Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 155 of 770
Found at i:45557881 original size:12 final size:12
Alignment explanation
Indices: 45557849--45557904 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
45557839 TTGATTTCTT
*
45557849 TTTTGTTTTTTC
1 TTTTCTTTTTTC
*
45557861 TTGTCTTTTTTC
1 TTTTCTTTTTTC
* *
45557873 TTTTGTTTTTTG
1 TTTTCTTTTTTC
*
45557885 TTTT-TTTTTTT
1 TTTTCTTTTTTC
45557896 TTTTCTTTT
1 TTTTCTTTT
45557905 CATGACTGTC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:45557893 original size:24 final size:23
Alignment explanation
Indices: 45557847--45557904 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
45557837 ATTTGATTTC
45557847 TTTTTTGTTTTTTCTTGTCTTTT
1 TTTTTTGTTTTTTCTTGTCTTTT
* * *
45557870 TTCTTTTGTTTTTTGTTTTTTTTT
1 TT-TTTTGTTTTTTCTTGTCTTTT
*
45557894 TTTTTTCTTTT
1 TTTTTTGTTTT
45557905 CATGACTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (23 bp):
TTTTTTGTTTTTTCTTGTCTTTT
Found at i:45560132 original size:12 final size:12
Alignment explanation
Indices: 45560110--45560143 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
45560100 TGGGATATGC
*
45560110 AATGTATGAATG
1 AATGCATGAATG
*
45560122 GATGCATGAATG
1 AATGCATGAATG
45560134 AATGCATGAA
1 AATGCATGAA
45560144 CGTCAAATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.26, T:0.26
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:45561523 original size:18 final size:17
Alignment explanation
Indices: 45561481--45561525 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
45561471 GAAAAATGAG
45561481 AAATTTT-AAAACACGA
1 AAATTTTGAAAACACGA
45561497 AAATTTTGAAAACACGA
1 AAATTTTGAAAACACGA
45561514 AAATTTTTGAAA
1 AAA-TTTTGAAA
45561526 CCTGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 7 0.26
17 12 0.44
18 8 0.30
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (17 bp):
AAATTTTGAAAACACGA
Found at i:45562832 original size:17 final size:15
Alignment explanation
Indices: 45562655--45562828 Score: 198
Period size: 14 Copynumber: 11.5 Consensus size: 15
45562645 CTTTTTTGGT
45562655 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
45562670 -TTTTTTGCTGG-AA
1 TTTTTTTGCTGGAAA
45562683 TTTTTTTGCT-GAAA
1 TTTTTTTGCTGGAAA
* *
45562697 TTTTTTGGCTAG-AA
1 TTTTTTTGCTGGAAA
45562711 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
45562726 TTTTTTTGCTGG-AA
1 TTTTTTTGCTGGAAA
*
45562740 TTTTTTTGCTGGAAT
1 TTTTTTTGCTGGAAA
*
45562755 TTTTTTTGCTGCTGGAA
1 TTTTTTTGCTG--GAAA
45562772 TTTTTTTGCTGGAAAAA
1 TTTTTTTGCTGG--AAA
45562789 TTTTCTTGCTGCTGG-AA
1 TTTT-TT--TGCTGGAAA
45562806 TTTTTTTGCTGGAAAA
1 TTTTTTTGCTGG-AAA
45562822 TTTTTTT
1 TTTTTTT
45562829 TGCTTCCCCC
Statistics
Matches: 138, Mismatches: 7, Indels: 27
0.80 0.04 0.16
Matches are distributed among these distances:
13 3 0.02
14 63 0.46
15 28 0.20
16 11 0.08
17 25 0.18
18 2 0.01
20 6 0.04
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.55
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:45563114 original size:15 final size:15
Alignment explanation
Indices: 45563078--45563125 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
45563068 TTTTTTTATG
45563078 TTGGGCTAGTTGAGTA-
1 TTGGGCTAG-TG-GTAT
45563094 TTGGGCTAGTGGTAT
1 TTGGGCTAGTGGTAT
*
45563109 TTGGGCTA-TGGGAT
1 TTGGGCTAGTGGTAT
45563123 TTG
1 TTG
45563126 ATTTGTTGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 11 0.37
