Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 19 of 325
Found at i:4427269 original size:16 final size:17
Alignment explanation
Indices: 4427248--4427280 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
4427238 TTTGTAATAC
4427248 ATTAAAAT-AATAAACA
1 ATTAAAATAAATAAACA
4427264 ATTAAAATAAATAAACA
1 ATTAAAATAAATAAACA
4427281 CAAAGGCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAATAAATAAACA
Found at i:4433816 original size:5 final size:5
Alignment explanation
Indices: 4433806--4433898 Score: 81
Period size: 5 Copynumber: 18.8 Consensus size: 5
4433796 TATGTATTTC
* *
4433806 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AGAAAT AAAA- AAGA-
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT A-AAAT AAAAT AAAAT
4433850 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT -AAAT AAAGAT AAGAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA-AAT AAAA
4433899 AGATAGGAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 20
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.04
4 14 0.19
5 35 0.47
6 21 0.28
7 1 0.01
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4433840 original size:12 final size:11
Alignment explanation
Indices: 4433816--4433879 Score: 62
Period size: 12 Copynumber: 5.8 Consensus size: 11
4433806 AAAATAAAAT
*
4433816 AATAAAATTGA
1 AATAAAATAGA
4433827 AATGAAAATAGA
1 AAT-AAAATAGA
*
4433839 AATAAAAAAGAAA
1 AATAAAATAG--A
4433852 AATAAAATA-A
1 AATAAAATAGA
4433862 AAT-AAATA-A
1 AATAAAATAGA
4433871 AATAAAATA
1 AATAAAATA
4433880 AATAAAGATA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 9 0.20
10 9 0.20
11 9 0.20
12 10 0.22
13 9 0.20
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (11 bp):
AATAAAATAGA
Found at i:4433855 original size:19 final size:19
Alignment explanation
Indices: 4433831--4433898 Score: 86
Period size: 19 Copynumber: 3.5 Consensus size: 19
4433821 AATTGAAATG
4433831 AAAATAGAAATAAAAAAGA-
1 AAAATA-AAATAAAAAAGAT
4433850 AAAATAAAATAAAATAA-AT
1 AAAATAAAATAAAA-AAGAT
4433869 AAAATAAAATAAATAAAGAT
1 AAAATAAAATAAA-AAAGAT
4433889 AAGAATAAAA
1 AA-AATAAAA
4433899 AGATAGGAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.20
19 23 0.52
20 5 0.11
21 7 0.16
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.16
Consensus pattern (19 bp):
AAAATAAAATAAAAAAGAT
Found at i:4433870 original size:14 final size:15
Alignment explanation
Indices: 4433838--4433897 Score: 83
Period size: 14 Copynumber: 4.2 Consensus size: 15
4433828 ATGAAAATAG
4433838 AAATAAAA-AAGAA-
1 AAATAAAATAAGAAT
4433851 AAATAAAATAA-AAT
1 AAATAAAATAAGAAT
4433865 AAATAAAATAA-AAT
1 AAATAAAATAAGAAT
4433879 AAATAAAGATAAGAAT
1 AAATAAA-ATAAGAAT
4433895 AAA
1 AAA
4433898 AAGATAGGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.23
14 23 0.53
15 4 0.09
16 6 0.14
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (15 bp):
AAATAAAATAAGAAT
Found at i:4452074 original size:13 final size:12
Alignment explanation
Indices: 4452058--4452087 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
4452048 TTCTTATTCT
4452058 AAAAAAGAAAAGA
1 AAAAAAGAAAA-A
4452071 AAAAAAGAAAAA
1 AAAAAAGAAAAA
4452083 AAAAA
1 AAAAA
4452088 CATATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAA
Found at i:4456122 original size:5 final size:5
Alignment explanation
Indices: 4456112--4456136 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4456102 AATCGGTAAT
4456112 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
4456137 TAATTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:4457801 original size:19 final size:19
Alignment explanation
Indices: 4457765--4457801 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
4457755 TAACTAGGCT
* *
4457765 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
4457784 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
4457802 GAAAAATGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:4458005 original size:15 final size:16
Alignment explanation
Indices: 4457977--4458006 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
4457967 TTACGGTTTA
4457977 TATATTAGTTATTAAT
1 TATATTAGTTATTAAT
4457993 TATATTA-TTATTAA
1 TATATTAGTTATTAA
4458007 ATAAATTGAA
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:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TATATTAGTTATTAAT
Found at i:4458392 original size:142 final size:140
Alignment explanation
Indices: 4458110--4458427 Score: 315
Period size: 142 Copynumber: 2.2 Consensus size: 140
4458100 ATTTTAGAAC
* * * *
4458110 AAAAGATATTTATTAATTAAATAATTAAATAATGAGATTTTTGTTTAATAAATAAATTAAATAAT
1 AAAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATAAATTAAATAAT
* * * * * * * * *
4458175 GACAATTGTAATAAATTTATTGGTACAAATGTGAAAATATAAGTGTGTACAATTATAATATTAGT
66 GACAAATGTAATAAATTTAGTGGTAC-AATGTGAAAATAAAAATGTATACAAATATAAAATAAAT
4458240 ATTTGATATTA
130 ATTTGATATTA
* * *
4458251 AACAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATCAATATATTAAATTA
1 AA-AAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATAAATTAAATAA
* *
4458316 TGACAAATGTATGGTAAAATTT-GT-G-AC-ATGTGTAATAATAAAAATGTATACAAATGTAAAA
65 TGACAAATGTA--AT-AAATTTAGTGGTACAATGTG-AA-AATAAAAATGTATACAAATATAAAA
4458377 TAAATA-TTGATTATTA
125 TAAATATTTGA-TATTA
* *
4458393 AATAGATATTTTATTAACTT-ATTATATTATATTAT
1 AAAAGATA-TTTATTAA-TTAAATA-ATTATATTAT
4458428 ATATATATAT
Statistics
Matches: 147, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
140 5 0.03
141 13 0.09
142 108 0.73
143 13 0.09
144 2 0.01
145 6 0.04
ACGTcount: A:0.46, C:0.03, G:0.10, T:0.42
Consensus pattern (140 bp):
AAAAGATATTTATTAATTAAATAATTATATTATGAGATTTTTATGTAATAAATAAATTAAATAAT
GACAAATGTAATAAATTTAGTGGTACAATGTGAAAATAAAAATGTATACAAATATAAAATAAATA
TTTGATATTA
Found at i:4459241 original size:15 final size:15
Alignment explanation
Indices: 4459221--4459277 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
4459211 CGATGAATTT
4459221 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
4459236 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
4459251 ATTGAATTTATATTG
1 ATTGAATTTATATTG
4459266 ATTGAA-TTATAT
1 ATTGAATTTATAT
4459278 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:4459746 original size:27 final size:28
Alignment explanation
Indices: 4459712--4459781 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
4459702 AATGTCTTAT
4459712 TGGTGTGTTTGGGAGG-TTATATTATAC
1 TGGTGTGTTTGGGAGGATTATATTATAC
*
4459739 TGGTGTGTTAT-GGAGGATTTATATTATTC
1 TGGTGTGTT-TGGGAGGA-TTATATTATAC
4459768 TGGGTGTGTTTGGG
1 T-GGTGTGTTTGGG
4459782 TTGGATATTC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
27 14 0.38
28 1 0.03
29 12 0.32
30 10 0.27
ACGTcount: A:0.16, C:0.03, G:0.36, T:0.46
Consensus pattern (28 bp):
TGGTGTGTTTGGGAGGATTATATTATAC
Found at i:4459800 original size:23 final size:24
Alignment explanation
Indices: 4459763--4459807 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
4459753 GGATTTATAT
4459763 TATTCTGGGTGTGTTTGGGTTGGA
1 TATTCTGGGTGTGTTTGGGTTGGA
4459787 TATTCT-GGTGTGTTTGGGTTG
1 TATTCTGGGTGTGTTTGGGTTG
4459808 AATTCGCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.07, C:0.04, G:0.40, T:0.49
Consensus pattern (24 bp):
TATTCTGGGTGTGTTTGGGTTGGA
Found at i:4461566 original size:46 final size:50
Alignment explanation
Indices: 4461389--4461580 Score: 189
Period size: 52 Copynumber: 3.8 Consensus size: 50
4461379 ATATGTGCGC
* *
4461389 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAACATGAT-ACGTG-TT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTG--A-GTGATAATGTGATT
4461440 CCCGTATAAGACCATAGCTGGGCTATGGCATCGATGTGATGTGATAATGTGATT
1 -CCGTATAAGACCATAGCTGGGCTATGGCATCG--GTGA-GTGATAATGTGATT
** *
4461494 CCGTATAAGACCATATTTGGGATATGGCATCGGT-A-TGAT-ATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGATAATGTGATT
* * * * *
4461541 -CGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTGAT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGAT
4461581 GTGTGACAAT
Statistics
Matches: 120, Mismatches: 14, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
46 26 0.22
47 8 0.07
48 8 0.07
50 1 0.01
51 2 0.02
52 37 0.31
53 33 0.28
54 5 0.04
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGATAATGTGATT
Found at i:4468783 original size:42 final size:42
Alignment explanation
Indices: 4468722--4468834 Score: 172
Period size: 42 Copynumber: 2.7 Consensus size: 42
4468712 TCGTTTCCTC
** *
4468722 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
* * *
4468764 GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATT
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
4468806 GATGCCATAGCCCAACTATGGTCTTACAC
1 GATGCCATAGCCCAACTATGGTCTTACAC
4468835 GAATCACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (42 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATTCACATAAT
Found at i:4468908 original size:47 final size:46
Alignment explanation
Indices: 4468806--4468928 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 46
4468796 TTCATATATT
* * * * *
4468806 GATGCCATAGCCCA-ACTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGA-TATGGTCTTATACGAAGCACATATCACACC
* * *
4468852 GATGTCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACC
4468899 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
4468929 GAAATCACTT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 25 0.38
47 41 0.62
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACC
Found at i:4468988 original size:31 final size:31
Alignment explanation
Indices: 4468953--4469101 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
4468943 CTTGTCACTT
**
4468953 GTAGCCGAAGCTACCACTACTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4468984 GTAGCCGGAGCTACCACTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
4469015 GTAGCCGGAA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
* *
4469046 GTAGCAGAAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
4469077 GTAGCTGAAACTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4469102 TGTCATTTGT
Statistics
Matches: 105, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
30 3 0.03
31 100 0.95
32 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4469179 original size:50 final size:51
Alignment explanation
Indices: 4469077--4469205 Score: 190
Period size: 50 Copynumber: 2.5 Consensus size: 51
4469067 CACTGATCAG
* * * *
4469077 GTAGCTGAAACTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
4469128 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
4469178 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4469206 TGCCATGGTC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
50 45 0.63
51 26 0.37
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:4471918 original size:52 final size:52
Alignment explanation
Indices: 4471806--4471958 Score: 173
Period size: 52 Copynumber: 2.9 Consensus size: 52
4471796 TGATGTAAAA
** *
4471806 GATGTGATATGTGCGCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGC
1 GATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGATGC
* ** * * *
4471858 AACATGATACGTGTTCCCATATAAGACCATAGCTGGGCTATGGCATCGATGT
1 GATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGATGC
** *
4471910 GATGTGATAATGTGATT-CCGTATAAGACCATATTTGGGATATGGCATCG
1 GATGTGAT-ATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCG
4471959 GTATGATATG
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 48 0.59
53 32 0.39
54 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (52 bp):
GATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGATGC
Found at i:4471999 original size:46 final size:50
Alignment explanation
Indices: 4471822--4472013 Score: 180
Period size: 52 Copynumber: 3.8 Consensus size: 50
4471812 ATATGTGCGC
* *
4471822 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCAACATGAT-ACGTG-TT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTG--A-GTGATAATGTGATT
*
4471873 CCCATATAAGACCATAGCTGGGCTATGGCATCGATGTGATGTGATAATGTGATT
1 -CCGTATAAGACCATAGCTGGGCTATGGCATCG--GTGA-GTGATAATGTGATT
** *
4471927 CCGTATAAGACCATATTTGGGATATGGCATCGGT-A-TGAT-ATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGATAATGTGATT
* * * * *
4471974 -CGTGTAAGACCATGGCAGGGCTATGGCTTCGGTGTGTGAT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGAT
4472014 GTGTGACAAT
Statistics
Matches: 118, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
46 26 0.22
47 8 0.07
48 8 0.07
50 1 0.01
51 2 0.02
52 36 0.31
53 32 0.27
54 5 0.04
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTGAGTGATAATGTGATT
Found at i:4474621 original size:24 final size:24
Alignment explanation
Indices: 4474591--4474881 Score: 519
Period size: 24 Copynumber: 12.1 Consensus size: 24
4474581 GAATGTGACT
* *
4474591 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
4474615 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474639 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474663 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474687 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4474711 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4474735 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474759 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474783 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4474807 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4474831 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474855 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4474879 ATA
1 ATA
4474882 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:4482680 original size:24 final size:24
Alignment explanation
Indices: 4482650--4482940 Score: 510
Period size: 24 Copynumber: 12.1 Consensus size: 24
4482640 GAATGTGACT
* *
4482650 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
4482674 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482698 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482722 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482746 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4482770 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4482794 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4482818 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482842 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4482866 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
4482890 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482914 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
4482938 ATA
1 ATA
4482941 TGGTCTTTGC
Statistics
Matches: 261, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 261 1.00
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:4494658 original size:13 final size:14
Alignment explanation
Indices: 4494640--4494670 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
4494630 ATGTATGAAT
4494640 ATATACATATA-TA
1 ATATACATATATTA
4494653 ATATACATATATTA
1 ATATACATATATTA
4494667 ATAT
1 ATAT
4494671 TGATAATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:4495798 original size:23 final size:23
Alignment explanation
Indices: 4495740--4495810 Score: 101
Period size: 22 Copynumber: 3.2 Consensus size: 23
4495730 TACGAGGACT
* *
4495740 GTGGCGGTATGGGG-TTGTTGCA
1 GTGGGGGTATGGGGCTTGTTGTA
4495762 GTGGGGGTAT-GGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
*
4495784 GTGGGGGTATGGGGCTGGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
4495807 GTGG
1 GTGG
4495811 TTGCGGCACA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 3 0.07
22 26 0.59
23 15 0.34
ACGTcount: A:0.08, C:0.06, G:0.54, T:0.32
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:4497214 original size:14 final size:14
Alignment explanation
Indices: 4497195--4497222 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4497185 TCTTCGAATT
4497195 TTCAAATATTGAAC
1 TTCAAATATTGAAC
4497209 TTCAAATATTGAAC
1 TTCAAATATTGAAC
4497223 ATTGCCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTCAAATATTGAAC
Found at i:4497286 original size:40 final size:40
Alignment explanation
Indices: 4497231--4497311 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
4497221 ACATTGCCTT
4497231 ATTTGAAAATTTTTAAATAAACCATTGTAAACTAGCTCAA
1 ATTTGAAAATTTTTAAATAAACCATTGTAAACTAGCTCAA
4497271 ATTTGAAAATTTTTAAATAAACCATTGTAAACTAGCTCAA
1 ATTTGAAAATTTTTAAATAAACCATTGTAAACTAGCTCAA
4497311 A
1 A
4497312 ACGCTTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (40 bp):
ATTTGAAAATTTTTAAATAAACCATTGTAAACTAGCTCAA
Found at i:4497739 original size:8 final size:8
Alignment explanation
Indices: 4497726--4497757 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
4497716 ATATATAATA
4497726 GATGAATT
1 GATGAATT
4497734 GATGAATT
1 GATGAATT
4497742 GATGAATT
1 GATGAATT
4497750 GATGAATT
1 GATGAATT
4497758 TGAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.25, T:0.38
Consensus pattern (8 bp):
GATGAATT
Found at i:4498338 original size:18 final size:17
Alignment explanation
Indices: 4498311--4498344 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4498301 ATATGTATAA
*
4498311 AATAACATAAGATTAAT
1 AATAACATAAAATTAAT
4498328 AATATACATAAAATTAA
1 AATA-ACATAAAATTAA
4498345 ATTTATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (17 bp):
AATAACATAAAATTAAT
Found at i:4501590 original size:15 final size:13
Alignment explanation
Indices: 4501558--4501608 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 13
4501548 TTTTAAAAAT
4501558 TAAAAATAAT-TA
1 TAAAAATAATGTA
4501570 TAAAAATAATGGTA
1 TAAAAATAAT-GTA
4501584 TTAAAAAATAAATGATA
