATAGTTATACATTGTTGAAATTGAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
*** * * *
4425875 TTGTATATGAAGATA-AGGTGCCGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4425905 TCGTATATGGTTGTCCATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4425936 TTGTATATGATTATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* *
4425967 TTGTCA-ATGGATATA-AGTTG-TCGAATTAAT
1 TTGT-ATATGGTTATACA-TTGCT-GAATTTAT
* *
4425997 TCGTATATGGTTGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4426028 TTGTATATGATTATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * *
4426059 TTGTAAATGGATATA-AGTTGCCGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* *
4426089 TCGTATATGGTTGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* * *
4426120 TTGTATATGGTCATTCATTGTTGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * *
4426151 TTGTAAATGGATATA-AGTTGCCGAATTGAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4426181 TCGTATATGGATGTACATTGCTGAAATTTAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
** *
4426212 TTGTATATGGTTATACATTATTGAAATTGAT
1 TTGTATATGGTTATACATTGCTG-AATTTAT
* *
4426243 TTGTATATGGATATA-AGTTGCTGAATTAAT
1 TTGTATATGGTTATACA-TTGCTGAATTTAT
* * *
4426273 TCGTATATGGTTATACAATG-TCAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * *
4426303 TTGTATATGATTATACATTTCTGAACTTGAT
1 TTGTATATGGTTATACATTGCTGAA-TTTAT
** ** ** *
4426334 TCATATACAGTTATACATTGCCAAATTGAT
1 TTGTATATGGTTATACATTGCTGAATTTAT
* * *
4426364 TTGTATATGATTATACATTACCGAATTTGAT
1 TTGTATATGGTTATACATTGCTGAATTT-AT
* * * *
4426395 TTGTGTATGAATATATACATTGTTGAATTGAT
1 TTGTATATG-GT-TATACATTGCTGAATTTAT
4426427 TTG
1 TTG
4426430 AGCATTGGAT
Statistics
Matches: 420, Mismatches: 108, Indels: 53
0.72 0.19 0.09
Matches are distributed among these distances:
29 6 0.01
30 157 0.37
31 234 0.56
32 10 0.02
33 13 0.03
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (30 bp):
TTGTATATGGTTATACATTGCTGAATTTAT
Found at i:4425959 original size:92 final size:92
Alignment explanation
Indices: 4425854--4426429 Score: 714
Period size: 92 Copynumber: 6.3 Consensus size: 92
4425844 TTGTTTATAG
* * * * *
4425854 TTATACATTGTTGAAATTGATTTGTATATGAAGATAAGGTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4425919 CCATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
* * *
4425946 TTATTCATTGTTGAATTTGATTTGTCAATGGATATAAGTTGTCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
4426011 ACATTGCTGAAATTTATTTGTATATGA
66 ACATTGCTGAAATTTATTTGTATATGA
*
4426038 TTATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4426103 ACATTGCTGAAATTTATTTGTATATGG
66 ACATTGCTGAAATTTATTTGTATATGA
* * * *
4426130 TCATTCATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTGATTCGTATATGGATGT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
*
4426195 ACATTGCTGAAATTTATTTGTATATGG
66 ACATTGCTGAAATTTATTTGTATATGA
* * * * *
4426222 TTATACATTATTGAAATTGATTTGTATATGGATATAAGTTGCTGAATTAATTCGTATATGGTTAT
1 TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
* *
4426287 ACAATG-T-CAATTTGATTTGTATATGA
66 ACATTGCTGAAATTT-ATTTGTATATGA
* ** * ** * * * * *
4426313 TTATACATT-TCTGAACTTGATTCATATACAGTTATACA-TTGCCAAATTGATTTGTATATGATT
1 TTATACATTGT-TGAATTTGATTTGTAAATGGATATA-AGTTGCCGAATTAATTCGTATATGGTT
* * * *
4426376 ATACATTACCG-AATTTGATTTGTGTATGAA
64 GTACATTGCTGAAATTT-ATTTGTATATG-A
4426406 TATATACATTGTTGAA-TTGATTTG
1 T-TATACATTGTTGAATTTGATTTG
4426430 AGCATTGGAT
Statistics
Matches: 432, Mismatches: 44, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
90 6 0.01
91 66 0.15
92 339 0.78
93 8 0.02
94 12 0.03
95 1 0.00
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (92 bp):
TTATACATTGTTGAATTTGATTTGTAAATGGATATAAGTTGCCGAATTAATTCGTATATGGTTGT
ACATTGCTGAAATTTATTTGTATATGA
Found at i:4425962 original size:61 final size:61
Alignment explanation
Indices: 4425853--4426382 Score: 293
Period size: 61 Copynumber: 8.7 Consensus size: 61
4425843 ATTGTTTATA
* * ** * * *
4425853 GTTATACATTGTTGAAATTGATTTGTATATGAAGA-TAAGGTGCCGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * *
4425914 GTTGTCCATTGCTGAAATTTATTTGTATATGATTATTCATTGTTGAATTTGATTTGTCA-ATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAA-TTAATTCGT-ATATG
* * * * * * * *
4425976 GATATA-AGTTG-TCG-AATTAATTCGTATATGGTTGTACATTGCTGAAATTTATTTGTATATG
1 GTTATACA-TTGCT-GAAATTTATTTGTATATGATTATTCATTGCTG-AATTAATTCGTATATG
* * * * * *
4426037 ATTATTCATTGTTG-AATTTGATTTGTAAATGGA-TA-TAAGTTGCCGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTT-ATTTGTATAT-GATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * * * *
4426098 GTTGTACATTGCTGAAATTTATTTGTATATGGTCATTCATTGTTGAATTTGATTTGTAAATG
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAA-TTAATTCGTATATG
* * * * * *
4426160 GATATA-AGTTGCCG-AATTGATTCGTATATGGATGTA--CATTGCTGAAATTTATTTGTATATG
1 GTTATACA-TTGCTGAAATTTATTTGTATAT-GAT-TATTCATTGCTG-AATTAATTCGTATATG
** * *
4426221 GTTATACATTATTGAAATTGATTTGTATATGGA-TA-TAAGTTGCTGAATTAATTCGTATATG
1 GTTATACATTGCTGAAATTTATTTGTATAT-GATTATTCA-TTGCTGAATTAATTCGTATATG
* * * * * * **
4426282 GTTATACAATG-T-CAATTTGATTTGTATATGATTATACATTTCTGAACTTGATTCATATACA
1 GTTATACATTGCTGAAATTT-ATTTGTATATGATTATTCATTGCTGAA-TTAATTCGTATATG
* * *
4426343 GTTATACATTGC-CAAATTGATTTGTATATGATTATACATT
1 GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATT
4426383 ACCGAATTTG
Statistics
Matches: 359, Mismatches: 80, Indels: 60
0.72 0.16 0.12
Matches are distributed among these distances:
59 6 0.02
60 24 0.07
61 230 0.64
62 96 0.27
63 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.45
Consensus pattern (61 bp):
GTTATACATTGCTGAAATTTATTTGTATATGATTATTCATTGCTGAATTAATTCGTATATG
Found at i:4426412 original size:33 final size:30
Alignment explanation
Indices: 4426204--4426415 Score: 124
Period size: 30 Copynumber: 6.9 Consensus size: 30
4426194 TACATTGCTG
* * **
4426204 AAATTTATTTGTATATGGTTATACATTATTG
1 AAATTGATTTGTATATGATTATACATTA-CC
* *
4426235 AAATTGATTTGTATATGGA-TATA-AGTTGCT
1 AAATTGATTTGTATAT-GATTATACA-TTACC
* * * * * **
4426265 GAATTAATTCGTATATGGTTATACAATGTC
1 AAATTGATTTGTATATGATTATACATTACC
* * *
4426295 AATTTGATTTGTATATGATTATACATTTCTG
1 AAATTGATTTGTATATGATTATACATTAC-C
* ** * *
4426326 AACTTGATTCATATA-CAGTTATACATTGCC
1 AAATTGATTTGTATATGA-TTATACATTACC
4426356 AAATTGATTTGTATATGATTATACATTACC
1 AAATTGATTTGTATATGATTATACATTACC
* *
4426386 GAATTTGATTTGTGTATGAATATATACATT
1 -AAATTGATTTGTATATG-AT-TATACATT
4426416 GTTGAATTGA
Statistics
Matches: 137, Mismatches: 34, Indels: 18
0.72 0.18 0.10
Matches are distributed among these distances:
29 1 0.01
30 65 0.47
31 60 0.44
32 3 0.02
33 8 0.06
ACGTcount: A:0.33, C:0.08, G:0.14, T:0.45
Consensus pattern (30 bp):
AAATTGATTTGTATATGATTATACATTACC
Found at i:4430474 original size:16 final size:16
Alignment explanation
Indices: 4430453--4430484 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4430443 GTTTTGTTGC
*
4430453 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
4430469 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
4430485 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:4430770 original size:51 final size:51
Alignment explanation
Indices: 4430702--4430898 Score: 195
Period size: 51 Copynumber: 3.9 Consensus size: 51
4430692 ATTAATGATA
* * *
4430702 CCGGTTCACATAGTAGCCTACACATAGTACTAAACATGTGACCATCTCTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTAAACATGTGACCATATCTAT
* * * ** * *
4430753 CCGATACACGTAGTAGCCTGCACATAGTACTACACACATGATCGA-AGCTAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTAAACATGTGA-CCATATCTAT
* * *
4430804 CCGGTACGCATAGTAGCCTACACATAGTACTACAA-ATGCGACC-TATC-ATT
1 CCGGTACACGTAGTAGCCTACACATAGTACTA-AACATGTGACCATATCTA-T
* * *
4430854 CTGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCAT
1 CCGGTACACGTAGTAGCCTACACATAGTACTAAACATGTGACCAT
4430899 CACTTTCACT
Statistics
Matches: 114, Mismatches: 26, Indels: 12
0.75 0.17 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 70 0.61
52 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGGTACACGTAGTAGCCTACACATAGTACTAAACATGTGACCATATCTAT
Found at i:4430928 original size:101 final size:102
Alignment explanation
Indices: 4430702--4430889 Score: 274