15 10 0.33
16 9 0.30
ACGTcount: A:0.15, C:0.06, G:0.40, T:0.40
Consensus pattern (15 bp):
TTGGGCTAGTGGTAT
Found at i:45565222 original size:38 final size:38
Alignment explanation
Indices: 45565137--45565246 Score: 134
Period size: 38 Copynumber: 2.8 Consensus size: 38
45565127 ATAAAATAAA
* *
45565137 TTGTGCT-GAGATTGTATCCGGGCTTAAAGACCCGCAGGCT
1 TTGTGCTGGA-ATTATATCCGGG-TTAAA-TCCCGCAGGCT
* *
45565177 ATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCT
1 TTGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCT
45565215 TTGTGCTGGTAA-TATATCCGGGTTAAATCCCG
1 TTGTGCTGG-AATTATATCCGGGTTAAATCCCG
45565247 GTAATATATC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
38 37 0.60
39 7 0.11
40 16 0.26
41 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (38 bp):
TTGTGCTGGAATTATATCCGGGTTAAATCCCGCAGGCT
Found at i:45565249 original size:24 final size:24
Alignment explanation
Indices: 45565222--45565270 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
45565212 GCTTTGTGCT
45565222 GGTAATATATCCGGGTTAAATCCC
1 GGTAATATATCCGGGTTAAATCCC
45565246 GGTAATATATCCGGGTTAAATCCC
1 GGTAATATATCCGGGTTAAATCCC
45565270 G
1 G
45565271 CAGGCTTCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
GGTAATATATCCGGGTTAAATCCC
Found at i:45565265 original size:62 final size:62
Alignment explanation
Indices: 45565189--45565308 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
45565179 ATGCTGGAAT
*
45565189 TATATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTAATATATCCGGGTTAAATCCCGGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGGTAA
*
45565251 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAATCCCG
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCG
45565309 CAGGCCTAGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (62 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATCCGGGTTAAATCCCGGTAA
Found at i:45565284 original size:100 final size:102
Alignment explanation
Indices: 45565151--45565332 Score: 280
Period size: 100 Copynumber: 1.8 Consensus size: 102
45565141 GCTGAGATTG
*
45565151 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCTT
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
*
45565216 TGTGCTGGTAATATATCCGGGTTAAATCCCGGTAATA
66 AGTGCTGGTAATATATCCGGGTTAAATCCCGGTAATA
* * *
45565253 TATCCGGG-TTAAA-TCCCGCAGGCT-TCGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCC
1 TATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCC
*
45565315 TAGTGCTGGTATTATATC
65 TAGTGCTGGTAATATATC
45565333 TGAGTTCAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
99 1 0.01
100 59 0.81
101 5 0.07
102 8 0.11
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (102 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTATATCCGGGTTAAATCCCGCAGGCCT
AGTGCTGGTAATATATCCGGGTTAAATCCCGGTAATA
Found at i:45565302 original size:38 final size:38
Alignment explanation
Indices: 45565246--45565369 Score: 167
Period size: 38 Copynumber: 3.2 Consensus size: 38
45565236 GTTAAATCCC
*
45565246 GGTAATATATCCGGGTTAAATCCCGCAGGCTTCGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCT
* *
45565284 GGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCT
1 GGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCT
* * *
45565322 GGTATTATATCTGAGTTCAAAGTCCCGTAGGCTTCGTGCT
1 GGTATTATATCCGGGTT-AAA-TCCCGCAGGCTTCGTGCT