1 -T-AAAAAT-AATG-TA
4501601 TAAAAATA
1 TAAAAATA
4501609 TCCAATAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
12 10 0.30
14 3 0.09
15 7 0.21
16 8 0.24
17 5 0.15
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (13 bp):
TAAAAATAATGTA
Found at i:4505459 original size:35 final size:33
Alignment explanation
Indices: 4505422--4505515 Score: 129
Period size: 35 Copynumber: 2.8 Consensus size: 33
4505412 AGCCCCCCAA
4505422 AAAAACCTAACCCAAAAAAAAAAAAAAAAAAAG
1 AAAAACCTAACCCAAAAAAAAAAAAAAAAAAAG
* *
4505455 AAAAACGTAACCCCAAAAAAAAAAAGAAGAAAAAG
1 AAAAACCTAA-CCCAAAAAAAAAAA-AAAAAAAAG
*
4505490 AAAAACCTAA--CAAAAAAATAAAAAAA
1 AAAAACCTAACCCAAAAAAAAAAAAAAA
4505516 CCTAGCCACC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
31 3 0.06
32 11 0.20
33 9 0.17
34 14 0.26
35 17 0.31
ACGTcount: A:0.77, C:0.14, G:0.05, T:0.04
Consensus pattern (33 bp):
AAAAACCTAACCCAAAAAAAAAAAAAAAAAAAG
Found at i:4505748 original size:18 final size:17
Alignment explanation
Indices: 4505709--4505747 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
4505699 CCTAAAGGTG
*
4505709 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTTATT
4505726 ATTTTACTCTTATTT-TT
1 ATTTTA-TCTTATTTATT
4505743 ATTTT
1 ATTTT
4505748 TTATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (17 bp):
ATTTTATCTTATTTATT
Found at i:4506104 original size:2 final size:2
Alignment explanation
Indices: 4506097--4506121 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4506087 TATATTTAGC
4506097 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4506122 TTTCTTTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4512157 original size:15 final size:16
Alignment explanation
Indices: 4512126--4512159 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
4512116 ATGAGGTTTA
4512126 TTTATAAAATTAATAAT
1 TTTATAAAA-TAATAAT
4512143 TTTATAAAA-AATAAT
1 TTTATAAAATAATAAT
4512158 TT
1 TT
4512160 AAGAGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTATAAAATAATAAT
Found at i:4514997 original size:16 final size:16
Alignment explanation
Indices: 4514959--4514998 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
4514949 CCATATATTA
4514959 AAAAAAAATCTAAAAT
1 AAAAAAAATCTAAAAT
* * *
4514975 CATAAAAATTTAAAAT
1 AAAAAAAATCTAAAAT
4514991 AAAAAAAA
1 AAAAAAAA
4514999 ACACTAAAAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAAAAATCTAAAAT
Found at i:4515150 original size:19 final size:19
Alignment explanation
Indices: 4515128--4515173 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4515118 AAAAAGTTGT
4515128 AAAATATTATAA-AATTATC
1 AAAA-ATTATAATAATTATC
*
4515147 AAAAATTATAATAGTTATC
1 AAAAATTATAATAATTATC
*
4515166 AATAATTA
1 AAAAATTA
4515174 ATAAAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATTATAATAATTATC
Found at i:4516600 original size:39 final size:40
Alignment explanation
Indices: 4516526--4516615 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 40
4516516 TAAAAAATAT
**
4516526 TTATATTAAAAAACACTGCTATAAATATAATAAATATTTTA
1 TTATATTAAAAAACAC-GAAATAAATATAATAAATATTTTA
*
4516567 TTATATTAAAAAACAC-AAATAAATATGATAAATATTTTA
1 TTATATTAAAAAACACGAAATAAATATAATAAATATTTTA
*
4516606 TTATCTTAAA
1 TTATATTAAA
4516616 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 29 0.64
41 16 0.36
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.39
Consensus pattern (40 bp):
TTATATTAAAAAACACGAAATAAATATAATAAATATTTTA
Found at i:4516961 original size:18 final size:18
Alignment explanation
Indices: 4516913--4516965 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
4516903 GGAGTGTGGT
4516913 TTAATATGAATATATATAA
1 TTAATAT-AATATATATAA
*
4516932 TTATTATTTAATATATATAA
1 TTA--ATATAATATATATAA
4516952 TTAATATAATATAT
1 TTAATATAATATAT
4516966 TTTTATAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 10 0.33
19 3 0.10
20 14 0.47
21 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTAATATAATATATATAA
Found at i:4521379 original size:83 final size:84
Alignment explanation
Indices: 4521226--4521380 Score: 249
Period size: 83 Copynumber: 1.9 Consensus size: 84
4521216 ATCTCACTCA
* * *
4521226 CACACTTGACAATCACAGTCTTTTGTGCCTAAATATTCATTGATCAAATGGAGTCTTCTCCTCCT
1 CACACTTGACAATCACAGTCTTTTGTGCCTAAACATTCACTCATCAAATGGAGTCTTCTCCTCCT
4521291 TCATAGCAAATCTGACTTG
66 TCATAGCAAATCTGACTTG
* * *
4521310 CACACTTGACTATCCCAGTCTTTTGTGCC-AAACATTTACTCATCAAATGGAGTCTTCTCCTCCT
1 CACACTTGACAATCACAGTCTTTTGTGCCTAAACATTCACTCATCAAATGGAGTCTTCTCCTCCT
4521374 TCATAGC
66 TCATAGC
4521381 CTCGGTTGAC
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
83 38 0.58
84 27 0.42
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (84 bp):
CACACTTGACAATCACAGTCTTTTGTGCCTAAACATTCACTCATCAAATGGAGTCTTCTCCTCCT
TCATAGCAAATCTGACTTG
Found at i:4524145 original size:30 final size:30
Alignment explanation
Indices: 4524100--4524158 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4524090 CTTAACAAGT
4524100 AAATACCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* * *
4524130 AAATGCCTTTAAAATAATAGCAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
4524159 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:4525176 original size:16 final size:16
Alignment explanation
Indices: 4525155--4525187 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4525145 GACATATATT
4525155 TAATATTATTAAATAA
1 TAATATTATTAAATAA
*
4525171 TAATATTATTATATAA
1 TAATATTATTAAATAA
4525187 T
1 T
4525188 TATTATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATTATTAAATAA
Found at i:4533074 original size:3 final size:3
Alignment explanation
Indices: 4533066--4533114 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
4533056 ATGAATGATT
4533066 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4533114 T
1 T
4533115 AGAAATGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4533281 original size:21 final size:21
Alignment explanation
Indices: 4533256--4533308 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
4533246 AAATAATTTC
*
4533256 TATATTTTTTAAT-TTTTTAAT
1 TATATTTTTTAATAATTTT-AT
* *
4533277 TATATATATTAATAATTTTAT
1 TATATTTTTTAATAATTTTAT
4533298 TATAATTTTTT
1 TAT-ATTTTTT
4533309 TATCGAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TATATTTTTTAATAATTTTAT
Found at i:4533628 original size:3 final size:3
Alignment explanation
Indices: 4533620--4533657 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
4533610 CTCCATGAAC
4533620 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4533658 ATAAATAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4536204 original size:2 final size:2
Alignment explanation
Indices: 4536197--4536221 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4536187 TTGTTGAAAC
4536197 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4536222 TTGGAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4541601 original size:17 final size:16
Alignment explanation
Indices: 4541575--4541606 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
4541565 TAATAGAGTC
4541575 AAATTTTAAAAAATTA
1 AAATTTTAAAAAATTA
4541591 AAATGTTTAAAAAATT
1 AAAT-TTTAAAAAATT
4541607 CGTATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAATTTTAAAAAATTA
Found at i:4545749 original size:31 final size:31
Alignment explanation
Indices: 4545683--4545800 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
4545673 AGCAGCACTT
* * *
4545683 AACATTTCGCAGTTAAGTCAATAAACAGCAGC
1 AACATTTAGCATTTAAGTCAAT-AACAACAGC
4545715 AACATTTAGCATTTAAGTCAATAACAACAGC
1 AACATTTAGCATTTAAGTCAATAACAACAGC
4545746 AACATTTAGCATTTAAGTCAATAACAACAGC
1 AACATTTAGCATTTAAGTCAATAACAACAGC
*
4545777 AACATTCAGCATTTAAGTCAATAA
1 AACATTTAGCATTTAAGTCAATAA
4545801 GTTTTCCACC
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
31 62 0.76
32 20 0.24
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.25
Consensus pattern (31 bp):
AACATTTAGCATTTAAGTCAATAACAACAGC
Found at i:4549396 original size:25 final size:26
Alignment explanation
Indices: 4549358--4549420 Score: 67
Period size: 28 Copynumber: 2.4 Consensus size: 26
4549348 TGGTATTTAA
*
4549358 ATTTAACA-TTTTTT-CTTAATTTGAT
1 ATTTAA-ATTTTTTTACTCAATTTGAT
*
4549383 ATTTAAATTTTTTTTGACTCAATTTGGT
1 ATTTAAA-TTTTTTT-ACTCAATTTGAT
4549411 ATTTAAATTT
1 ATTTAAATTT
4549421 GACACTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 1 0.03
25 6 0.19
26 6 0.19
27 3 0.09
28 16 0.50
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (26 bp):
ATTTAAATTTTTTTACTCAATTTGAT
Found at i:4558028 original size:302 final size:302
Alignment explanation
Indices: 4557482--4558073 Score: 1123
Period size: 302 Copynumber: 2.0 Consensus size: 302
4557472 TGGACCTCTA
* *
4557482 AGTAGGATTCGAACCTAGATGAAGTTCTAACCATCTATCAGAGAAAAAAGAATAAATGGATCTTG
1 AGTAGGATTCGAACCTAGATGAAGTTCTAACCATCTATCAGAGAAAAAAGAACAAATGGATCTTA