Period size: 102 Copynumber: 1.9 Consensus size: 102
4430692 ATTAATGATA
* *
4430702 CCGGTTCACATAGTAGCCTACACATAGTACTAAACATGTGACCATCTCTATCCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTACACATAGTACTAAACATGCGACCATCTATATCCGATACACGTAGT
*
4430767 AGCCTGCACATAGTACTACACACATGATCGAAGCTAT
66 AGCCTGCACATAGTACTACACACATGATCCAAGCTAT
* * * *
4430804 CCGGTACGCATAGTAGCCTACACATAGTACTACAA-ATGCGACCTATC-AT-TCTGGTACACGTA
1 CCGGTTCACATAGTAGCCTACACATAGTACTA-AACATGCGACC-ATCTATATCCGATACACGTA
4430866 GTAGCCTGCACATAGTACTACACA
64 GTAGCCTGCACATAGTACTACACA
4430890 TGTGACCATC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
101 35 0.45
102 38 0.49
103 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTACACATAGTACTAAACATGCGACCATCTATATCCGATACACGTAGT
AGCCTGCACATAGTACTACACACATGATCCAAGCTAT
Found at i:4437789 original size:38 final size:37
Alignment explanation
Indices: 4437718--4437807 Score: 108
Period size: 38 Copynumber: 2.4 Consensus size: 37
4437708 TAAAAAAATT
4437718 ATATTTATAATTTTTAAAAATTTTAATATTTTATATA
1 ATATTTATAATTTTTAAAAATTTTAATATTTTATATA
* * * *
4437755 ATATTTTTACTTTTTAAAATTTTTTAATTTTTTATATA
1 ATATTTATAATTTTTAAAA-ATTTTAATATTTTATATA
* * *
4437793 TTATATATGATTTTT
1 ATATTTATAATTTTT
4437808 TACATTTTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 17 0.40
38 26 0.60
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (37 bp):
ATATTTATAATTTTTAAAAATTTTAATATTTTATATA
Found at i:4444784 original size:17 final size:17
Alignment explanation
Indices: 4444759--4444796 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
4444749 TAAGGGAGTA
* *
4444759 AAAATAAATAAATAACG
1 AAAAGAAATAAATAAAG
4444776 AAAAGAAATAAATAAAG
1 AAAAGAAATAAATAAAG
4444793 AAAA
1 AAAA
4444797 CTAAACAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAAGAAATAAATAAAG
Found at i:4446313 original size:13 final size:13
Alignment explanation
Indices: 4446292--4446322 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4446282 TCACGGAATG
4446292 ATTTT-TTTGAAA
1 ATTTTGTTTGAAA
4446304 ATTTTGTTTGAAA
1 ATTTTGTTTGAAA
4446317 ATTTTG
1 ATTTTG
4446323 ACGTTTGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.28
13 13 0.72
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (13 bp):
ATTTTGTTTGAAA
Found at i:4447554 original size:50 final size:49
Alignment explanation
Indices: 4447468--4447629 Score: 148
Period size: 50 Copynumber: 3.3 Consensus size: 49
4447458 CATGTAAGAC
* * ** ** *
4447468 CATGGCGTTGGCACCGAGATGAGAGGTCCCCCGTAAGACCATGTCTGAGA
1 CATGGCATTGGCACC-AAATGAGAACTCCCATGTAAGACCATGTCTGGGA
* *
4447518 CATGGCATTGGCACCAATATGAGAACTCCCATGTAAGACTATATCTGGGA
1 CATGGCATTGGCACCAA-ATGAGAACTCCCATGTAAGACCATGTCTGGGA
* * **
4447568 TATGACATTGGCAGTACAA-GA-AACATCCCATGTAAGACCATGTCTGGGA
1 CATGGCATTGGCACCA-AATGAGAAC-TCCCATGTAAGACCATGTCTGGGA
*
4447617 CATGGCTTTGGCA
1 CATGGCATTGGCA
4447630 TGTTATTATC
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
48 3 0.03
49 35 0.38
50 52 0.57
51 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
CATGGCATTGGCACCAAATGAGAACTCCCATGTAAGACCATGTCTGGGA
Found at i:4447614 original size:49 final size:50
Alignment explanation
Indices: 4447500--4447629 Score: 140
Period size: 49 Copynumber: 2.6 Consensus size: 50
4447490 GAGGTCCCCC
* *
4447500 GTAAGACCATGTCTGAGACATGGCATTGGCACCAATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGACATTGGCACCAATATGAGAACTCCCAT
* * * **
4447550 GTAAGACTATATCTGGGATATGACATTGGCAGTACA-A-GA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGACATTGGCACCA-ATATGAGAAC-TCCCAT
* *
4447599 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGACATTGGCA
4447630 TGTTATTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 3 0.05
49 34 0.52
50 28 0.42
51 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGACATTGGCACCAATATGAGAACTCCCAT
Found at i:4460827 original size:34 final size:34
Alignment explanation
Indices: 4460765--4460836 Score: 99
Period size: 34 Copynumber: 2.1 Consensus size: 34
4460755 GGGATATAAT
* * * *
4460765 ATTATATTTTATAATAGGATTACAAGAATGTAAG
1 ATTACATTTCATAATAGGACTACAAGAATGCAAG
*
4460799 ATTACATTTCATAATAGGACTACGAGAATGCAAG
1 ATTACATTTCATAATAGGACTACAAGAATGCAAG
4460833 ATTA
1 ATTA
4460837 TGGGAGGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (34 bp):
ATTACATTTCATAATAGGACTACAAGAATGCAAG
Found at i:4461509 original size:30 final size:30
Alignment explanation
Indices: 4461475--4461536 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
4461465 CATATGTACA
4461475 ATGATAAGTGTTCTTTTAGTTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTAC
4461505 ATGATAAGTGTTCTTTTAGTTTTTTTTTAC
1 ATGATAAGTGTTCTTTTAGTTTTTTTTTAC
4461535 AT
1 AT
4461537 AGTACAAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.06, G:0.13, T:0.60
Consensus pattern (30 bp):
ATGATAAGTGTTCTTTTAGTTTTTTTTTAC
Found at i:4469563 original size:15 final size:15
Alignment explanation
Indices: 4469518--4469563 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
4469508 GTTGGTCGAA
4469518 AAATTTTAATTTTTATG
1 AAATTTT-A-TTTTATG
4469535 AAA-TTTATTATTATG
1 AAATTTTATT-TTATG
4469550 AAATTTTATTTTAT
1 AAATTTTATTTTAT
4469564 TTTTGTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.07
15 13 0.48
16 9 0.33
17 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (15 bp):
AAATTTTATTTTATG
Found at i:4471376 original size:15 final size:15
Alignment explanation
Indices: 4471358--4471391 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4471348 AAAAATACTA
4471358 AGAAAGAAGCTGCTG
1 AGAAAGAAGCTGCTG
* *
4471373 AGAATGAATCTGCTG
1 AGAAAGAAGCTGCTG
4471388 AGAA
1 AGAA
4471392 CATTGTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (15 bp):
AGAAAGAAGCTGCTG
Found at i:4480487 original size:22 final size:23
Alignment explanation
Indices: 4480451--4480494 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4480441 ATAAATCTGA
4480451 TCAAATTTGTAATAAAAAAAAAG
1 TCAAATTTGTAATAAAAAAAAAG
* *
4480474 TCAAA-TTGTCATAAAATAAAA
1 TCAAATTTGTAATAAAAAAAAA
4480495 TATTACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (23 bp):
TCAAATTTGTAATAAAAAAAAAG
Found at i:4480718 original size:16 final size:15
Alignment explanation
Indices: 4480698--4480760 Score: 72
Period size: 16 Copynumber: 4.0 Consensus size: 15
4480688 AGGGAGAATG
*
4480698 GAATAGAGCTATAAT
1 GAATAGAGCTGTAAT
*
4480713 GTAATAGAGTTGTAAT
1 G-AATAGAGCTGTAAT
4480729 GAAATAGAGCTGTAAT
1 G-AATAGAGCTGTAAT
*
4480745 AGAATAGAGTTGTAAT
1 -GAATAGAGCTGTAAT
4480761 CAGTAATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
15 1 0.02
16 39 0.95
17 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (15 bp):
GAATAGAGCTGTAAT
Found at i:4480751 original size:32 final size:32
Alignment explanation
Indices: 4480694--4480760 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
4480684 GGTTAGGGAG
*
4480694 AATGGAATAGAGCTATAATGTAATAGAGTTGT
1 AATGAAATAGAGCTATAATGTAATAGAGTTGT
*
4480726 AATGAAATAGAGCTGTAATAG-AATAGAGTTGT
1 AATGAAATAGAGCTATAAT-GTAATAGAGTTGT
4480758 AAT
1 AAT
4480761 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.24, T:0.30
Consensus pattern (32 bp):
AATGAAATAGAGCTATAATGTAATAGAGTTGT
Found at i:4485931 original size:18 final size:17
Alignment explanation
Indices: 4485910--4485944 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4485900 TTATTATTAA
*
4485910 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4485928 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4485945 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4485956 original size:15 final size:16
Alignment explanation
Indices: 4485936--4485965 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4485926 ATATATAATT
4485936 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4485951 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4485966 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486076 original size:15 final size:16
Alignment explanation
Indices: 4486056--4486085 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486046 ATATATAATT
4486056 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486071 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486086 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486103 original size:120 final size:120