*
45565362 GGTGTTAT
1 GGTATTAT
45565370 GTTTGGGTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 50 0.67
39 3 0.04
40 22 0.29
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (38 bp):
GGTATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCT
Found at i:45566849 original size:18 final size:18
Alignment explanation
Indices: 45566828--45566868 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
45566818 GAGCAAAAAG
45566828 AAAGTATGAGTGTTGAAC
1 AAAGTATGAGTGTTGAAC
*
45566846 AAAGTATGAGTGTTGAAG
1 AAAGTATGAGTGTTGAAC
45566864 AAAGT
1 AAAGT
45566869 TTGCAAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.02, G:0.29, T:0.27
Consensus pattern (18 bp):
AAAGTATGAGTGTTGAAC
Found at i:45571334 original size:31 final size:29
Alignment explanation
Indices: 45571283--45571354 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 29
45571273 TCTTCAAATG
45571283 TGTATAATTGAAACAAAATCAAATTTTCA
1 TGTATAATTGAAACAAAATCAAATTTTCA
* * *
45571312 TGTATACATTTGAACCACAATCAAATTTTTA
1 TGTATA-A-TTGAAACAAAATCAAATTTTCA
45571343 TTTGTATAATTG
1 --TGTATAATTG
45571355 CACCAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 6 0.17
30 1 0.03
31 22 0.61
32 1 0.03
33 6 0.17
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.40
Consensus pattern (29 bp):
TGTATAATTGAAACAAAATCAAATTTTCA
Found at i:45574841 original size:20 final size:20
Alignment explanation
Indices: 45574816--45574855 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45574806 TATTAAAAAT
* *
45574816 AAAAATATAAAAATTTATAA
1 AAAAATACAAAAACTTATAA
45574836 AAAAATACAAAAACTTATAA
1 AAAAATACAAAAACTTATAA
45574856 TATATTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAAATACAAAAACTTATAA
Found at i:45581787 original size:22 final size:22
Alignment explanation
Indices: 45581761--45581805 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
45581751 GTTAAAGTTG
45581761 ATATTATGTCAATTTTAAAACT
1 ATATTATGTCAATTTTAAAACT
45581783 ATATTATGTCAATTTTAAAACT
1 ATATTATGTCAATTTTAAAACT
45581805 A
1 A
45581806 GTCACATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.09, G:0.04, T:0.44
Consensus pattern (22 bp):
ATATTATGTCAATTTTAAAACT
Found at i:45582186 original size:11 final size:11
Alignment explanation
Indices: 45582131--45582186 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
45582121 AAAAGACTTC
45582131 AATA-AATA-A
1 AATATAATATA
45582140 AATATAA-ATA
1 AATATAATATA
* *
45582150 AAAATTAT-TA
1 AATATAATATA
45582160 AATATTAATAT-
1 AATA-TAATATA
45582171 AATATAATATA
1 AATATAATATA
45582182 AATAT
1 AATAT
45582187 TTCTAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
9 5 0.14
10 19 0.51
11 12 0.32
12 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATATAATATA
Found at i:45593218 original size:5 final size:5
Alignment explanation
Indices: 45593204--45593241 Score: 67
Period size: 5 Copynumber: 7.4 Consensus size: 5
45593194 TGGTTAGAAT
45593204 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
45593242 ATTAATTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 27 0.84
6 5 0.16
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:45596356 original size:16 final size:18
Alignment explanation
Indices: 45596335--45596370 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
45596325 TTCTCTTTTT
45596335 TTAAAAAA-TA-ATAAAA
1 TTAAAAAACTATATAAAA