*
4557547 TAAGATTCCTAAGAAATTCGATTTCTTTTGGAAGCAAATGATTATTCATCTGCTTCTCACGTTCC
66 TAAGATTCCTAAGAAATTCGATTTCTTTTGGAAGCAAATGATTATTCATCTACTTCTCACGTTCC
*
4557612 ATGAACAGCCGGGACATTGAGGAATATCCAGAAAGGCACTTAGGGAATCGATCTGATTCTATCTC
131 ATGAACAGCCGGGACATTGAGCAATATCCAGAAAGGCACTTAGGGAATCGATCTGATTCTATCTC
4557677 GGTTCGTTCCGTTTGAAGAAAGGAAAGATCCCAAAGAATCGATCTTTCTTTTAGTTGTTGTGTAA
196 GGTTCGTTCCGTTTGAAGAAAGGAAAGATCCCAAAGAATCGATCTTTCTTTTAGTTGTTGTGTAA
4557742 TGACCCAAAGTTTATGAGTATCGGAAAAGTTCTAACCATCTC
261 TGACCCAAAGTTTATGAGTATCGGAAAAGTTCTAACCATCTC
4557784 AGTAGGATTCGAACCTAGATGAAGTTCTAACCATCTATCAGAGAAAAAAGAACAAATGGATCTTA
1 AGTAGGATTCGAACCTAGATGAAGTTCTAACCATCTATCAGAGAAAAAAGAACAAATGGATCTTA
4557849 TAAGATTCCTAAGAAATTCGATTTCTTTTGGAAGCAAATGATTATTCAT-TCACTTCTCACGTTC
66 TAAGATTCCTAAGAAATTCGATTTCTTTTGGAAGCAAATGATTATTCATCT-ACTTCTCACGTTC
*
4557913 CATGAACAGCCGGGACATTGAGCAATATCTAGAAAGGCACTTAGGGAATCGATCTGATTCTATCT
130 CATGAACAGCCGGGACATTGAGCAATATCCAGAAAGGCACTTAGGGAATCGATCTGATTCTATCT
4557978 CGGTTCGTTCCGTTTGAAGAAAGGAAAGATCCCAAAGAATCGATCTTTCTTTTAGTTGTTGTGTA
195 CGGTTCGTTCCGTTTGAAGAAAGGAAAGATCCCAAAGAATCGATCTTTCTTTTAGTTGTTGTGTA
4558043 ATGACCCAAAGTTTATGAGTATCGGAAAAGT
260 ATGACCCAAAGTTTATGAGTATCGGAAAAGT
4558074 GTATTTCCGG
Statistics
Matches: 284, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
301 1 0.00
302 283 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (302 bp):
AGTAGGATTCGAACCTAGATGAAGTTCTAACCATCTATCAGAGAAAAAAGAACAAATGGATCTTA
TAAGATTCCTAAGAAATTCGATTTCTTTTGGAAGCAAATGATTATTCATCTACTTCTCACGTTCC
ATGAACAGCCGGGACATTGAGCAATATCCAGAAAGGCACTTAGGGAATCGATCTGATTCTATCTC
GGTTCGTTCCGTTTGAAGAAAGGAAAGATCCCAAAGAATCGATCTTTCTTTTAGTTGTTGTGTAA
TGACCCAAAGTTTATGAGTATCGGAAAAGTTCTAACCATCTC
Found at i:4558400 original size:16 final size:15
Alignment explanation
Indices: 4558381--4558428 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
4558371 TATGTATAAG
4558381 ATATTTAATATATATA
1 ATATTTAATATA-ATA
*
4558397 ATATGTTATTATAATA
1 ATAT-TTAATATAATA
*
4558413 ATAATATAATATAATA
1 AT-ATTTAATATAATA
4558429 GTCAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATATTTAATATAATA
Found at i:4558463 original size:17 final size:18
Alignment explanation
Indices: 4558431--4558465 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4558421 ATATAATAGT
4558431 CAAAATAAATAAAAGAAA
1 CAAAATAAATAAAAGAAA
*
4558449 CAAAATAGA-AAAAGAAA
1 CAAAATAAATAAAAGAAA
4558466 GAACAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (18 bp):
CAAAATAAATAAAAGAAA
Found at i:4558480 original size:21 final size:19
Alignment explanation
Indices: 4558455--4558508 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
4558445 GAAACAAAAT
4558455 AGAAAAAGAAAGAACAGAGAA
1 AGAAAAAGAAAGAA-AG-GAA
* *
4558476 TGAAAATGAAATAGAAAGGAA
1 AGAAAAAG-AA-AGAAAGGAA
4558497 AGAAAAAGAAAG
1 AGAAAAAGAAAG
4558509 GAAAAAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 15 0.56
22 4 0.15
23 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.24, T:0.06
Consensus pattern (19 bp):
AGAAAAAGAAAGAAAGGAA
Found at i:4558506 original size:15 final size:15
Alignment explanation
Indices: 4558483--4558512 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4558473 GAATGAAAAT
*
4558483 GAAATAGAAAGGAAA
1 GAAAAAGAAAGGAAA
4558498 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
4558513 AAATAGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:4558507 original size:27 final size:28
Alignment explanation
Indices: 4558450--4558507 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
4558440 TAAAAGAAAC
* *
4558450 AAAATAGAAAAAGAAAGAACAGAGAATG
1 AAAATAGAAAAAGAAAGAACAGAAAAAG
*
4558478 AAAAT-GAAATAGAAAGGAA-AGAAAAAG
1 AAAATAGAAAAAGAAA-GAACAGAAAAAG
4558505 AAA
1 AAA
4558508 GGAAAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 18 0.69
28 8 0.31
ACGTcount: A:0.71, C:0.02, G:0.21, T:0.07
Consensus pattern (28 bp):
AAAATAGAAAAAGAAAGAACAGAAAAAG
Found at i:4559393 original size:6 final size:6
Alignment explanation
Indices: 4559363--4559411 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
4559353 GTGTACCGAA
* * * * *
4559363 ACTGCT ACTGTC ACTGTT ACCGTT ATTGTT ACTGTT ACTGTT AATGTT
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT
4559411 A
1 A
4559412 TGGTATTCTG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.45
Consensus pattern (6 bp):
ACTGTT
Found at i:4568989 original size:20 final size:20
Alignment explanation
Indices: 4568960--4569004 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
4568950 ATATAATTAG
4568960 AATTAAAATTTTACGTATAT
1 AATTAAAATTTTACGTATAT
*
4568980 AATTAGAATTTTACGTATAT
1 AATTAAAATTTTACGTATAT
4569000 AATTA
1 AATTA
4569005 TATTAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (20 bp):
AATTAAAATTTTACGTATAT
Found at i:4569176 original size:41 final size:42
Alignment explanation
Indices: 4569116--4569196 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 42
4569106 TATTTTAAAA
* *
4569116 ATTTCTATTATTTCATTTTATTTTATTTTCCC-TTCATTTCT
1 ATTTCTATTATTTCATTTTATCTCATTTTCCCTTTCATTTCT
* * *
4569157 ATTTCTATTTTTTCTTTTTATCTCCTTTTCCCTTTCATTT
1 ATTTCTATTATTTCATTTTATCTCATTTTCCCTTTCATTT
4569197 TCTTTGTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
41 27 0.79
42 7 0.21
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.67
Consensus pattern (42 bp):
ATTTCTATTATTTCATTTTATCTCATTTTCCCTTTCATTTCT
Found at i:4574174 original size:2 final size:2
Alignment explanation
Indices: 4574161--4574194 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4574151 ATTGAAAGGG
*
4574161 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4574195 GTATTAAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:4577136 original size:21 final size:21
Alignment explanation
Indices: 4577110--4577150 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4577100 ATCTGCTCAA
* *
4577110 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
4577131 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
4577151 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:4580457 original size:19 final size:19
Alignment explanation
Indices: 4580430--4580466 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4580420 TATAATCCTA
*
4580430 ATATTGAAGATAAAAAAGT
1 ATATGGAAGATAAAAAAGT
4580449 ATATGGAAGATAAAAAAG
1 ATATGGAAGATAAAAAAG
4580467 AAGTTTGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (19 bp):
ATATGGAAGATAAAAAAGT
Found at i:4587846 original size:31 final size:32
Alignment explanation
Indices: 4587804--4587867 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
4587794 AGTCCCTATG
* *
4587804 TTTTGATTTGATTAAATTTAGTC-CTTATCTT
1 TTTTGAATTGATCAAATTTAGTCTCTTATCTT
* *
4587835 TTTTGAATTGATCAATTTTAGTCTCTTTTCTT
1 TTTTGAATTGATCAAATTTAGTCTCTTATCTT
4587867 T
1 T
4587868 AAAAATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.20, C:0.11, G:0.09, T:0.59
Consensus pattern (32 bp):
TTTTGAATTGATCAAATTTAGTCTCTTATCTT
Found at i:4589746 original size:19 final size:19
Alignment explanation
Indices: 4589722--4589760 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
4589712 AAATGGAGTT
4589722 GTGGTTAAAAGTCTAACTA
1 GTGGTTAAAAGTCTAACTA
4589741 GTGGTTAAAAGTCTAACTA
1 GTGGTTAAAAGTCTAACTA
4589760 G
1 G
4589761 ACACCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (19 bp):
GTGGTTAAAAGTCTAACTA
Found at i:4592272 original size:37 final size:37
Alignment explanation
Indices: 4592222--4592292 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
4592212 TACAACCTTC
4592222 TCATATTCAATAACATGGTTGTTTATGGAAAATTTTT
1 TCATATTCAATAACATGGTTGTTTATGGAAAATTTTT
4592259 TCATATTCAATAACATGGTTGTTTATGGAAAATT
1 TCATATTCAATAACATGGTTGTTTATGGAAAATT
4592293 GGAAGCCAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (37 bp):
TCATATTCAATAACATGGTTGTTTATGGAAAATTTTT
Found at i:4594857 original size:22 final size:20
Alignment explanation
Indices: 4594829--4594871 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
4594819 TATTGTTTAA
*
4594829 AATATTTATATTATATTATTTT
1 AATATTTA-ATAATATT-TTTT
4594851 AATATTTAATAATATTTTTT
1 AATATTTAATAATATTTTTT
4594871 A
1 A
4594872 TTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
AATATTTAATAATATTTTTT
Found at i:4594882 original size:6 final size:7
Alignment explanation
Indices: 4594863--4594888 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4594853 TATTTAATAA
4594863 TATTTTT
1 TATTTTT
4594870 TATTTTT
1 TATTTTT
4594877 TATTTTT
1 TATTTTT
4594884 TATTT
1 TATTT
4594889 ATTGAAATAT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:4595363 original size:2 final size:2
Alignment explanation
Indices: 4595356--4595387 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4595346 ACAAAAACAC