Alignment explanation
Indices: 4485890--4486759 Score: 1573
Period size: 120 Copynumber: 7.2 Consensus size: 120
4485880 TTAATCATAT
*
4485890 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4485955 AAATATTCTTATATGAATTTACTAAAATC-TAATATATAATACTATTAAAATAAAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA-TAAAATATAA
* *
4486010 TTTAAAAAAATTATTATTAAATATATTTTAATTAAGATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
4486075 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
4486130 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4486195 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATAAAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4486250 TTTTAAAA-AATTATTATTAAATATGTTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 -TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
4486314 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTGTAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* *
4486370 TTTGAAATAATTATTATTAAATATGTTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4486435 AAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4486490 TTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
4486555 AAATATTCTTATATGAATTTACTAAAACCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
4486610 TTTAAAATAATAATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
* *
4486675 AAATATTCTTATATGAATTTACTAAAATCATAACATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
4486730 TTTAAAATAATTATTATTAAATATATTTTA
1 TTTAAAATAATTATTATTAAATATATTTTA
4486760 TAATCTACTT
Statistics
Matches: 725, Mismatches: 22, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
119 6 0.01
120 697 0.96
121 22 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:4486169 original size:16 final size:16
Alignment explanation
Indices: 4486131--4486184 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
4486121 AAAATATAAT
4486131 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
4486146 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
4486161 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
4486179 -TAAAAT
1 TTAAAAT
4486185 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:4486171 original size:18 final size:17
Alignment explanation
Indices: 4486150--4486184 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4486140 TTATTATTAA
*
4486150 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4486168 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4486185 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4486196 original size:15 final size:16
Alignment explanation
Indices: 4486176--4486205 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486166 ATATATAATT
4486176 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486191 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486206 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486316 original size:15 final size:16
Alignment explanation
Indices: 4486296--4486325 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486286 ATATATAATT
4486296 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486311 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486326 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486436 original size:15 final size:16
Alignment explanation
Indices: 4486416--4486445 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486406 ATATATAATT
4486416 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486431 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486446 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486531 original size:18 final size:17
Alignment explanation
Indices: 4486510--4486544 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4486500 TTATTATTAA
*
4486510 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4486528 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4486545 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4486556 original size:15 final size:16
Alignment explanation
Indices: 4486536--4486565 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486526 ATATATAATT
4486536 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486551 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486566 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4486652 original size:18 final size:17
Alignment explanation
Indices: 4486612--4486664 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
4486602 AAATATAATT
4486612 TAAAATA-ATAA-TT-A
1 TAAAATATATAATTTAA
*
4486626 TTAAATATAT--TTTAA
1 TAAAATATATAATTTAA
4486641 TTAAAATATATAATTTAA
1 -TAAAATATATAATTTAA
4486659 TAAAAT
1 TAAAAT
4486665 TCTTAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 8 0.26
15 3 0.10
16 9 0.29
17 6 0.19
18 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAAATATATAATTTAA
Found at i:4486676 original size:15 final size:16
Alignment explanation
Indices: 4486656--4486685 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4486646 ATATATAATT
4486656 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
4486671 TAATAAATATTCTTA
1 TAATAAATATTCTTA
4486686 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:4487434 original size:24 final size:26
Alignment explanation
Indices: 4487382--4487431 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4487372 TATATGTAAT
4487382 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
4487409 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
4487432 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:4494687 original size:22 final size:21
Alignment explanation
Indices: 4494662--4494702 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4494652 TGTATGGTGT
*
4494662 GATTTGGTTTTGGTATTATATA
1 GATTTGGTTATGGT-TTATATA
4494684 GATTTGGTTATGGTTTATA
1 GATTTGGTTATGGTTTATA
4494703 AGTATAGAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.22, C:0.00, G:0.24, T:0.54
Consensus pattern (21 bp):
GATTTGGTTATGGTTTATATA
Found at i:4496348 original size:28 final size:28
Alignment explanation
Indices: 4496316--4496371 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
4496306 TAGGAAGTCA
*
4496316 GCTTGAGCATTTTCGACATGGGAGATCC
1 GCTTGAGCATTCTCGACATGGGAGATCC
4496344 GCTTGAGCATTCTCGACATGGGAGATCC
1 GCTTGAGCATTCTCGACATGGGAGATCC
4496372 TATCAACTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (28 bp):
GCTTGAGCATTCTCGACATGGGAGATCC
Found at i:4500128 original size:8 final size:8
Alignment explanation
Indices: 4500117--4500156 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
4500107 ATAGGAAAAA
4500117 ATCATGGG
1 ATCATGGG
*
4500125 ATCATGAG
1 ATCATGGG
*
4500133 ATCATGAG
1 ATCATGGG
4500141 ATCATGGG
1 ATCATGGG
4500149 ATCATGGG
1 ATCATGGG
4500157 CCTACTCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (8 bp):
ATCATGGG
Found at i:4508919 original size:21 final size:19
Alignment explanation
Indices: 4508882--4508920 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4508872 AATTTAATAA
*
4508882 ATAAATAAATTTTATTATC
1 ATAAATAAATTTAATTATC
4508901 ATAAATATAACTTTAATTAT
1 ATAAATA-AA-TTTAATTAT
4508921 TATTTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAAATAAATTTAATTATC
Found at i:4509612 original size:17 final size:16
Alignment explanation
Indices: 4509573--4509641 Score: 59
Period size: 17 Copynumber: 4.1 Consensus size: 16
4509563 AGTGTTATAA
4509573 AATTAAATTATATTTTT
1 AATTAAATT-TATTTTT
*
4509590 TA-TAAATTTATTTTT
1 AATTAAATTTATTTTT
* *
4509605 CAATTAAAATTAATATTT
1 -AATT-AAATTTATTTTT
*
4509623 AATTAAATTATATATTT
1 AATTAAATT-TATTTTT
4509640 AA
1 AA
4509642 CTCTAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
15 7 0.16
16 12 0.28
17 14 0.33
18 10 0.23
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTAAATTTATTTTT
Found at i:4514163 original size:24 final size:23
Alignment explanation
Indices: 4514130--4514174 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4514120 ATTTTTTGAT
* *
4514130 AAAAATACATAAGATTTATAAAAC
1 AAAAACACAT-AGAATTATAAAAC
4514154 AAAAACACATAGAATTATAAA
1 AAAAACACATAGAATTATAAA