45596351 TTAAAAAACTATATAAAA
1 TTAAAAAACTATATAAAA
45596369 TT
1 TT
45596371 CTTATTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 2 0.11
18 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAAAACTATATAAAA
Found at i:45598388 original size:16 final size:16
Alignment explanation
Indices: 45598367--45598399 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
45598357 TATTTTATGT
45598367 ACGAATAAGGAAAGAA
1 ACGAATAAGGAAAGAA
45598383 ACGAATAAGGAAAGAA
1 ACGAATAAGGAAAGAA
45598399 A
1 A
45598400 GTCGTTAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.24, T:0.06
Consensus pattern (16 bp):
ACGAATAAGGAAAGAA
Found at i:45598554 original size:11 final size:11
Alignment explanation
Indices: 45598538--45598567 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
45598528 ATATTTGAGT
45598538 TTTTTTCTAAA
1 TTTTTTCTAAA
45598549 TTTTTTCTAAA
1 TTTTTTCTAAA
45598560 TTTATTTC
1 TTT-TTTC
45598568 GATTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.23, C:0.10, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTTTTCTAAA
Found at i:45603580 original size:18 final size:18
Alignment explanation
Indices: 45603557--45603592 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45603547 AATGAGAACA
45603557 GTCTCTTTTATTCAGTTG
1 GTCTCTTTTATTCAGTTG
45603575 GTCTCTTTTATTCAGTTG
1 GTCTCTTTTATTCAGTTG
45603593 AACTCCAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.17, T:0.56
Consensus pattern (18 bp):
GTCTCTTTTATTCAGTTG
Found at i:45607164 original size:19 final size:19
Alignment explanation
Indices: 45607136--45607172 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45607126 ATTTATTGGA
*
45607136 TCAAAATTAAATATTAAAG
1 TCAAAATTAAATACTAAAG
*
45607155 TCAAACTTAAATACTAAA
1 TCAAAATTAAATACTAAA
45607173 TTTGAAAAAA
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:0.57, C:0.11, G:0.03, T:0.30
Consensus pattern (19 bp):
TCAAAATTAAATACTAAAG
Found at i:45614060 original size:16 final size:16
Alignment explanation
Indices: 45614031--45614064 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
45614021 TTTTACTTAC
45614031 CTAATAAAAAAAAAAA
1 CTAATAAAAAAAAAAA
45614047 CTAATCAAACAAAAAAAA
1 CTAAT-AAA-AAAAAAAA
45614065 AAGGAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (16 bp):
CTAATAAAAAAAAAAA
Found at i:45623846 original size:196 final size:198
Alignment explanation
Indices: 45623322--45623863 Score: 774
Period size: 197 Copynumber: 2.7 Consensus size: 198
45623312 AAACCCAAAA
* * * *
45623322 GATACTACACACTTAAGTGTGCTCGAATCCACAAGCTCCAAGTTGCTGCAATAGCTATGCTTGAA
1 GATATTACGCACTTAAGTGTGCTCGAATCCACAACCTCCAAGTTGCTGCAATAGCAATGCTTGAA
* * *
45623387 TAATTTGAAATTGGGTTTTTGGTTTTGCTGTGTAACATTAGAGGAACCTCATTTTGAAGTAGAAT
66 TAATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAAC
* * *
45623452 GATGGTCGGAACTTC-TTTTTTGGCAAATTTCTAAACTACTCGTAGACCCCGACTAATTAAATTT
131 GATGGTCGGTACTTCTTTTTTTGACAAATTTCTAAACTACTCGTAGACACCGACTAATTAAATTT
45623516 GAT
196 GAT
* * * *
45623519 GATATTACGCACTTAAGTGTGTTCGAATCCATAACCTCCAAGTTGTTGCAATAGCAATACTTGAA
1 GATATTACGCACTTAAGTGTGCTCGAATCCACAACCTCCAAGTTGCTGCAATAGCAATGCTTGAA
* * *
45623584 TAAATTTAAAATTGGGTTATTGGTTTTGCTGTGTGACATTAGAGGAACCTTATTTTGAGGTAGAA
66 T-AATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAA
45623649 CGATGGTCGGTACTTCTTTTTTTGAC-AA-TTCTAAACTAC-CTGTA-A-ACCGAAGCTAATTAA