4595356 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4595388 CCAAAAACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4596788 original size:27 final size:28
Alignment explanation
Indices: 4596758--4596818 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 28
4596748 TTATTTTTAA
4596758 ATTTTTTAAAAATATTT-AT-ATTATAT-T
1 ATTTTTT--AAATATTTAATAATTATATAT
4596785 A-TTTTT-AATATTTAATAATTATATAT
1 ATTTTTTAAATATTTAATAATTATATAT
4596811 ATTTTTTA
1 ATTTTTTA
4596819 TTTACTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 7 0.24
24 2 0.07
25 7 0.24
26 7 0.24
27 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
ATTTTTTAAATATTTAATAATTATATAT
Found at i:4601233 original size:5 final size:5
Alignment explanation
Indices: 4601225--4601251 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
4601215 TTTTCTTAAG
4601225 CTTTT CTTTT CTTTT CTTTT CTTTT CT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CT
4601252 ACCAATCAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (5 bp):
CTTTT
Found at i:4603963 original size:2 final size:2
Alignment explanation
Indices: 4603956--4603988 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4603946 GCAACAGCAC
4603956 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4603989 TTCAGTTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4608626 original size:42 final size:42
Alignment explanation
Indices: 4608563--4608689 Score: 170
Period size: 42 Copynumber: 3.0 Consensus size: 42
4608553 CTTCGTTTTC
** * *
4608563 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
4608606 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
4608647 TCGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
4608688 TC
1 TC
4608690 TCACTGATGT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 10 0.13
42 64 0.84
43 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:4608735 original size:88 final size:90
Alignment explanation
Indices: 4608606--4608773 Score: 200
Period size: 88 Copynumber: 1.9 Consensus size: 90
4608596 CTTCACATAA
* *
4608606 TGATGCCATAGCCCAGCTATGGTCTTACACATATTCATATAT-C-GATGCCATAGCCCAGCTATG
1 TGATGCCATAGCCCAGCTATGGTCTTACACATATGCATATATACTGATGCCATAGCCCAGATATG
4608669 GTCTTACACGAATCACATATCTCAC
66 GTCTTACACGAATCACATATCTCAC
* * * *
4608694 TGATGTCATATCCCAGAC-ATGGTCTTATACAGTA-GCATATATCACACTGATGCCATATCCCAG
1 TGATGCCATAGCCCAG-CTATGGTCTTACACA-TATGCATATAT---ACTGATGCCATAGCCCAG
*
4608757 ATATGGTCTTATACGAA
61 ATATGGTCTTACACGAA
4608774 AATCACTTGT
Statistics
Matches: 66, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
88 33 0.50
89 3 0.05
92 1 0.02
93 29 0.44
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (90 bp):
TGATGCCATAGCCCAGCTATGGTCTTACACATATGCATATATACTGATGCCATAGCCCAGATATG
GTCTTACACGAATCACATATCTCAC
Found at i:4608751 original size:47 final size:46
Alignment explanation
Indices: 4608649--4608773 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 46
4608639 TTCATATATC
* * * *
4608649 GATGCCATAGCCCAG-CTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGAC-ATGGTCTTATACGAAGCACATATCACACT
* * *
4608695 GATGTCATATCCCAGACATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATATCCCAGACATGGTCTTATAC-GAAGCACATATCACACT
*
4608742 GATGCCATATCCCAGATATGGTCTTATACGAA
1 GATGCCATATCCCAGACATGGTCTTATACGAA
4608774 AATCACTTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGACATGGTCTTATACGAAGCACATATCACACT
Found at i:4608831 original size:31 final size:31
Alignment explanation
Indices: 4608796--4608944 Score: 226
Period size: 31 Copynumber: 4.8 Consensus size: 31
4608786 CTTGTCACTT
*
4608796 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
4608827 GTAGCTGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4608858 GTAGCCGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4608889 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
**
4608920 GTAGTTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4608945 TGTCATTGAT
Statistics
Matches: 106, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4608989 original size:44 final size:45
Alignment explanation
Indices: 4608926--4609041 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 45
4608916 TCAGGTAGTT
* *
4608926 GAAGCTACCACTTTTCACTTGTCA-TTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGTGTAGCC
4608970 GAAGCTATCACTTATCACTT-TCACTTTTCCTTGATCAGATAAGTGTAGCC
1 GAAGCTATCACTTATCACTTGTCA----T--TTGATCAGATAAGTGTAGCC
*
4609020 GAAGCTATCACTTATCAATTGT
1 GAAGCTATCACTTATCACTTGT
4609042 TGCCATGGTC
Statistics
Matches: 61, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
43 3 0.05
44 18 0.30
50 39 0.64
51 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (45 bp):
GAAGCTATCACTTATCACTTGTCATTTGATCAGATAAGTGTAGCC
Found at i:4609010 original size:50 final size:50
Alignment explanation
Indices: 4608938--4609036 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
4608928 AGCTACCACT
4608938 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
1 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
* *
4608988 TTTCACTTTTCCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCA
1 TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCA
4609037 ATTGTTGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (50 bp):
TTTCACTTGTCATTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC
Found at i:4613591 original size:22 final size:22
Alignment explanation
Indices: 4613550--4613608 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
4613540 TTATTAGAAT
* * *
4613550 ATTAGTGCACTCTATTTAGCAC
1 ATTAGTGCTCTCTGTATAGCAC
* *
4613572 ATTCGTGCTTTCTGTATAGCAC
1 ATTAGTGCTCTCTGTATAGCAC
*
4613594 TTTAGTGCTCTCTGT
1 ATTAGTGCTCTCTGT
4613609 TCATTAATGC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (22 bp):
ATTAGTGCTCTCTGTATAGCAC
Found at i:4615772 original size:18 final size:19
Alignment explanation
Indices: 4615722--4615772 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
4615712 TAAATAAAAG
*
4615722 TACTGAATGACTGA-CTGT
1 TACTGAATAACTGATCTGT
* *
4615740 TACTGAAAAATTGATC-GT
1 TACTGAATAACTGATCTGT
4615758 TACTGAATAACTGAT
1 TACTGAATAACTGAT
4615773 TGCTATTGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (19 bp):
TACTGAATAACTGATCTGT
Found at i:4619104 original size:35 final size:35
Alignment explanation
Indices: 4619054--4619354 Score: 227
Period size: 35 Copynumber: 8.7 Consensus size: 35
4619044 TTCCTCATTG
4619054 AAATACCATACCTACTTTTCACAACTCGGTATGGA
1 AAATACCATACCTACTTTTCACAACTCGGTATGGA
* ** *
4619089 AAACACCATACCTACTTTTCA-TGCTAGGTATGGA
1 AAATACCATACCTACTTTTCACAACTCGGTATGGA
* *
4619123 AAATACCATACCTA-TATTTCATAACTCAGTATGGA
1 AAATACCATACCTACT-TTTCACAACTCGGTATGGA
** * * * * * *
4619158 CGATGCCATACCTACGTATCATAGCTCAGTATGGA
1 AAATACCATACCTACTTTTCACAACTCGGTATGGA
** ** * * *
4619193 CGACGCGATACCTA-TGTTTCATAGCTCGGTATGG-
1 AAATACCATACCTACT-TTTCACAACTCGGTATGGA
* * *
4619227 AAATACCATACCTA-TGTTTCACAGCTCAGTATGGT
1 AAATACCATACCTACT-TTTCACAACTCGGTATGGA
* * *
4619262 TAATACCATACC-AATGTTTCACAACTCGGTATGGT
1 AAATACCATACCTACT-TTTCACAACTCGGTATGGA
* * *
4619297 TAATACCATACCTACGTTTCACAACTTGGTATGGA
1 AAATACCATACCTACTTTTCACAACTCGGTATGGA
** *
4619332 TGATACCATACCTACGTTTCACA
1 AAATACCATACCTACTTTTCACA
4619355 CTTTGCCATG
Statistics
Matches: 224, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
33 1 0.00
34 56 0.25
35 166 0.74
36 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (35 bp):
AAATACCATACCTACTTTTCACAACTCGGTATGGA
Found at i:4619271 original size:104 final size:104
Alignment explanation
Indices: 4619055--4619354 Score: 271
Period size: 104 Copynumber: 2.9 Consensus size: 104
4619045 TCCTCATTGA
* * *
4619055 AATACCATACCTACTTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCATGCTAGGTAT
1 AATACCATACCTACGTATCACAACTCAGTATGGAAAACACCATACCTACTTTTCATGCTAGGTAT
*
4619120 GGAAAATACCATACCTATATTTCATAACTCAGTATGGAC
66 GGAAAATACCATACCTATATTTCACAACTCAGTATGGAC
* * * * ** * * *
4619159 GATGCCATACCTACGTATCATAGCTCAGTATGGACGACGCGATACCTA-TGTTTCATAGCTCGGT
1 AATACCATACCTACGTATCACAACTCAGTATGGAAAACACCATACCTACT-TTTCAT-GCTAGGT
* * **
4619223 ATGG-AAATACCATACCTATGTTTCACAGCTCAGTATGGTT
64 ATGGAAAATACCATACCTATATTTCACAACTCAGTATGGAC
* * * * ** * * ** *
4619263 AATACCATACCAATGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCACAACTTGGTA
1 AATACCATACCTACGTATCACAACTCAGTATGGAAAACACCATACCTACTTTTCA-TGCTAGGTA
** **
4619328 TGGATGATACCATACCTACGTTTCACA
65 TGGAAAATACCATACCTATATTTCACA
4619355 CTTTGCCATG
Statistics
Matches: 153, Mismatches: 38, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
103 1 0.01
104 122 0.80
105 30 0.20
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (104 bp):
AATACCATACCTACGTATCACAACTCAGTATGGAAAACACCATACCTACTTTTCATGCTAGGTAT
GGAAAATACCATACCTATATTTCACAACTCAGTATGGAC
Found at i:4619329 original size:139 final size:139
Alignment explanation