4514175 TAAATGAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.22
Consensus pattern (23 bp):
AAAAACACATAGAATTATAAAAC
Found at i:4516231 original size:7 final size:7
Alignment explanation
Indices: 4516219--4516246 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
4516209 ACACACAATA
4516219 CCTTTTC
1 CCTTTTC
4516226 CCTTTTC
1 CCTTTTC
4516233 CCTTTTC
1 CCTTTTC
4516240 CCTTTTC
1 CCTTTTC
4516247 TTTCCATTTC
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:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (7 bp):
CCTTTTC
Found at i:4524288 original size:51 final size:53
Alignment explanation
Indices: 4524198--4524311 Score: 151
Period size: 51 Copynumber: 2.2 Consensus size: 53
4524188 TATAGTGGTT
* * * *
4524198 CAAGCGTGTTTCTACGGGAGGATGTGTAGCTTACGGGCTTGGCACTTAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
* *
4524251 CAAGCGTGTTTTTA-GAG-GGATGTTTAGCCTACAGGCTTGGCACTCAGTGCC
1 CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
*
4524302 CAGGCGTGTT
1 CAAGCGTGTT
4524312 CTTGGATGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 39 0.72
52 2 0.04
53 13 0.24
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (53 bp):
CAAGCGTGTTTCTACGAGAGGATGTGTAGCCTACAGGCTTGGCACTCAGTGCC
Found at i:4528248 original size:23 final size:21
Alignment explanation
Indices: 4528210--4528256 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
4528200 TCAAGGGATT
4528210 TAAACATCATTCAAAAACA-CC
1 TAAACATCATTC-AAAACATCC
*
4528231 TAAACATGCCATTTAAAACATCC
1 TAAACAT--CATTCAAAACATCC
4528254 TAA
1 TAA
4528257 CTCATCTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 6 0.27
23 9 0.41
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (21 bp):
TAAACATCATTCAAAACATCC
Found at i:4530636 original size:45 final size:45
Alignment explanation
Indices: 4530567--4530743 Score: 234
Period size: 45 Copynumber: 4.0 Consensus size: 45
4530557 TACATGTATT
* *
4530567 GGGTACCATTGATTATAAAAGTGGTTGCTATGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
4530612 GGGTATCATTAATTATAAAGGTGGTTGCTGTGTGCTGATTCCACC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
* *
4530657 GGGTA-CTATTGATTATGAAGGTGGTTTCTATGTGCTGATTCCACC
1 GGGTATC-ATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
** * *
4530702 AAGTATCATTGACTATAAGGGTGG-TGCTATGTGCTGA-TCCAC
1 GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCAC
4530744 TGTGTATCTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
43 5 0.04
44 13 0.11
45 97 0.84
46 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
GGGTATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
Found at i:4533451 original size:30 final size:30
Alignment explanation
Indices: 4533417--4533490 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
4533407 GTTGATCCAT
*
4533417 CCCTTTTCATAATTCGATAACTGAAG-TTAC
1 CCCTTTTCATAATTCGACAACTGAAGCTT-C
* * *
4533447 CCCTTTTCATAGTTCGACAGCTGAAGCTTT
1 CCCTTTTCATAATTCGACAACTGAAGCTTC
4533477 CCCTTTTCATAATT
1 CCCTTTTCATAATT
4533491 TGATGCTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (30 bp):
CCCTTTTCATAATTCGACAACTGAAGCTTC
Found at i:4533510 original size:30 final size:30
Alignment explanation
Indices: 4533476--4533668 Score: 99
Period size: 30 Copynumber: 6.5 Consensus size: 30
4533466 GCTGAAGCTT
*
4533476 TCCCTTTTCATAATTTGAT-GCTTGTCACCA
1 TCCCTTTTCATAATTTGATGGC-CGTCACCA
** * *
4533506 TCCCTTTTCATTGTTCGATGGCCGTTACCA
1 TCCCTTTTCATAATTTGATGGCCGTCACCA
* * * *
4533536 TCCCTTTTCATAATTTTATAGTCG-AAGCCA
1 TCCCTTTTCATAATTTGATGGCCGTCA-CCA
* * ** * *
4533566 TCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTTGATGGCCGTCA-CCA
* * * ** *
4533596 TCTCTTTTCATAGTTCGATGGTTGTCAACA
1 TCCCTTTTCATAATTTGATGGCCGTCACCA
* *
4533626 TCCTTTTTCAT--TGTTGATGGTCGTCACCA
1 TCCCTTTTCATAAT-TTGATGGCCGTCACCA
*
4533655 TCCCTTTTTATAAT
1 TCCCTTTTCATAAT
4533669 CGATAGTCGA
Statistics
Matches: 125, Mismatches: 32, Indels: 11
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.01
29 23 0.18
30 97 0.78
31 4 0.03
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (30 bp):
TCCCTTTTCATAATTTGATGGCCGTCACCA
Found at i:4533540 original size:60 final size:59
Alignment explanation
Indices: 4533476--4533668 Score: 185
Period size: 60 Copynumber: 3.2 Consensus size: 59
4533466 GCTGAAGCTT
* *
4533476 TCCCTTTTCATAATTTGATGCTTGTCACCATCCCTTTTCATTGTTCGATGGCCGTTACCA
1 TCCCTTTTCATAATTTGATG-TTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
* * * * * *
4533536 TCCCTTTTCATAATTTTATAGTCG-AAGCCATCCTTTTTCATAGTTCAATAGCCG-AAGCCA
1 TCCCTTTTCATAATTTGAT-GTTGTCA-CCATCCTTTTTCATTGTTCGATGGCCGTAA-CCA
* * * * * *
4533596 TCTCTTTTCATAGTTCGATGGTTGTCAACATCCTTTTTCATTGTT-GATGGTCGTCACCA
1 TCCCTTTTCATAATTTGAT-GTTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
*
4533655 TCCCTTTTTATAAT
1 TCCCTTTTCATAAT
4533669 CGATAGTCGA
Statistics
Matches: 104, Mismatches: 24, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
59 21 0.20
60 81 0.78
61 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (59 bp):
TCCCTTTTCATAATTTGATGTTGTCACCATCCTTTTTCATTGTTCGATGGCCGTAACCA
Found at i:4542824 original size:16 final size:16
Alignment explanation
Indices: 4542800--4542830 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4542790 TGATTCTGAC
*
4542800 CATGGCATACTGCATA
1 CATGACATACTGCATA
4542816 CATGACATACTGCAT
1 CATGACATACTGCAT
4542831 GGGGTTGGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (16 bp):
CATGACATACTGCATA
Found at i:4549169 original size:3 final size:3
Alignment explanation
Indices: 4549156--4549188 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
4549146 AACTGATTTT
4549156 ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4549189 AAGTTCTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:4558447 original size:20 final size:20
Alignment explanation
Indices: 4558410--4558448 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4558400 TAAAAAAACA
* **
4558410 TATAATTATTCATTTAATAT
1 TATAACTATTCAAATAATAT
4558430 TATAACTATTCAAATAATA
1 TATAACTATTCAAATAATA
4558449 CTGTGTGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAACTATTCAAATAATAT
Found at i:4563686 original size:16 final size:17
Alignment explanation
Indices: 4563646--4563688 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
4563636 TTCTTGATAT
4563646 AGTTGTTCTCAATGAAG
1 AGTTGTTCTCAATGAAG
4563663 ATGTTGTTC-CAACT-AAG
1 A-GTTGTTCTCAA-TGAAG
4563680 AGTTGTTCT
1 AGTTGTTCT
4563689 GTGGTGCTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (17 bp):
AGTTGTTCTCAATGAAG
Found at i:4563774 original size:16 final size:16
Alignment explanation
Indices: 4563753--4563794 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4563743 AAAAACAAAA
4563753 TTGTTCTAAATATA-AG
1 TTGTTCTAAATA-ACAG
* *
4563769 TTGTTCCAAATAACGG
1 TTGTTCTAAATAACAG
4563785 TTGTTCTAAA
1 TTGTTCTAAA
4563795 CATAGCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.40
Consensus pattern (16 bp):
TTGTTCTAAATAACAG
Found at i:4565762 original size:21 final size:21
Alignment explanation
Indices: 4565737--4565792 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
4565727 AACAGTGATG
*
4565737 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
4565758 GCGGTGAGATTAGATACTGTA
1 GCGGTGAGATTAGATACTGTA
*
4565779 GCAGTGAGATTAGA
1 GCGGTGAGATTAGA
4565793 AACAATGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.34, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:4567068 original size:58 final size:59
Alignment explanation
Indices: 4566973--4567144 Score: 170
Period size: 58 Copynumber: 2.9 Consensus size: 59
4566963 TTGTTGCAAT
* * * * *
4566973 GTTTCCTAAAAAATAATGGAAACAA-CAAGTTATAGTGTTTTTGGAATAACCTTTGGTAAT
1 GTTTCCTTACAAA-AATGGGAACAACCAAG-TATAGTGTTTTTGGAATAACCTTTGATAAC
* * * * *
4567033 TTTTCC-T-CAAACAATGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAAC
1 GTTTCCTTACAAA-AATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
* *
4567091 GTTTCCTTACAAAAATTTGGGAACACCCAAGTATAGTGTTTTAGGAATAACCTT
1 GTTTCCTTACAAAAA--TGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTT
4567145 CCATAGTGTT
Statistics
Matches: 89, Mismatches: 18, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