130 CGATGGTCGGTACTTCTTTTTTTGACAAATTTCTAAACTACTC-GTAGACACCG-A-CTAATTAA
45623709 ATTTGAT
192 ATTTGAT
** * * ** *
45623716 GATATTACGCTGTTAAGCGTGCTCGAATCCACAATCTCTGAGTTGCTGCAATAGCAATGCTTAAA
1 GATATTACGCACTTAAGTGTGCTCGAATCCACAACCTCCAAGTTGCTGCAATAGCAATGCTTGAA
45623781 TAATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAAC
66 TAATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAAC
45623846 G-TCGGTCGGTACTTCTTT
131 GAT-GGTCGGTACTTCTTT
45623864 ATAGAGGCTT
Statistics
Matches: 308, Mismatches: 31, Indels: 13
0.88 0.09 0.04
Matches are distributed among these distances:
195 4 0.01
196 80 0.26
197 142 0.46
198 74 0.24
199 8 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (198 bp):
GATATTACGCACTTAAGTGTGCTCGAATCCACAACCTCCAAGTTGCTGCAATAGCAATGCTTGAA
TAATTTGAAATTGGGTTATTGGTTTTGCTGTGTAACATTAGAGGAACCTTATTTTGAAGTAGAAC
GATGGTCGGTACTTCTTTTTTTGACAAATTTCTAAACTACTCGTAGACACCGACTAATTAAATTT
GAT
Found at i:45628316 original size:189 final size:187
Alignment explanation
Indices: 45627945--45628320 Score: 725
Period size: 189 Copynumber: 2.0 Consensus size: 187
45627935 GGAGATCCCT
45627945 GTATTATAGAGATTGTATCAAATTAGTCCCTATATTATTACAAAGAATCAAATAAGTCTAAATTG
1 GTATTATAGAGATTGTATCAAATTAGTCCCTATATTATTACAAAGAATCAAATAAGTCTAAATTG
45628010 TATCATATCTAACATTTGCTGTAAAAAAAAAATCTTGAATTTTTTTTCCAATTGCAATTTAATTT
66 TATCATATCTAACATTTGCTGTAAAAAAAAAATCTTGAATTTTTTTTCCAATTGCAATTTAATTT
45628075 CAAATAAAAAGATTTCATTAAATGGTATAGAGGTTAAATTGATTCATTTAATAATAG
131 CAAATAAAAAGATTTCATTAAATGGTATAGAGGTTAAATTGATTCATTTAATAATAG
*
45628132 GTATTATAGAGATTGTATCAAATTAGTCCCTATATTATTACAAAGAATCAAATAAGTTTAAATTG
1 GTATTATAGAGATTGTATCAAATTAGTCCCTATATTATTACAAAGAATCAAATAAGTCTAAATTG
45628197 TATCATATCTAACATTTGCTGTAAAAAAAAAAAATCTTGAATTTTTTTTCCAATTGCAATTTAAT
66 TATCATATCTAACATTTGCTGT--AAAAAAAAAATCTTGAATTTTTTTTCCAATTGCAATTTAAT
45628262 TTCAAATAAAAAGATTTCATTAAATGGTATAGAGGTTAAATTGATTCATTTAATAATAG
129 TTCAAATAAAAAGATTTCATTAAATGGTATAGAGGTTAAATTGATTCATTTAATAATAG
45628321 AGGGGTTAAT
Statistics
Matches: 186, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
187 86 0.46
189 100 0.54
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (187 bp):
GTATTATAGAGATTGTATCAAATTAGTCCCTATATTATTACAAAGAATCAAATAAGTCTAAATTG
TATCATATCTAACATTTGCTGTAAAAAAAAAATCTTGAATTTTTTTTCCAATTGCAATTTAATTT
CAAATAAAAAGATTTCATTAAATGGTATAGAGGTTAAATTGATTCATTTAATAATAG
Found at i:45629059 original size:14 final size:14
Alignment explanation
Indices: 45629036--45629078 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
45629026 TTTTGTTTAG
45629036 TTTT-TAAATATTT
1 TTTTATAAATATTT
*
45629049 TTTTATAAATATAT
1 TTTTATAAATATTT
*
45629063 TTTTACAAAT-TTT
1 TTTTATAAATATTT
45629076 TTT
1 TTT
45629079 CATTCATATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 9 0.35
14 17 0.65
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTTATAAATATTT
Found at i:45633483 original size:39 final size:40
Alignment explanation
Indices: 45633407--45633483 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
45633397 TTAATTCACC
* * *
45633407 AGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATCCT
1 AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATCCT
*
45633447 AGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
45633484 TCAGCACAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
39 15 0.45
40 18 0.55