Indices: 4619061--4619354 Score: 308
Period size: 139 Copynumber: 2.1 Consensus size: 139
4619051 TTGAAATACC
*
4619061 ATACCTACTTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCATGCTAGGTATGGAAAA
1 ATACCTACTTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCAAGCTAGGTATGGAAAA
* * * * * *
4619126 TACCATACCTATATTTCATAACTCAGTATGGACGATGCCATACCTACGTATCATAGCTCAGTATG
66 TACCATACCAATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAGTATG
4619191 GACGACGCG
131 GACGACGCG
* * *
4619200 ATACCTA-TGTTTCATAGCTCGGTATGG-AAATACCATACCTA-TGTTTCACAGCTCA-GTATGG
1 ATACCTACT-TTTCACAACTCGGTATGGAAAACACCATACCTACT-TTTCA-AGCT-AGGTATGG
** * * ** * **
4619261 TTAATACCATACCAATGTTTCACAACTCGGTATGGTTAATACCATACCTACGTTTCACAACTTGG
62 AAAATACCATACCAATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAG
* ** *
4619326 TATGGATGATACC
127 TATGGACGACGCG
*
4619339 ATACCTACGTTTCACA
1 ATACCTACTTTTCACA
4619355 CTTTGCCATG
Statistics
Matches: 125, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
137 1 0.01
138 19 0.15
139 104 0.83
140 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (139 bp):
ATACCTACTTTTCACAACTCGGTATGGAAAACACCATACCTACTTTTCAAGCTAGGTATGGAAAA
TACCATACCAATATTTCACAACTCAGTATGGACAATACCATACCTACGTATCACAACTCAGTATG
GACGACGCG
Found at i:4623865 original size:23 final size:25
Alignment explanation
Indices: 4623839--4623885 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4623829 TATCAGTCAT
*
4623839 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
4623862 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
4623886 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:4624210 original size:46 final size:46
Alignment explanation
Indices: 4624194--4624411 Score: 308
Period size: 46 Copynumber: 4.9 Consensus size: 46
4624184 TGTCATGTTA
* ** * * * *
4624194 CCATGGTATTTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
4624240 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
4624286 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
4624332 CCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTG
1 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
*
4624370 CCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
4624412 AGAGTCTTAC
Statistics
Matches: 157, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
38 33 0.21
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 1 0.01
46 114 0.73
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (46 bp):
CCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTG
Found at i:4624256 original size:92 final size:92
Alignment explanation
Indices: 4624146--4624410 Score: 296
Period size: 92 Copynumber: 3.0 Consensus size: 92
4624136 TTTGACGTGA
* * * ** * * * *
4624146 TGCCATAGTGTCTTTCAACTATGGTCTTACTTATTTTC-TGTCATGTTACCATGGTATTTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGTTACCATGGTATCTTTCAA
** * * *
4624210 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTACACATCTCATATCACGT
*
4624238 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTATCTTTCAAC
*
4624303 CATGGTCTTACACATCTCATATCAGGT
66 CATGGTCTTACACATCTCATATCACGT
*
4624330 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTATCTTTCAAC
*
4624387 CATGGTCTTACACATTTCATATCA
66 CATGGTCTTACACATCTCATATCA
4624411 GAGAGTCTTA
Statistics
Matches: 155, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
84 47 0.30
85 1 0.01
87 1 0.01
90 3 0.02
91 3 0.02
92 100 0.65
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (92 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTACCATGGTATCTTTCAAC
CATGGTCTTACACATCTCATATCACGT
Found at i:4624376 original size:38 final size:38
Alignment explanation
Indices: 4624325--4624400 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4624315 CATCTCATAT
4624325 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4624363 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4624401 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:4624450 original size:62 final size:62
Alignment explanation
Indices: 4624353--4624477 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
4624343 TTCAACCATG
4624353 GTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAGA
1 GTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAGA
4624415 GTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAGA
1 GTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAGA
4624477 G
1 G
4624478 CACACTCCCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (62 bp):
GTCTTACACACAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGAGA
Found at i:4624781 original size:61 final size:62
Alignment explanation
Indices: 4624672--4624810 Score: 208
Period size: 61 Copynumber: 2.3 Consensus size: 62
4624662 ACCCGTCTGC
* * * *
4624672 GCTAAATCCATTTTACACGTATTCTTTGAGAGGGCTATATCAGAATAGGATCACCCATCCGG
1 GCTAGATCCTTTTTACACATATTCTTCGAGAGGGCTATATCAGAATAGGATCACCCATCCGG
* * *
4624734 GCTAGATCCTTTTTACACATATTC-TCGGGAGGGCTATATCAGGATAGGATCACCCATCCGT
1 GCTAGATCCTTTTTACACATATTCTTCGAGAGGGCTATATCAGAATAGGATCACCCATCCGG
4624795 GCTAGATCCTTTTTAC
1 GCTAGATCCTTTTTAC
4624811 CGTCAATTCC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
61 49 0.70
62 21 0.30
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (62 bp):
GCTAGATCCTTTTTACACATATTCTTCGAGAGGGCTATATCAGAATAGGATCACCCATCCGG
Found at i:4629448 original size:53 final size:53
Alignment explanation
Indices: 4629381--4629485 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 53
4629371 ACCCCAAGTA
* *
4629381 ATCCGCATCTCTGAAAGACGATGGGATTACTATGAACCAGTAGAAAAGAAGCC
1 ATCCGCATCCCTGAAAGACCATGGGATTACTATGAACCAGTAGAAAAGAAGCC
*
4629434 ATCCGCATCCCTGAAAGACCATGGGATTACTATGAACCAGTGGAAAAGAAGC
1 ATCCGCATCCCTGAAAGACCATGGGATTACTATGAACCAGTAGAAAAGAAGC
4629486 AGAGGAAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (53 bp):
ATCCGCATCCCTGAAAGACCATGGGATTACTATGAACCAGTAGAAAAGAAGCC
Found at i:4630620 original size:11 final size:10
Alignment explanation
Indices: 4630605--4630652 Score: 57
Period size: 11 Copynumber: 4.9 Consensus size: 10
4630595 CTCCTCTTAT
4630605 TTTTCTTCTC
1 TTTTCTTCTC
4630615 TGTTTCTTCTC
1 T-TTTCTTCTC
4630626 TTATTCTTCT-
1 TT-TTCTTCTC
4630636 TTTTC-TCT-
1 TTTTCTTCTC
4630644 TTTTCTTCT
1 TTTTCTTCT
4630653 ACTGCCCAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.23
9 6 0.17
10 4 0.11
11 17 0.49
ACGTcount: A:0.02, C:0.25, G:0.02, T:0.71
Consensus pattern (10 bp):
TTTTCTTCTC
Found at i:4630649 original size:25 final size:25
Alignment explanation
Indices: 4630575--4630649 Score: 63
Period size: 25 Copynumber: 3.2 Consensus size: 25
4630565 TCCTTCCATT
4630575 TTCTCTTAATTCTTCTTCTC-C--TC
1 TTCTCTT-ATTCTTCTTCTCTCTTTC
* *
4630598 --CTCTTATTTTTCTTCTCTGTTTC
1 TTCTCTTATTCTTCTTCTCTCTTTC
*
4630621 TTCTCTTATTCTTCTTTTTCTCTTT-
1 TTCTCTTATTCTTC-TTCTCTCTTTC
4630646 TTCT
1 TTCT
4630650 TCTACTGCCC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
20 11 0.27
21 5 0.12
23 2 0.05
25 15 0.37
26 8 0.20
ACGTcount: A:0.05, C:0.28, G:0.01, T:0.65
Consensus pattern (25 bp):
TTCTCTTATTCTTCTTCTCTCTTTC
Found at i:4631685 original size:53 final size:53
Alignment explanation
Indices: 4631618--4631723 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
4631608 ACCCATAAAA
4631618 ACTTTACCCTTTTTTTAATGGCCCAATGACTTAAATGAAAACTTTTGAATGAT
1 ACTTTACCCTTTTTTTAATGGCCCAATGACTTAAATGAAAACTTTTGAATGAT
*
4631671 ACTTTACCCTTTTTTTAATGGCTCAATGACTTAAATGAAAACTTTTGAATGAT
1 ACTTTACCCTTTTTTTAATGGCCCAATGACTTAAATGAAAACTTTTGAATGAT
4631724 TACGTAACCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (53 bp):
ACTTTACCCTTTTTTTAATGGCCCAATGACTTAAATGAAAACTTTTGAATGAT
Found at i:4657033 original size:44 final size:44
Alignment explanation
Indices: 4656949--4657033 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
4656939 ATTGCCATGC
** *
4656949 CAAACTATCCTGCCAAAATTTGATTAAATATTAAATTAAGATGT
1 CAAACTATCCTGCCAAAATTTGATTAAATACAAAAATAAGATGT
* *
4656993 CAAACTATCTTGCCAAAATTTGATTAAATGCAAAAATAAGA
1 CAAACTATCCTGCCAAAATTTGATTAAATACAAAAATAAGA
4657034 AGACATTTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (44 bp):
CAAACTATCCTGCCAAAATTTGATTAAATACAAAAATAAGATGT
Found at i:4658797 original size:29 final size:31
Alignment explanation
Indices: 4658747--4658808 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
4658737 AGTCTATATA
*
4658747 TTTATAATTTTTAAAGGACTAAA-TTAAATT
1 TTTATAATTTTTAAAGGACTAAAGTGAAATT
** *
4658777 TTTATAA-TTTTAGGGGGCTAAAGTGAAATT
1 TTTATAATTTTTAAAGGACTAAAGTGAAATT
4658807 TT
1 TT
4658809 ACCCTTACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (31 bp):
TTTATAATTTTTAAAGGACTAAAGTGAAATT
Found at i:4662986 original size:17 final size:17
Alignment explanation
Indices: 4662966--4663020 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4662956 TATAATAAAA