58 42 0.47
59 7 0.08
60 9 0.10
61 31 0.35
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (59 bp):
GTTTCCTTACAAAAATGGGAACAACCAAGTATAGTGTTTTTGGAATAACCTTTGATAAC
Found at i:4567156 original size:61 final size:60
Alignment explanation
Indices: 4567047--4567165 Score: 134
Period size: 61 Copynumber: 2.0 Consensus size: 60
4567037 CCTCAAACAA
* *
4567047 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTGATAACGTTTCCTTACAAAAATT
1 TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTA-AAAAATT
* * * **
4567108 TGGGAACACCCAAGTATAGTGTTT-TAGGAATAACCT-TCCATAGTGTTTCCCTAAAAAA
1 TGGGAACAACCAAGTAAAGTGTTTCT-GGAATAACATGT-CATAACGTTTCCCTAAAAAA
4567166 GTGGCAGCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
60 7 0.14
61 42 0.86
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (60 bp):
TGGGAACAACCAAGTAAAGTGTTTCTGGAATAACATGTCATAACGTTTCCCTAAAAAATT
Found at i:4567816 original size:97 final size:97
Alignment explanation
Indices: 4567694--4567883 Score: 335
Period size: 97 Copynumber: 2.0 Consensus size: 97
4567684 AGTTATAAAG
4567694 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
*
4567759 GTACAAAAGGGATTAGAAGTATGAATTCGTAA
66 GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
* * *
4567791 TGTAGCTAAAATATGAACGATAAAGTTGTAGTTTAATTTTCATGTATTGATAAAATATCTTACTC
1 TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
*
4567856 GTACAAAATGGAGTAGAAGTATGAATTC
66 GTACAAAAGGGAGTAGAAGTATGAATTC
4567884 CTTTTATATT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.34
Consensus pattern (97 bp):
TGTAGCTAAAATATGAACAATAAAGTTGTAGTTGAATTTTCATGTATTGATAAAATATCATACTC
GTACAAAAGGGAGTAGAAGTATGAATTCGTAA
Found at i:4569568 original size:25 final size:25
Alignment explanation
Indices: 4569528--4569581 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
4569518 TTTTCTTTTC
* *
4569528 TTTTTCTTTTCATTTTTAGTTTAGG
1 TTTTTCTTTTCATTTTTAGATTAGA
4569553 TTTTCTCTTTTC-TTTTTAGATTAGA
1 TTTT-TCTTTTCATTTTTAGATTAGA
4569578 TTTT
1 TTTT
4569582 ATTGTAGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (25 bp):
TTTTTCTTTTCATTTTTAGATTAGA
Found at i:4592644 original size:10 final size:10
Alignment explanation
Indices: 4592629--4592653 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4592619 AGTTTTTAAT
4592629 TTTTAAAATA
1 TTTTAAAATA
4592639 TTTTAAAATA
1 TTTTAAAATA
4592649 TTTTA
1 TTTTA
4592654 TTTTGCTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:4600923 original size:19 final size:18
Alignment explanation
Indices: 4600901--4600958 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
4600891 TACTTTTTTA
*
4600901 TTAACTTTTATCTTTTTCT
1 TTAA-TTTTATATTTTTCT
* * *
4600920 TTAATTTTTTTTTGTTTTT
1 TTAATTTTATATT-TTTCT
4600939 TTAAGTTTTATATTTTTCT
1 TTAA-TTTTATATTTTTCT
4600958 T
1 T
4600959 ATTTGATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
18 7 0.23
19 17 0.55
20 7 0.23
ACGTcount: A:0.16, C:0.07, G:0.03, T:0.74
Consensus pattern (18 bp):
TTAATTTTATATTTTTCT
Found at i:4600939 original size:40 final size:38
Alignment explanation
Indices: 4600894--4600979 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 38
4600884 TTTTTATTAC
* **
4600894 TTTTTTATTAACTTTTATCTTTTTCTTTAATTTTTTTTTG
1 TTTTTTATTAACTTTTATATTTTTC-TT-ATTTGATTTTG
*
4600934 -TTTTT-TTAAGTTTTATATTTTTCTTATTTGATTTTG
1 TTTTTTATTAACTTTTATATTTTTCTTATTTGATTTTG
4600970 TTTATTTATT
1 TTT-TTTATT
4600980 TTATTTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
36 9 0.23
37 4 0.10
38 19 0.49
39 7 0.18
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (38 bp):
TTTTTTATTAACTTTTATATTTTTCTTATTTGATTTTG
Found at i:4600980 original size:13 final size:14
Alignment explanation
Indices: 4600957--4600989 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
4600947 TATATTTTTC
*
4600957 TTATTTGATTTTGT
1 TTATTTGATTTTAT
4600971 TTATTT-ATTTTAT
1 TTATTTGATTTTAT
4600984 TTATTT
1 TTATTT
4600990 TTATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (14 bp):
TTATTTGATTTTAT
Found at i:4600980 original size:18 final size:19
Alignment explanation
Indices: 4600957--4600999 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4600947 TATATTTTTC
4600957 TTATTTGATTT-TGTTTAT
1 TTATTTGATTTATGTTTAT
* *
4600975 TTATTTTATTTATTTTTAT
1 TTATTTGATTTATGTTTAT
*
4600994 TAATTT
1 TTATTT
4601000 TAAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (19 bp):
TTATTTGATTTATGTTTAT
Found at i:4601137 original size:14 final size:14
Alignment explanation
Indices: 4601120--4601195 Score: 59
Period size: 14 Copynumber: 5.5 Consensus size: 14
4601110 GTCTTATAAA
4601120 TTTTAAAAATATAT
1 TTTTAAAAATATAT
* *
4601134 TTTTGAAATTA-AT
1 TTTTAAAAATATAT
* * * *
4601147 TTTTCTAAATTTTAAA
1 TTTT-AAAAATAT-AT
4601163 TTTT--AAATATAT
1 TTTTAAAAATATAT
4601175 TTTTAAAAATATAT
1 TTTTAAAAATATAT
4601189 TTTTAAA
1 TTTTAAA
4601196 CAAAATAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
12 5 0.10
13 10 0.20
14 29 0.59
16 5 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (14 bp):
TTTTAAAAATATAT
Found at i:4601137 original size:36 final size:34
Alignment explanation
Indices: 4601041--4601162 Score: 124
Period size: 36 Copynumber: 3.6 Consensus size: 34
4601031 TTATAATATA
** *
4601041 TATTTTTA-AAATTTTAATTATTA-TTTTAAAAT
1 TATTTTTATAAATTTTAAAAATTATTTTTTAAAT
*
4601073 TATTTTTA-AAATTTTAAATATTATTTTTTTAAAT
1 TATTTTTATAAATTTTAAAAATTA-TTTTTTAAAT
* *
4601107 TATGTCTTATAAATTTTAAAAATATATTTTTGAAAT
1 TAT-TTTTATAAATTTTAAAAAT-TATTTTTTAAAT
*
4601143 TAATTTTTCTAAATTTTAAA
1 T-ATTTTTATAAATTTTAAA
4601163 TTTTAAATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
32 22 0.29
34 11 0.14
35 4 0.05
36 36 0.47
37 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (34 bp):
TATTTTTATAAATTTTAAAAATTATTTTTTAAAT
Found at i:4601253 original size:36 final size:34
Alignment explanation
Indices: 4601156--4601318 Score: 119
Period size: 34 Copynumber: 4.8 Consensus size: 34
4601146 TTTTTCTAAA
*
4601156 TTTT-AAATTT-TAAATATATTTTTAAAAATATAT
1 TTTTAAAATTTATAAA-ATAATTTTAAAAATATAT
** *
4601189 TTTTAAACA-AAATAAAATAATTTCAAAAATATAT
1 TTTTAAA-ATTTATAAAATAATTTTAAAAATATAT
4601223 TTTTAAAATTTATAAGACATAATTTTAAAAA-ATAAT
1 TTTTAAAATTTATAA-A-ATAATTTTAAAAATAT-AT
* **
4601259 ATTTAAAATTT-TAAAAGTATATTTTTGAAAT-TAT
1 TTTTAAAATTTATAAAA-TA-ATTTTAAAAATATAT
4601293 TTTT--AATTT-TAAATATTAATTTTAAA
1 TTTTAAAATTTATAAA-A-TAATTTTAAA
4601319 TATTAAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
32 15 0.14
33 9 0.09
34 37 0.35
35 20 0.19
36 24 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTAAAATTTATAAAATAATTTTAAAAATATAT
Found at i:4601311 original size:13 final size:13
Alignment explanation
Indices: 4601295--4601324 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4601285 GAAATTATTT
4601295 TTAATTTTAAATA
1 TTAATTTTAAATA
4601308 TTAATTTTAAATA
1 TTAATTTTAAATA
4601321 TTAA
1 TTAA
4601325 ATATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAATTTTAAATA
Found at i:4601324 original size:20 final size:20
Alignment explanation
Indices: 4601291--4601328 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4601281 TTTTGAAATT
* *
4601291 ATTTTTAATTTTAAATATTA
1 ATTTTAAATATTAAATATTA
4601311 ATTTTAAATATTAAATAT
1 ATTTTAAATATTAAATAT
4601329 ATTTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAATATTAAATATTA
Found at i:4601427 original size:24 final size:24
Alignment explanation
Indices: 4601400--4601467 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 24
4601390 GTTTAAATAT
4601400 ATTTAAAATAATTTAAAAATCATA
1 ATTTAAAATAATTTAAAAATCATA
4601424 ATTTAAAA-AATTCTGAAAAAATCATA
1 ATTTAAAATAATT-T--AAAAATCATA
*
4601450 ATTTAAAATTATATTAAA
1 ATTTAAAATAAT-TTAAA
4601468 TATATTAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
23 4 0.11
24 9 0.24
25 3 0.08
26 18 0.47
27 3 0.08
28 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.01, T:0.37
Consensus pattern (24 bp):
ATTTAAAATAATTTAAAAATCATA
Found at i:4601663 original size:20 final size:20
Alignment explanation
Indices: 4601600--4601663 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
4601590 TTAAGTACAT
* *
4601600 AAATTTATGAATGTGTACTA
1 AAATTTATAAATATGTACTA
* * *