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (40 bp):
AGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATCCT
Found at i:45633603 original size:14 final size:16
Alignment explanation
Indices: 45633579--45633618 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
45633569 GTCATTCGGC
45633579 CTTATCACATAT-TCA
1 CTTATCACATATATCA
45633594 CTTA-CACATATATCA
1 CTTATCACATATATCA
45633609 CATT-TCACAT
1 C-TTATCACAT
45633619 TCGGCCTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.32
15 8 0.36
16 7 0.32
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (16 bp):
CTTATCACATATATCA
Found at i:45633629 original size:22 final size:23
Alignment explanation
Indices: 45633571--45633633 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
45633561 CACAATTGGT
45633571 CATTCGGCCTTATCACATATTCA
1 CATTCGGCCTTATCACATATTCA
* *
45633594 C-TTAC-ACATATATCACAT-TTCA
1 CATT-CGGCCT-TATCACATATTCA
45633616 CATTCGGCCTTATCACAT
1 CATTCGGCCTTATCACAT
45633634 GTATGCACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.29, C:0.30, G:0.06, T:0.35
Consensus pattern (23 bp):
CATTCGGCCTTATCACATATTCA
Found at i:45633646 original size:31 final size:30
Alignment explanation
Indices: 45633594--45633651 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
45633584 CACATATTCA
45633594 CTTACACATATATCACATTTCACATTCGGC
1 CTTACACATATATCACATTTCACATTCGGC
*
45633624 CTTATCACATGTATGCAC-TTTCACATTC
1 CTTA-CACATATAT-CACATTTCACATTC
45633652 ATCACATTGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 4 0.16
31 18 0.72
32 3 0.12
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.36
Consensus pattern (30 bp):
CTTACACATATATCACATTTCACATTCGGC
Found at i:45633659 original size:47 final size:47
Alignment explanation
Indices: 45633560--45633762 Score: 279
Period size: 47 Copynumber: 4.3 Consensus size: 47
45633550 TGCACACTTT
* * *
45633560 TCACAATTGGTCATTCGGCCTTATCACATAT--TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATACACACTTTCACAT-TCA
* * **
45633606 TCACATT-TCACATTCGGCCTTATCACATGTATGCACTTTCACATTCA
1 TCACATTGGC-CATTCGGCCTTATCACATATACACACTTTCACATTCA
*
45633653 TCACATTGGCCATTCAGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
45633700 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
45633747 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
45633763 ATCTTAAGCT
Statistics
Matches: 141, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
45 22 0.16
46 5 0.04
47 113 0.80
48 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
Found at i:45633677 original size:22 final size:22
Alignment explanation
Indices: 45633652--45633727 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
45633642 TTTCACATTC
45633652 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* *
45633674 ATCACATAT-ACACACTTTCA-CATT
1 ATCACAT-TGGC-CA--TTCAGCCTT
*
45633698 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCAGCCTT
45633721 ATCACAT
1 ATCACAT
45633728 ATACACACTT
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 18 0.43
23 6 0.14
24 6 0.14
25 12 0.29
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:45633702 original size:25 final size:25
Alignment explanation
Indices: 45633674--45633752 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
45633664 ATTCAGCCTT
45633674 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
* * *