*
4662966 ATAAAAATATACATAAT
1 ATAAAAATATAAATAAT
*
4662983 ATAAGAATATAGAAGT-AT
1 ATAAAAATATA-AA-TAAT
*
4663001 -TAAAAATATAAATAAA
1 ATAAAAATATAAATAAT
4663017 ATAA
1 ATAA
4663021 TGAAGAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 22 0.73
18 3 0.10
19 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAAAAATATAAATAAT
Found at i:4663495 original size:14 final size:15
Alignment explanation
Indices: 4663473--4663511 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
4663463 ATACTTCATA
*
4663473 AATATATATACATACT
1 AATA-ATATACATAAT
4663489 AA-AATATACATAAT
1 AATAATATACATAAT
4663503 AATAATATA
1 AATAATATA
4663512 TGCATACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 7 0.33
16 2 0.10
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATATACATAAT
Found at i:4663579 original size:16 final size:18
Alignment explanation
Indices: 4663539--4663585 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4663529 AATATTTAAA
* *
4663539 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
4663557 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
4663574 AA-ATTAATATTA
1 AATATTAATATTA
4663586 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:4665667 original size:18 final size:17
Alignment explanation
Indices: 4665644--4665679 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
4665634 TTAATTTTTG
4665644 AAAAATACAAATTGGAAA
1 AAAAATACAAATT-GAAA
*
4665662 AAAAATAGAAATTGAAA
1 AAAAATACAAATTGAAA
4665679 A
1 A
4665680 CTCCTCAGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (17 bp):
AAAAATACAAATTGAAA
Found at i:4665716 original size:175 final size:166
Alignment explanation
Indices: 4665487--4665808 Score: 391
Period size: 175 Copynumber: 1.9 Consensus size: 166
4665477 AACAGACATT
* * * *
4665487 AAAAATAGAAATTGAAAATAGCTCAGCACGTGAGCCAAAGCTTAACTCACTTCTCGCAGTATGAG
1 AAAAATAGAAATTGAAAATACCTCAGCACGTGAGCCAAAGCTCAACTCACTTCTCACAATATGAG
*
4665552 TTGGTTTTTTGAAACTTAAA-AGTAAATTTTGAAAATACCTC-GTCATGTGACCCGAGGCTCAAC
66 TT-GATTTTTG--AC--AAACAGT-AA--TTGAAAATACCTCAG-C--GTGACCCGAGGCTCAAC
4665615 TCACCTCTT-ACAATATGAGTTAATTTTTGAAAAATACAAATTGGAAA
120 TCACCTCTTGA-AATATGAGTTAATTTTTGAAAAATACAAATTGGAAA
* * * * *
4665662 AAAAATAGAAATTGAAAACT-CCTCAGCATGTGAGTCGAGGCTCAACTTACTTCTCACAATATGA
1 AAAAATAGAAATTGAAAA-TACCTCAGCACGTGAGCCAAAGCTCAACTCACTTCTCACAATATGA
*
4665726 GTTGATTTTTGACAAACAGTAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTG
65 GTTGATTTTTGACAAACAGTAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTTG
*
4665791 AAATATGAGTTGATTTTT
130 AAATATGAGTTAATTTTT
4665809 TTGAAACATA
Statistics
Matches: 131, Mismatches: 12, Indels: 17
0.82 0.08 0.11
Matches are distributed among these distances:
166 41 0.31
167 1 0.01
168 14 0.11
169 1 0.01
170 5 0.04
171 3 0.02
172 2 0.02
174 7 0.05
175 56 0.43
176 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (166 bp):
AAAAATAGAAATTGAAAATACCTCAGCACGTGAGCCAAAGCTCAACTCACTTCTCACAATATGAG
TTGATTTTTGACAAACAGTAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTTGA
AATATGAGTTAATTTTTGAAAAATACAAATTGGAAA
Found at i:4665796 original size:73 final size:73
Alignment explanation
Indices: 4665697--4666039 Score: 258
Period size: 73 Copynumber: 4.5 Consensus size: 73
4665687 GCATGTGAGT
* * * *
4665697 CGAGGCTCAACTTACTTC-TCACAATATGAGTTGATTTTTGACAAACAGT-AATTGAAAATACCT
1 CGAGGCTCAACTCACCTCTTGA-AATATGAGTTGATTTTTGAAAAACA-TAAATTGAAAATACCT
*
4665760 CAGCGTGCCC
64 CAGCATGCCC
***
4665770 CGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAACATAAATTGAAAATACCTCA
*
4665835 GCATGTCC
66 GCATGCCC
* * * * *
4665843 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTAAAAAACACAA
1 CGAGGCTCAACTCACCTCTTGAAATATGAGTTGA-TTTTTGAAAAACATAAATT------GA-AA
*
4665908 ACTAAGCATACCTCAGCGTGCCC
58 A-T-A-C----CTCAGCATGCCC
* ** * ** * *
4665931 TGAGGCTCAACTCATTTCTCGCTATATGAGTCGATTTTTGAAAAACAAAAATTGAAAATACCTCA
1 CGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAACATAAATTGAAAATACCTCA
* *
4665996 GCGTGTCC
66 GCATGCCC
* * * *
4666004 TGAGACTCAACTCACCTCTCGCAATATGAGTTGATT
1 CGAGGCTCAACTCACCTCTTGAAATATGAGTTGATT
4666040 AAATAAAAAT
Statistics
Matches: 224, Mismatches: 29, Indels: 34
0.78 0.10 0.12
Matches are distributed among these distances:
72 1 0.00
73 133 0.59
74 17 0.08
77 1 0.00
78 1 0.00
79 1 0.00
80 4 0.02
81 4 0.02
82 1 0.00
83 1 0.00
84 1 0.00
87 19 0.08
88 40 0.18
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (73 bp):
CGAGGCTCAACTCACCTCTTGAAATATGAGTTGATTTTTGAAAAACATAAATTGAAAATACCTCA
GCATGCCC
Found at i:4665961 original size:88 final size:87
Alignment explanation
Indices: 4665827--4665988 Score: 252
Period size: 88 Copynumber: 1.9 Consensus size: 87
4665817 TAAATTGAAA
* *
4665827 ATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAA
1 ATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGAAAAACAA
4665892 AAATTAAAAAACACAAACTAAGC
65 AAATTAAAAAACACAAACTAAGC
* ** *
4665915 ATACCTCAGCGTGCCCTGAGGCTCAACTCATTTCTCGCTATATGAGTCGATTTTTGAAAAACAAA
1 ATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAAA
*
4665980 AATTGAAAA
66 AATTAAAAA
4665989 TACCTCAGCG
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
87 23 0.34
88 44 0.66
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (87 bp):
ATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTGAAAAACAAA
AATTAAAAAACACAAACTAAGC
Found at i:4672123 original size:4 final size:4
Alignment explanation
Indices: 4672114--4672150 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
4672104 AGTAAACGTG
4672114 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
4672151 TAGAAAAGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4682781 original size:17 final size:17
Alignment explanation
Indices: 4682761--4682815 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
4682751 TATAATAAAA
*
4682761 ATAAAAATATACATAAT
1 ATAAAAATATAAATAAT
*
4682778 ATAAGAATATAGAAGT-AT
1 ATAAAAATATA-AA-TAAT
*
4682796 -TAAAAATATAAATAAA
1 ATAAAAATATAAATAAT
4682812 ATAA
1 ATAA
4682816 TGAAGAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
15 1 0.03
16 3 0.10
17 22 0.73
18 3 0.10
19 1 0.03
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (17 bp):
ATAAAAATATAAATAAT
Found at i:4683289 original size:14 final size:15
Alignment explanation
Indices: 4683267--4683305 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
4683257 ATACTTCATA
*
4683267 AATATATATACATACT
1 AATA-ATATACATAAT
4683283 AA-AATATACATAAT
1 AATAATATACATAAT
4683297 AATAATATA
1 AATAATATA
4683306 TGCATACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 12 0.57
15 7 0.33
16 2 0.10
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (15 bp):
AATAATATACATAAT
Found at i:4683373 original size:16 final size:18
Alignment explanation
Indices: 4683333--4683379 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
4683323 AATATTTAAA
* *
4683333 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
4683351 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
4683368 AA-ATTAATATTA
1 AATATTAATATTA
4683380 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:4683861 original size:16 final size:16
Alignment explanation
Indices: 4683840--4683873 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
4683830 AAAAAAAAAA
4683840 AGAGAGAGGAGAAAGG
1 AGAGAGAGGAGAAAGG
4683856 AGAGAGAGGAGAAAGG
1 AGAGAGAGGAGAAAGG
4683872 AG
1 AG
4683874 GGAGGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (16 bp):
AGAGAGAGGAGAAAGG
Found at i:4688870 original size:44 final size:44
Alignment explanation
Indices: 4688807--4688935 Score: 233
Period size: 44 Copynumber: 2.9 Consensus size: 44
4688797 ATTTTCATGC
4688807 CAAACT-GCCATGTCAAAATTTGATTGAATGCAAAATTAAGATAT
1 CAAACTAGCC-TGTCAAAATTTGATTGAATGCAAAATTAAGATAT
*
4688851 CAAACTAGCCTGTCAAAATTTGATTGAATGCAAAATTAAGATGT
1 CAAACTAGCCTGTCAAAATTTGATTGAATGCAAAATTAAGATAT
4688895 CAAACTAGCCTGTCAAAATTTGATTGAATGCAAAATTAAGA
1 CAAACTAGCCTGTCAAAATTTGATTGAATGCAAAATTAAGA
4688936 GGACACTTCT
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
44 80 0.96
45 3 0.04
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.29
Consensus pattern (44 bp):
CAAACTAGCCTGTCAAAATTTGATTGAATGCAAAATTAAGATAT
Found at i:4691600 original size:13 final size:13
Alignment explanation
Indices: 4691582--4691610 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4691572 TAGAGGTCTC
4691582 TTTGTTTACTATT
1 TTTGTTTACTATT
4691595 TTTGTTTACTATT
1 TTTGTTTACTATT
4691608 TTT
1 TTT
4691611 CATATCACCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (13 bp):
TTTGTTTACTATT
Found at i:4695855 original size:20 final size:21
Alignment explanation
Indices: 4695830--4695869 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
4695820 ATAAGAGAAG
*
4695830 ATTGCTATAAGTTT-AAAAAT