4601620 AAA-TTAAAAAAATAATA-TA
1 AAATTTATAAATAT-GTACTA
4601639 TAAATTTATAAATATGTACTA
1 -AAATTTATAAATATGTACTA
4601660 AAAT
1 AAAT
4601664 AAAAAAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 8 0.25
20 14 0.44
21 10 0.31
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (20 bp):
AAATTTATAAATATGTACTA
Found at i:4602122 original size:20 final size:20
Alignment explanation
Indices: 4602099--4602153 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
4602089 TGTGATCTTA
4602099 TAATATATATTTTTAATTTT
1 TAATATATATTTTTAATTTT
* * *
4602119 TAATTTAAATTTTTACTTTT
1 TAATATATATTTTTAATTTT
4602139 TAATATATATATTTT
1 TAATATATAT-TTTT
4602154 TAAATAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TAATATATATTTTTAATTTT
Found at i:4602180 original size:20 final size:20
Alignment explanation
Indices: 4602155--4602212 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 20
4602145 ATATATTTTT
4602155 AAATAAATTTATTTTTTAAC
1 AAATAAATTTATTTTTTAAC
*
4602175 AAATAAA--TCTTTTTTAAC
1 AAATAAATTTATTTTTTAAC
* **
4602193 AGATATTTTTTATTTTTTAA
1 AAATA-AATTTATTTTTTAA
4602213 TTAATTCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 14 0.47
20 7 0.23
21 9 0.30
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (20 bp):
AAATAAATTTATTTTTTAAC
Found at i:4602523 original size:20 final size:20
Alignment explanation
Indices: 4602498--4602541 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4602488 CATAATTTAA
4602498 AATATTATAAAAAATT-AAAT
1 AATATT-TAAAAAATTAAAAT
*
4602518 AATATTTAAAATATTAAAAT
1 AATATTTAAAAAATTAAAAT
4602538 AATA
1 AATA
4602542 ATAATAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AATATTTAAAAAATTAAAAT
Found at i:4602534 original size:8 final size:9
Alignment explanation
Indices: 4602492--4602538 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 9
4602482 AAAAATCATA
4602492 ATTTAAAAT
1 ATTTAAAAT
*
4602501 ATTATAAAAA
1 ATT-TAAAAT
*
4602511 ATTAAATAAT
1 ATTTAA-AAT
4602521 ATTTAAAAT
1 ATTTAAAAT
4602530 A-TTAAAAT
1 ATTTAAAAT
4602538 A
1 A
4602539 ATAATAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 8 0.25
9 9 0.28
10 15 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:4602538 original size:17 final size:18
Alignment explanation
Indices: 4602494--4602538 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
4602484 AAATCATAAT
4602494 TTAAAATATTATAAAAAA
1 TTAAAATATTATAAAAAA
*
4602512 TTAAATAATATT-TAAAATA
1 TT-AA-AATATTATAAAAAA
4602531 TTAAAATA
1 TTAAAATA
4602539 ATAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 10 0.42
20 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TTAAAATATTATAAAAAA
Found at i:4602547 original size:29 final size:28
Alignment explanation
Indices: 4602491--4602552 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
4602481 TAAAAATCAT
*
4602491 AATTTAAAATATTATAAAAAATTAAATA
1 AATTTAAAATATTATAAAAAATAAAATA
*
4602519 ATATTTAAAATATTA-AAATAATAATAATA
1 A-ATTTAAAATATTATAAAAAATAA-AATA
4602548 AATTT
1 AATTT
4602553 GAAAGGTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.40
29 18 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
AATTTAAAATATTATAAAAAATAAAATA
Found at i:4602590 original size:26 final size:23
Alignment explanation
Indices: 4602561--4602647 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 23
4602551 TTGAAAGGTC
*
4602561 ATATCTTTAAAATATTTAAATATTTT
1 ATAT-TTTAAAATA--TAAATATTTA
*
4602587 ATATTATTAAAATATATATATTTA
1 ATATT-TTAAAATATAAATATTTA
* *
4602611 ATATTTTAAAAAAT-AATATTCA
1 ATATTTTAAAATATAAATATTTA
*
4602633 AAATTTTAAAA-ATAA
1 ATATTTTAAAATATAA
4602648 TTTAAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.04
22 17 0.32
23 8 0.15
24 13 0.25
25 1 0.02
26 12 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATTTTAAAATATAAATATTTA
Found at i:4602638 original size:22 final size:22
Alignment explanation
Indices: 4602593--4602656 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
4602583 TTTTATATTA
* * *
4602593 TTAAAATATATATATTTAATATT
1 TTAAAAAATA-ATATTAAAAATT
*
4602616 TTAAAAAATAATATTCAAAATT
1 TTAAAAAATAATATTAAAAATT
4602638 TT-AAAAATAAT-TTAAAAAT
1 TTAAAAAATAATATTAAAAAT
4602657 AATAGTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
20 7 0.19
21 9 0.24
22 12 0.32
23 9 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
TTAAAAAATAATATTAAAAATT
Found at i:4602653 original size:11 final size:11
Alignment explanation
Indices: 4602619--4602659 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
4602609 TAATATTTTA
4602619 AAAAATAATATT
1 AAAAATAAT-TT
*
4602631 CAAAAT--TTT
1 AAAAATAATTT
4602640 AAAAATAATTT
1 AAAAATAATTT
4602651 AAAAATAAT
1 AAAAATAAT
4602660 AGTTAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 7 0.28
10 1 0.04
11 12 0.48
12 5 0.20
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAAATAATTT
Found at i:4602677 original size:33 final size:33
Alignment explanation
Indices: 4602610--4602676 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 33
4602600 ATATATATTT
*
4602610 AATATTTTAAAAAATAATATTCAAAATTTTAAA
1 AATAATTTAAAAAATAATATTCAAAATTTTAAA
4602643 AATAATTT-AAAAATAATAGTT-AAAATTTTAAA
1 AATAATTTAAAAAATAATA-TTCAAAATTTTAAA
4602675 AA
1 AA
4602677 AATATATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 23 0.72
33 9 0.28
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (33 bp):
AATAATTTAAAAAATAATATTCAAAATTTTAAA
Found at i:4602747 original size:9 final size:9
Alignment explanation
Indices: 4602720--4602764 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
4602710 TCAATTTTTT
*
4602720 TAAAATTAA
1 TAAAATAAA
4602729 TAACAATAAA
1 TAA-AATAAA
4602739 TAAAATAAA
1 TAAAATAAA
4602748 T-AAATAAA
1 TAAAATAAA
*
4602756 CAAAATAAA
1 TAAAATAAA
4602765 ATAAGAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
8 7 0.22
9 17 0.53
10 8 0.25
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:4602810 original size:19 final size:19
Alignment explanation
Indices: 4602787--4602838 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
4602777 ATAAAACTTA
*
4602787 AAAAAAGAAAAAATTTAA-
1 AAAAAAGAAAAAAGTTAAT
*
4602805 AGAAAAAGACAAAAGTTAAT
1 A-AAAAAGAAAAAAGTTAAT
4602825 AAAAAAGTAAAAAA
1 AAAAAAG-AAAAAA
4602839 ATAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.04
19 21 0.75
20 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.13
Consensus pattern (19 bp):
AAAAAAGAAAAAAGTTAAT
Found at i:4602843 original size:16 final size:15
Alignment explanation
Indices: 4602822--4602851 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4602812 GACAAAAGTT
4602822 AATAAAAAAGTAAAAA
1 AATAAAAAA-TAAAAA
4602838 AATAAAAAATAAAA
1 AATAAAAAATAAAA
4602852 TAAGGGTGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AATAAAAAATAAAAA
Found at i:4603874 original size:7 final size:7
Alignment explanation
Indices: 4603864--4603918 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
4603854 AAAAAAGGAA
4603864 AAAGAAC
1 AAAGAAC
4603871 AAAGAAC
1 AAAGAAC
*
4603878 AAAGAAG
1 AAAGAAC
* *
4603885 ATAACGGGAT
1 A-AA--GAAC
4603895 AAAGAAC
1 AAAGAAC
4603902 AAAGAAC
1 AAAGAAC
4603909 AAAGAAC
1 AAAGAAC
4603916 AAA
1 AAA
4603919 AAAGAGGAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
7 33 0.82
8 2 0.05
9 2 0.05
10 3 0.08
ACGTcount: A:0.67, C:0.11, G:0.18, T:0.04
Consensus pattern (7 bp):
AAAGAAC
Found at i:4604565 original size:18 final size:17
Alignment explanation
Indices: 4604533--4604566 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4604523 CGACCGCGAC
4604533 AAACGCGACGCGACCGA
1 AAACGCGACGCGACCGA
*
4604550 AAACGTGACTGCGACCG
1 AAACGCGAC-GCGACCG
4604567 CAATTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.32, G:0.29, T:0.06
Consensus pattern (17 bp):
AAACGCGACGCGACCGA
Found at i:4605026 original size:25 final size:26
Alignment explanation
Indices: 4604971--4605026 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 26
4604961 AACGTCCACT
*
4604971 ACCTATCGACCACTTAATGCCCGCAAT
1 ACCTATCGACCACTT-ATGCCCGCAAA
*
4604998 ACCTATCGACCACTT-TGCCCGTAAA
1 ACCTATCGACCACTTATGCCCGCAAA
4605023 ACCT
1 ACCT
4605027 GAACCCACAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.29, C:0.38, G:0.11, T:0.23