45633699 ATCACAT-TGGC-CA--TTCGGCCTT-
1 ATCACATAT-ACACACTTTC-ACATTC
45633721 ATCACATATACACACTTTCACATTC
1 ATCACATATACACACTTTCACATTC
45633746 ATCACAT
1 ATCACAT
45633753 TGGCCATTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.27
23 6 0.15
24 6 0.15
25 18 0.44
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (25 bp):
ATCACATATACACACTTTCACATTC
Found at i:45637056 original size:28 final size:27
Alignment explanation
Indices: 45637016--45637083 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
45637006 GTATGTATTG
* *
45637016 AAATTAAATATATATCAATTCTAAAAA-
1 AAATTAAAAATATATAAATTC-AAAAAT
45637043 AAATCTAAAAATATATAAATTCAAAAAT
1 AAAT-TAAAAATATATAAATTCAAAAAT
45637071 AAATTATAAAATA
1 AAATTA-AAAATA
45637084 AAAATAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 11 0.31
28 25 0.69
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (27 bp):
AAATTAAAAATATATAAATTCAAAAAT
Found at i:45637088 original size:18 final size:20
Alignment explanation
Indices: 45637051--45637090 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
45637041 AAAAATCTAA
*
45637051 AAATATATAAATTCAAAAAT
1 AAATATATAAAATCAAAAAT
45637071 AAAT-TATAAAAT-AAAAAT
1 AAATATATAAAATCAAAAAT
45637089 AA
1 AA
45637091 TTAAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 7 0.37
20 4 0.21
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AAATATATAAAATCAAAAAT
Found at i:45637773 original size:138 final size:138
Alignment explanation
Indices: 45637588--45637866 Score: 531
Period size: 138 Copynumber: 2.0 Consensus size: 138
45637578 AGAAGAGGTA
45637588 TAAGATTATTTAACTATATAAACAATATAATGGATTTGCCTTTTAACTTAATAAGTAAACATTTA
1 TAAGATTATTTAACTATATAAACAATATAATGGATTTGCCTTTTAACTTAATAAGTAAACATTTA
*
45637653 CCAAAACAAGGTAGTTTTGCCTTTTTTTATTCAAATTTTTAGATAACTCGAATTGTGTAATTCAT
66 CCAAAACAACGTAGTTTTGCCTTTTTTTATTCAAATTTTTAGATAACTCGAATTGTGTAATTCAT
45637718 ATTCGAGT
131 ATTCGAGT
45637726 TAAGATTATTTAACTATATAAACAATATAATGGATTTGCCTTTTAACTTAATAAGTAAACATTTA
1 TAAGATTATTTAACTATATAAACAATATAATGGATTTGCCTTTTAACTTAATAAGTAAACATTTA
* *
45637791 CCAAAATAACGTAGTTTTGCCTTTTTTTATTCAGATTTTTAGATAACTCGAATTGTGTAATTCAT
66 CCAAAACAACGTAGTTTTGCCTTTTTTTATTCAAATTTTTAGATAACTCGAATTGTGTAATTCAT
45637856 ATTCGAGT
131 ATTCGAGT
45637864 TAA
1 TAA
45637867 ACCGAAAAAC
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (138 bp):
TAAGATTATTTAACTATATAAACAATATAATGGATTTGCCTTTTAACTTAATAAGTAAACATTTA
CCAAAACAACGTAGTTTTGCCTTTTTTTATTCAAATTTTTAGATAACTCGAATTGTGTAATTCAT
ATTCGAGT
Found at i:45644183 original size:36 final size:36
Alignment explanation
Indices: 45644143--45644211 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
45644133 CACGTAAGCG
45644143 AGTGCTTCAAGTCTCAGTTATCTGGCATTTTAAACT
1 AGTGCTTCAAGTCTCAGTTATCTGGCATTTTAAACT
45644179 AGTGCTTCAAGTCTCAGTTATCTGGCATTTTAA
1 AGTGCTTCAAGTCTCAGTTATCTGGCATTTTAA
45644212 CTTTCGAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.39
Consensus pattern (36 bp):
AGTGCTTCAAGTCTCAGTTATCTGGCATTTTAAACT
Found at i:45644486 original size:13 final size:14
Alignment explanation
Indices: 45644463--45644499 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
45644453 TGCATGTATG
45644463 TATGCATGTATATA
1 TATGCATGTATATA
*
45644477 TATG-ATGTATATG
1 TATGCATGTATATA
45644490 TATGCATGTA
1 TATGCATGTA
45644500 ATCAACCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (14 bp):
TATGCATGTATATA