1 ATTGCTAAAAGTTTGAAAAAT
4695850 ATTGCTAAAAGTTTGAAAAA
1 ATTGCTAAAAGTTTGAAAAA
4695870 AAAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.35
Consensus pattern (21 bp):
ATTGCTAAAAGTTTGAAAAAT
Found at i:4699184 original size:20 final size:20
Alignment explanation
Indices: 4699122--4699193 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
4699112 ATTATTTTTA
*
4699122 ATAAAAATATT-TAAAAATT
1 ATAAAAAAATTGTAAAAATT
* * *
4699141 AGAAAAAAAGTTGTTCAAATTT
1 ATAAAAAAA-TTG-TAAAAATT
*
4699163 ATAAAAAAATTGTAAAACTT
1 ATAAAAAAATTGTAAAAATT
4699183 ATAAAAAAATT
1 ATAAAAAAATT
4699194 ACAAAATACA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
19 7 0.16
20 19 0.44
21 3 0.07
22 14 0.33
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATTGTAAAAATT
Found at i:4699199 original size:20 final size:20
Alignment explanation
Indices: 4699161--4699199 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4699151 TTGTTCAAAT
**
4699161 TTATAAAAAAATTGTAAAAC
1 TTATAAAAAAATTACAAAAC
4699181 TTATAAAAAAATTACAAAA
1 TTATAAAAAAATTACAAAA
4699200 TACATCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAAAAATTACAAAAC
Found at i:4699395 original size:19 final size:20
Alignment explanation
Indices: 4699368--4699426 Score: 79
Period size: 19 Copynumber: 3.0 Consensus size: 20
4699358 TTGGTATGAT
4699368 AATTTTTATATTTTTTTACG
1 AATTTTTATATTTTTTTACG
4699388 AA-TTTTATATTTTTTTA--
1 AATTTTTATATTTTTTTACG
*
4699405 AATTTTTATAATTTTCTTACG
1 AATTTTTAT-ATTTTTTTACG
4699426 A
1 A
4699427 CTTTATAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 23 0.68
20 2 0.06
21 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTTATATTTTTTTACG
Found at i:4699845 original size:87 final size:87
Alignment explanation
Indices: 4699682--4699847 Score: 219
Period size: 85 Copynumber: 1.9 Consensus size: 87
4699672 TAACAGAATC
* * ** * *
4699682 TTAATTGCTTTTCTTGAAAAAGTTTGAGAGCCTTTTTTGTGCATTTTGAAAGTCCAAGTATCCAA
1 TTAATTGCTTTTCTTGAAAAAATTTGAGAGCATTTTTAATGCATTTTGAAAGTCCAAATACCCAA
* *
4699747 TTGAGTGAAAAAAAATAGGCGT
66 TTAAGTAAAAAAAAATAGGCGT
* **
4699769 TTAATTGCTTTTTTTGAAAAAATTTGA-AGCATTTTTAATGCA-TTTGAAAGTTTAAATACCCAA
1 TTAATTGCTTTTCTTGAAAAAATTTGAGAGCATTTTTAATGCATTTTGAAAGTCCAAATACCCAA
4699832 TTAAGTAAAAAAAAAT
66 TTAAGTAAAAAAAAAT
4699848 CAGAAGTTAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 31 0.46
86 12 0.18
87 25 0.37
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (87 bp):
TTAATTGCTTTTCTTGAAAAAATTTGAGAGCATTTTTAATGCATTTTGAAAGTCCAAATACCCAA
TTAAGTAAAAAAAAATAGGCGT
Found at i:4702623 original size:13 final size:13
Alignment explanation
Indices: 4702605--4702632 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4702595 TCCGTATGCA
4702605 CCAAATAAGCAAT
1 CCAAATAAGCAAT
4702618 CCAAATAAGCAAT
1 CCAAATAAGCAAT
4702631 CC
1 CC
4702633 CAACTAGCTC
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:0.50, C:0.29, G:0.07, T:0.14
Consensus pattern (13 bp):
CCAAATAAGCAAT
Found at i:4707237 original size:165 final size:166
Alignment explanation
Indices: 4706964--4707291 Score: 552
Period size: 165 Copynumber: 2.0 Consensus size: 166
4706954 TCGCCATTAA
* *
4706964 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGGCTTTTTTTTTTTGTTTTTCCAT
1 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
** *
4707029 ATTTTCTTCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACGAGCATCCATGGCC
66 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC
*
4707094 CAAACACCT-ATTCATTCTCCCTGCTTTTGAAACTAG
131 CAAACA-CTGATTCATTCTCCCTGCTTCTGAAACTAG
*
4707130 TATCCTCCTCTCCCTACAACGCCGAGAAT-TAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
1 TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
*
4707194 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATTCATGGCC
66 ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC
*
4707259 CAAACATTGATTCATTCTCCCTGCTTCTGAAAC
131 CAAACACTGATTCATTCTCCCTGCTTCTGAAAC
4707292 CTGTTGAATC
Statistics
Matches: 152, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
164 1 0.01
165 123 0.81
166 28 0.18
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35
Consensus pattern (166 bp):
TATCCTCCGCTCCCTACAACGCCGAGAATCTAGAGCCTAACGACTATTTTTTTTTGTTTTTCCAT
ATTTTCCGCTGAAAAATCCCTCTTCCCTCACAGTGAATATCTCTTTTCCACCAGCATCCATGGCC
CAAACACTGATTCATTCTCCCTGCTTCTGAAACTAG
Found at i:4710221 original size:43 final size:43
Alignment explanation
Indices: 4710164--4710251 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
4710154 CGTCTTTAAT
*
4710164 ACCAATTTTGTTGAAAGTTAAAGTGTCTTGGATAAAAATTACC
1 ACCAATTTTGTTGAAAGTGAAAGTGTCTTGGATAAAAATTACC
4710207 ACCAATTTTGTTGAAAGTGAAAGTGTCTTGGATAAAAATTACC
1 ACCAATTTTGTTGAAAGTGAAAGTGTCTTGGATAAAAATTACC
4710250 AC
1 AC
4710252 GAGAGAAAGT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (43 bp):
ACCAATTTTGTTGAAAGTGAAAGTGTCTTGGATAAAAATTACC
Found at i:4718109 original size:20 final size:21
Alignment explanation
Indices: 4718073--4718111 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4718063 TTTAAGGTTT
*
4718073 AAAAAAATTATTAAATAATTA
1 AAAAAAATCATTAAATAATTA
4718094 AAAAAAATCATT-AATAAT
1 AAAAAAATCATTAAATAAT
4718112 GGGATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAAAAATCATTAAATAATTA
Found at i:4719456 original size:23 final size:22
Alignment explanation
Indices: 4719424--4719483 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
4719414 TCAAATTAAA
4719424 TAAT-TAAAAAT-TATTTAA-ATT
1 TAATATAAAAATATA-TTAATA-T
4719445 TAATTATAAAAATATATTAATAT
1 TAA-TATAAAAATATATTAATAT
4719468 TAATAT-AAAATATATT
1 TAATATAAAAATATATT
4719484 TTTTGATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 13 0.37
22 4 0.11
23 15 0.43
24 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
TAATATAAAAATATATTAATAT
Found at i:4721048 original size:29 final size:27
Alignment explanation
Indices: 4721010--4721114 Score: 90
Period size: 28 Copynumber: 3.7 Consensus size: 27
4721000 TTTTCAATAA
*
4721010 AAATATAAAAAAAT-TAAAATTTACTAAG
1 AAATACAAAAAAATATAAAATTTA-T-AG
* * *
4721038 AATTAGAAAAAAATATAAAATATATAG
1 AAATACAAAAAAATATAAAATTTATAG
4721065 AAATACAGAAAAAATATAAAATTTTATA-
1 AAATACA-AAAAAATATAAAA-TTTATAG
4721093 AAAT-CATAATAAAATTATAAAA
1 AAATACA-AA-AAAA-TATAAAA
4721115 AAAATATAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
27 11 0.17
28 34 0.52
29 20 0.31
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATACAAAAAAATATAAAATTTATAG
Found at i:4721133 original size:20 final size:19
Alignment explanation
Indices: 4721073--4721150 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 19
4721063 AGAAATACAG
*
4721073 AAAAAATATAAAATTTTATA
1 AAAAAATATAAAATTATA-A
**
4721093 AAATCATAATAAAATTATAA
1 AAAAAAT-ATAAAATTATAA
*
4721113 AAAAAATATAAAATTCGTAA
1 AAAAAATATAAAATT-ATAA
* *
4721133 AATAATTATAAAAATTAT
1 AAAAAATAT-AAAATTAT
4721151 TGTACCAAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
19 8 0.17
20 22 0.48
21 16 0.35
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AAAAAATATAAAATTATAA
Found at i:4721147 original size:40 final size:40
Alignment explanation
Indices: 4721073--4721150 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
4721063 AGAAATACAG
* *
4721073 AAAAAATATAAAATTTTATAAAATCATAATAAAATTATAA
1 AAAAAATATAAAATTTCATAAAATAATAATAAAATTATAA
* *
4721113 AAAAAATATAAAA-TTCGTAAAATAATTATAAAAATTAT
1 AAAAAATATAAAATTTCATAAAATAATAAT-AAAATTAT
4721151 TGTACCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 12 0.36
40 21 0.64
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (40 bp):
AAAAAATATAAAATTTCATAAAATAATAATAAAATTATAA
Found at i:4729122 original size:19 final size:19
Alignment explanation
Indices: 4729089--4729136 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4729079 TAAACAATCC
4729089 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
4729106 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
4729125 AATAATATAAAT
1 AATAATATAAAT
4729137 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:4735663 original size:26 final size:26
Alignment explanation
Indices: 4735593--4735752 Score: 245
Period size: 26 Copynumber: 6.2 Consensus size: 26
4735583 CATGAAATTC
* *
4735593 TTATCATGAAACATTTACCTAACTCA
1 TTATCATGGAACATTTACCTAACCCA
4735619 TTATCAT-G-ACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
4735643 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
4735669 TTATCAT-GAAGCATTTACCTAACCCA
1 TTATCATGGAA-CATTTACCTAACCCA
*
4735695 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
4735721 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
4735747 TTATCA
1 TTATCA
4735753 ATTTGTATCA
Statistics
Matches: 125, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
24 22 0.18
25 4 0.03
26 96 0.77
27 3 0.02
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Done.