Consensus pattern (26 bp):
ACCTATCGACCACTTATGCCCGCAAA
Found at i:4608227 original size:41 final size:41
Alignment explanation
Indices: 4608182--4608300 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
4608172 CCTGATTCAA
* *
4608182 TTCACCAGCAATT-AGCCTGCTAGACTTAAAGTCTGAATTAT
1 TTCACCGGC-ATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * *
4608223 TTCACCGGCATTAAGCCTGCTGGACATAAAGTCCGAATTAC
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
* * * *
4608264 ATCACCGGCCTTAAGCCTGCTAGACTTTAAGCCTGAA
1 TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAA
4608301 AATGTCCATT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 3 0.05
41 62 0.95
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (41 bp):
TTCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAATTAC
Found at i:4609958 original size:13 final size:13
Alignment explanation
Indices: 4609940--4609965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4609930 TCAAACGATC
4609940 AAATTTTCACACA
1 AAATTTTCACACA
4609953 AAATTTTCACACA
1 AAATTTTCACACA
4609966 TATAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:4617384 original size:26 final size:26
Alignment explanation
Indices: 4617334--4617387 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
4617324 TTGAATTTTT
* *
4617334 TTCGAATCGAGTCGAGTGAAATGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
* *
4617360 TTCGAGTCGAGTCGAATCAAGTGAAA
1 TTCGAATCGAGTCGAATCAAATGAAA
4617386 TT
1 TT
4617388 GTTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (26 bp):
TTCGAATCGAGTCGAATCAAATGAAA
Found at i:4617628 original size:20 final size:20
Alignment explanation
Indices: 4617589--4617649 Score: 99
Period size: 20 Copynumber: 3.1 Consensus size: 20
4617579 TTCTAGAACA
*
4617589 TTTTT-AATTTTT-TAACTT
1 TTTTTAAATTTTTATAATTT
4617607 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
4617627 TTTTTAAATTTTTATAATTT
1 TTTTTAAATTTTTATAATTT
4617647 TTT
1 TTT
4617650 AAAAAATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
18 5 0.12
19 7 0.17
20 28 0.70
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTAAATTTTTATAATTT
Found at i:4617650 original size:10 final size:10
Alignment explanation
Indices: 4617589--4617650 Score: 67
Period size: 10 Copynumber: 6.5 Consensus size: 10
4617579 TTCTAGAACA
4617589 TTTT-TAATT
1 TTTTATAATT
*
4617598 TTTTA-ACTT
1 TTTTATAATT
*
4617607 TTTT-TAAAT
1 TTTTATAATT
4617616 TTTTATAATT
1 TTTTATAATT
* *
4617626 TTTTTTAAAT
1 TTTTATAATT
4617636 TTTTATAATT
1 TTTTATAATT
4617646 TTTTA
1 TTTTA
4617651 AAAAATATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
9 17 0.40
10 25 0.60
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATAATT
Found at i:4617725 original size:21 final size:20
Alignment explanation
Indices: 4617669--4617734 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
4617659 AAATTTTGGG
*
4617669 ATTTTTATAAA-TATTTT-A
1 ATTTTTAAAAATTATTTTGA
*
4617687 AATTTTAAAAATTATTTTGA
1 ATTTTTAAAAATTATTTTGA
* *
4617707 ATTTTTGAAAATTATTTTTTA
1 ATTTTTAAAAATTA-TTTTGA
4617728 ATTTTTA
1 ATTTTTA
4617735 TTGAGAGAGA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
18 9 0.23
19 6 0.15
20 13 0.33
21 11 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
ATTTTTAAAAATTATTTTGA
Found at i:4624553 original size:54 final size:54
Alignment explanation
Indices: 4624435--4624556 Score: 124
Period size: 54 Copynumber: 2.3 Consensus size: 54
4624425 GTGTTTCAAG
* ** * * *
4624435 TCAGTGAGTTACACGGCCTATCACATGGCTCGGCACACGGGCGTCTGTGGCAAT
1 TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
* *
4624489 TGAG-AGAGTTACACAACCTAGCACACGGC-CTGGCACACGGGCGTGT-TGGGCAAC
1 TCAGTA-AGTTACACAACCTAGCACACGGCTC-GGCACACGGGCGTCTGT-GGCAAC
4624543 TCAGTAAGTTACAC
1 TCAGTAAGTTACAC
4624557 GGGTGAGGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
53 2 0.04
54 52 0.95
55 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.29, T:0.20
Consensus pattern (54 bp):
TCAGTAAGTTACACAACCTAGCACACGGCTCGGCACACGGGCGTCTGTGGCAAC
Found at i:4630951 original size:100 final size:100
Alignment explanation
Indices: 4630824--4631028 Score: 392
Period size: 100 Copynumber: 2.0 Consensus size: 100
4630814 TTCGTACTTG
*
4630824 AGTTTGAATGGACGCTATACTCTGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
1 AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
4630889 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
66 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
*
4630924 AGTTTGAATGGACGCTCTACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
1 AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
4630989 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
66 AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
4631024 AGTTT
1 AGTTT
4631029 ACGCCACGAT
Statistics
Matches: 103, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.34
Consensus pattern (100 bp):
AGTTTGAATGGACGCTATACTCCGATCCTAGAATTAAATAATGCATCTTGTCCGACTTCTTGGTC
AATCCTAATATCTGACACGTTAAAGTGCCATTGAT
Found at i:4650714 original size:24 final size:24
Alignment explanation
Indices: 4650684--4650737 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
4650674 CTGTGGAGAT
* *
4650684 TGATGATGCTT-TGGTGATTGAAGA
1 TGATGATACTTCTGATGA-TGAAGA
*
4650708 TGATGATATTTCTGATGATGAAGA
1 TGATGATACTTCTGATGATGAAGA
4650732 TGATGA
1 TGATGA
4650738 ACATGAAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (24 bp):
TGATGATACTTCTGATGATGAAGA
Found at i:4661396 original size:16 final size:17
Alignment explanation
Indices: 4661371--4661404 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4661361 TTAGAAATTG
*
4661371 TAAAAGATTATA-AAAA
1 TAAAAAATTATATAAAA
4661387 TAAAAAATTATATAAAA
1 TAAAAAATTATATAAAA
4661404 T
1 T
4661405 GATTAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (17 bp):
TAAAAAATTATATAAAA
Found at i:4661430 original size:18 final size:18
Alignment explanation
Indices: 4661380--4661430 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
4661370 GTAAAAGATT
*
4661380 ATAAAAATAA-AAAA-TT
1 ATAAAAATAATAAAAGTG
* *
4661396 ATATAAAATGATTAAAGTG
1 ATA-AAAATAATAAAAGTG
4661415 ATAAAAATAATAAAAG
1 ATAAAAATAATAAAAG
4661431 ATGTAGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 6 0.22
18 14 0.52
19 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
ATAAAAATAATAAAAGTG
Found at i:4662025 original size:9 final size:9
Alignment explanation
Indices: 4661984--4662025 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
4661974 GGTTAAAAAG
4661984 TAACCGAAT
1 TAACCGAAT
*
4661993 TACCCGAAT
1 TAACCGAAT
*
4662002 TACCCGAAT
1 TAACCGAAT
*
4662011 TGACCGAAT
1 TAACCGAAT
4662020 TAACCG
1 TAACCG
4662026 TGTCGAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (9 bp):
TAACCGAAT
Found at i:4662942 original size:14 final size:14
Alignment explanation
Indices: 4662925--4662969 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4662915 AAATATGTAT
*
4662925 ATACATATATTTAA
1 ATACATATATATAA
*
4662939 ATACGTATATATAA
1 ATACATATATATAA
4662953 GCATACATATATATAA
1 --ATACATATATATAA
4662969 A
1 A
4662970 AAAATGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (14 bp):
ATACATATATATAA
Found at i:4663091 original size:25 final size:25
Alignment explanation
Indices: 4663059--4663112 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
4663049 ATATGCATGG
*
4663059 ATTATAAAATATGGAATATATATATGT
1 ATTA-AAAATAT-AAATATATATATGT
*
4663086 ATTAAAAATATAAATGTATATATGT
1 ATTAAAAATATAAATATATATATGT
4663111 AT
1 AT
4663113 AATGTATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 14 0.56
26 7 0.28
27 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (25 bp):
ATTAAAAATATAAATATATATATGT
Found at i:4663238 original size:22 final size:22
Alignment explanation
Indices: 4663185--4663239 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 22
4663175 ACAAAAGTTT
*
4663185 AAAATATACATATATATTATAAA
1 AAAATATGCATATATATTAT-AA
4663208 GAAAATATGCATATATA-TATTAA
1 -AAAATATGCATATATATTA-TAA
*
4663231 AAACTATGC
1 AAAATATGC
4663240 GTGTGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.29
23 4 0.14
24 16 0.57
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (22 bp):
AAAATATGCATATATATTATAA
Found at i:4663287 original size:3 final size:3
Alignment explanation
Indices: 4663281--4663310 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4663271 ACATAACAAC
4663281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4663311 GCAATATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4664674 original size:18 final size:18
Alignment explanation
Indices: 4664647--4664700 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
4664637 AATTTTTATG
*
4664647 ATTGGGTTGGGTTGGGTA
1 ATTGGATTGGGTTGGGTA
*
4664665 ATTGGATTGGGTTGGATA
1 ATTGGATTGGGTTGGGTA
* *
4664683 CTTGGATTTGGATTGGGT
1 ATTGGA-TTGGGTTGGGT
4664701 TTAGGTGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 21 0.70
19 9 0.30
ACGTcount: A:0.15, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGATTGGGTTGGGTA
Found at i:4665136 original size:25 final size:25
Alignment explanation
Indices: 4665030--4665136 Score: 58
Period size: 28 Copynumber: 4.0 Consensus size: 25
4665020 TTCTATGACC
4665030 TTTTTATAGTTAATTTTTCTATAATTTATTA
1 TTTTTATA-TT-ATTTTT-TATAA--TA-TA
* *
4665061 TTTTTATATT-TTGTTCATAATA-A
1 TTTTTATATTATTTTTTATAATATA
* * * *
4665084 -ATTAATAATATTTTATAATATATAATA
1 TTTTTATATTATTTT-TTATA-AT-ATA
4665111 TTTTTATATTATTTTTTATAATATA
1 TTTTTATATTATTTTTTATAATATA
4665136 T
1 T
4665137 CTAAATTTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 18
0.67 0.12 0.20
Matches are distributed among these distances:
22 6 0.10
23 4 0.07
24 4 0.07
25 8 0.14
26 3 0.05
27 9 0.15
28 15 0.25
30 2 0.03
31 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
TTTTTATATTATTTTTTATAATATA
Found at i:4665148 original size:50 final size:49
Alignment explanation
Indices: 4665040--4665167 Score: 127
Period size: 51 Copynumber: 2.6 Consensus size: 49
4665030 TTTTTATAGT
*
4665040 TAATTTTTCTATAAT-TTATTATTTTTATATTTTGTTCATAATAAATTAA
1 TAATTTTT-TATAATATTAATATTTTTATATTTTGTTCATAATAAATTAA
* * * *
4665089 TAATATTTTATAATATATAATATTTTTATATTATTTTTTATAATATATCT-A
1 TAATTTTTTATAATAT-TAATATTTTTATATT-TTGTTCATAATAAAT-TAA
*
4665140 -AATTTTTTATACAATTTTAATATTTTTA
1 TAATTTTTTAT--AATATTAATATTTTTA
4665168 AAATTAAATA
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
48 6 0.09
49 8 0.12
50 23 0.35
51 24 0.36
52 5 0.08
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (49 bp):
TAATTTTTTATAATATTAATATTTTTATATTTTGTTCATAATAAATTAA
Found at i:4665157 original size:32 final size:30
Alignment explanation
Indices: 4665094--4665157 Score: 76
Period size: 32 Copynumber: 2.1 Consensus size: 30
4665084 ATTAATAATA
**
4665094 TTTTATAATATATAATATTTTTATATTATT
1 TTTTATAATATATAATATTTTTATACAATT
4665124 TTTTATAATATATCTAA-ATTTTTTATACAATT
1 TTTTATAATATA--TAATA-TTTTTATACAATT
4665156 TT
1 TT
4665158 AATATTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 12 0.41
31 1 0.03
32 16 0.55
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTTATAATATATAATATTTTTATACAATT
Found at i:4665164 original size:20 final size:21
Alignment explanation
Indices: 4665120--4665166 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
4665110 ATTTTTATAT
4665120 TATTTTTTATAATATATCTAA
1 TATTTTTTATAATATATCTAA
*
4665141 -ATTTTTTATACA-AT-TTTAA
1 TATTTTTTATA-ATATATCTAA
4665160 TATTTTT
1 TATTTTT
4665167 AAAATTAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 18 0.78
21 1 0.04
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTTATAATATATCTAA
Found at i:4666482 original size:6 final size:6
Alignment explanation
Indices: 4666473--4666503 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4666463 CATTGACAAG
*
4666473 ATGATA ATGATA ATGATA ATGATA ATAATA A
1 ATGATA ATGATA ATGATA ATGATA ATGATA A
4666504 CAATATTGCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (6 bp):
ATGATA
Found at i:4667202 original size:19 final size:18
Alignment explanation
Indices: 4667180--4667242 Score: 54
Period size: 20 Copynumber: 3.3 Consensus size: 18
4667170 TTTTTTTTGC
4667180 AAAATCAAAATTTTCTTTAA
1 AAAATCAAAATTTT-TTT-A
**
4667200 AAAATCATTATTTTTCTTA
1 AAAATCAAAATTTTT-TTA
*
4667219 AAAATCAAAACTTTATTTA
1 AAAATCAAAA-TTTTTTTA
*
4667238 GAAAT
1 AAAAT
4667243 AGTTAAAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATCAAAATTTTTTTA
Found at i:4667203 original size:20 final size:19
Alignment explanation
Indices: 4667180--4667228 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
4667170 TTTTTTTTGC
4667180 AAAATCAAAA-TTTTCTTTAA
1 AAAATCAAAATTTTTC-TT-A
**
4667200 AAAATCATTATTTTTCTTA
1 AAAATCAAAATTTTTCTTA
4667219 AAAATCAAAA
1 AAAATCAAAA
4667229 CTTTATTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAATCAAAATTTTTCTTA
Found at i:4667281 original size:22 final size:22
Alignment explanation
Indices: 4667248--4667295 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4667238 GAAATAGTTA
**
4667248 AAAAAGATCAAAATTTTGTTTT
1 AAAAAGATCAAAATTTTCCTTT
*
4667270 AAAAA-ATGCAAACTTTTCCTTT
1 AAAAAGAT-CAAAATTTTCCTTT
4667292 AAAA
1 AAAA
4667296 TGACTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (22 bp):
AAAAAGATCAAAATTTTCCTTT
Found at i:4667471 original size:145 final size:144
Alignment explanation
Indices: 4667166--4667645 Score: 621
Period size: 145 Copynumber: 3.3 Consensus size: 144
4667156 ACGGTGGTCG
* * * *
4667166 GATTTTT-TTTTTGCAAAATC-AAAATTT-TCTTTAAAAAATCATTATTTTTCTTAAAAATCAAA
1 GATTTTTATTTTT-TAAAATCTAAAATTTCTCTTTAAAAAAACACTATTTTTCTTAAAGATCAAA
* * * * **
4667228 AC-TTTATTTAGAAATAGTTAAAAAAGATCAAAATTTTGTTTTAAAAAATGCAAACTTTTCCTTT
65 ACTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTT-TTTTAAAAAATTTAAACTTTT-CTTT
*
4667292 AAAATGACTAAAAAACA
128 AAAATGACTAAAAAATA
* * *
4667309 AATTTTTA-TTTTAAAAATCTAAACTTTCTCTTTAAGAAAAACACTATTTTTCTTAAAGATCAAA
1 GATTTTTATTTTTTAAAATCTAAAATTTCTCTTTAA-AAAAACACTATTTTTCTTAAAGATCAAA
*
4667373 ACTTTTATTTTGAAATAG-AAAAAAAAATCAAAACTTTATTTTAAAAAATTTGAACTTTTCTTTA
65 ACTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTT-TTTTAAAAAATTTAAACTTTTCTTTA
4667437 AAATGACTAAAAAATA
129 AAATGACTAAAAAATA
4667453 GATTTTTATTTTTTAAAATCTAAAATTTCTCCTTTTAAAAAAAACACTATTTTTCTTAAAGATCA
1 GATTTTTATTTTTTAAAATCTAAAATTTCT-C-TTT-AAAAAAACACTATTTTTCTTAAAGATCA
* * *
4667518 AAGCTTTTATTTTGAAATAGTTAAAAAAAAATCAAAACTTTTTTTTAAAAATTTAAACTTTCCTT
63 AAACTTTTATTTTGAAATAG-TAAAAAAAAATCAAAACTTTTTTTAAAAAATTTAAACTTTTCTT
4667583 TAAAATGACTAAAAAAAATA
127 TAAAATGACT--AAAAAATA
* *
4667603 GATTTTTAATTTTTAAAATCTAAACTTTCTCTTTTTAAAAAAA
1 GATTTTTATTTTTTAAAATCTAAAATTTCTC--TTTAAAAAAA
4667646 AATCAAAACT
Statistics
Matches: 299, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
142 6 0.02
143 16 0.05
144 34 0.11
145 80 0.27
146 15 0.05
147 48 0.16
148 33 0.11
149 27 0.09
150 40 0.13
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (144 bp):
GATTTTTATTTTTTAAAATCTAAAATTTCTCTTTAAAAAAACACTATTTTTCTTAAAGATCAAAA
CTTTTATTTTGAAATAGTAAAAAAAAATCAAAACTTTTTTTAAAAAATTTAAACTTTTCTTTAAA
ATGACTAAAAAATA
Found at i:4668930 original size:13 final size:13
Alignment explanation
Indices: 4668912--4668939 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4668902 ATAAAATTAG
4668912 AAAGATGAAAAAT
1 AAAGATGAAAAAT
4668925 AAAGATGAAAAAT
1 AAAGATGAAAAAT
4668938 AA
1 AA
4668940 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:4669500 original size:21 final size:20
Alignment explanation
Indices: 4669476--4669515 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4669466 AATTGGATTG
4669476 AATTGAATATGAAATTTATTA
1 AATTG-ATATGAAATTTATTA
* *
4669497 AATTGATGTTAAATTTATT
1 AATTGATATGAAATTTATT
4669516 TATATAGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (20 bp):
AATTGATATGAAATTTATTA
Found at i:4670091 original size:25 final size:25
Alignment explanation
Indices: 4670063--4670125 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
4670053 AGCTCTTACG
4670063 AGCTTCCTGTTATTAAGCCCGA-ATA
1 AGCTTCCTGTTATTAAGCCC-ACATA
* * *
4670088 AGCTTCTTGTTA-CAAGCTCACATA
1 AGCTTCCTGTTATTAAGCCCACATA
*
4670112 AGCTTTCTGTTATT
1 AGCTTCCTGTTATT
4670126 TGGCTTGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 11 0.37
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.38
Consensus pattern (25 bp):
AGCTTCCTGTTATTAAGCCCACATA
Done.