Found at i:45644864 original size:79 final size:78
Alignment explanation
Indices: 45644770--45644928 Score: 293
Period size: 79 Copynumber: 2.0 Consensus size: 78
45644760 TTTATAAAAG
45644770 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCATTTGCTATTTCGCTGGTGGGTTAATCTATAAAA
1 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCATTTGCTATTTCGCTGGTGGGTTAATCTAT--AA
45644835 AATAGTCACTTTTGT
64 AATAGTCACTTTTGT
45644850 TTTG-TTTTTTTCCCTTCTCGTTATTTGTTCATTTGCTATTTCGCTGGTGGGTTAATCTATAAAA
1 TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCATTTGCTATTTCGCTGGTGGGTTAATCTATAAAA
45644914 TAGTCACTTTTGT
66 TAGTCACTTTTGT
45644927 TT
1 TT
45644929 GTCTCAGATT
Statistics
Matches: 79, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
77 19 0.24
79 56 0.71
80 4 0.05
ACGTcount: A:0.16, C:0.15, G:0.15, T:0.53
Consensus pattern (78 bp):
TTTGTTTTTTTTCCCTTCTCGTTATTTGTTCATTTGCTATTTCGCTGGTGGGTTAATCTATAAAA
TAGTCACTTTTGT
Found at i:45645060 original size:27 final size:27
Alignment explanation
Indices: 45645022--45645075 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
45645012 TTTACCGTTA
45645022 ACTTTATTACCTCCCAAACGTCAGTCT
1 ACTTTATTACCTCCCAAACGTCAGTCT
45645049 ACTTTATTACCTCCCAAACGTCAGTCT
1 ACTTTATTACCTCCCAAACGTCAGTCT
45645076 TACGTGGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.33
Consensus pattern (27 bp):
ACTTTATTACCTCCCAAACGTCAGTCT
Found at i:45646576 original size:96 final size:97
Alignment explanation
Indices: 45646456--45646646 Score: 366
Period size: 96 Copynumber: 2.0 Consensus size: 97
45646446 GAAGAGTTCT
45646456 CCACGGCTTTTAAATCAAGAAGAAAACCTACTTATAAAATAAACAAAAAAGAAATCTCAATCAAG
1 CCACGGCTTTTAAATCAAGAAGAAAACCTACTTATAAAATAAACAAAAAAGAAATCTCAATCAAG
*
45646521 ATATCTTTATAATCTATAATGAATAATGAATC
66 ATATCTTTATAATATATAATGAATAATGAATC
45646553 CCACGGCTTTT-AATCAAGAAGAAAACCTACTTATAAAATAAACAAAAAAGAAATCTCAATCAAG
1 CCACGGCTTTTAAATCAAGAAGAAAACCTACTTATAAAATAAACAAAAAAGAAATCTCAATCAAG
45646617 ATATCTTTATAATATATAATGAATAATGAA
66 ATATCTTTATAATATATAATGAATAATGAA
45646647 GAGAACTTCA
Statistics
Matches: 93, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
96 82 0.88
97 11 0.12
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (97 bp):
CCACGGCTTTTAAATCAAGAAGAAAACCTACTTATAAAATAAACAAAAAAGAAATCTCAATCAAG
ATATCTTTATAATATATAATGAATAATGAATC
Found at i:45647596 original size:3 final size:3
Alignment explanation
Indices: 45647588--45647633 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
45647578 TCTGCATTTT
45647588 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
45647634 GTGTATATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:45647738 original size:3 final size:3
Alignment explanation
Indices: 45647730--45647765 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
45647720 TGTATTTCTA
45647730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45647766 AATATGGTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:45647894 original size:16 final size:15
Alignment explanation
Indices: 45647863--45647905 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
45647853 CCTTCATTCC
*
45647863 ATTATTATTATTACT
1 ATTATTATTTTTACT
45647878 ATTATTATATTTTACT
1 ATTATTAT-TTTTACT
*
45647894 ATCATTATTTTT
1 ATTATTATTTTT
45647906 CATACGTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTATTTTTACT
Found at i:45648030 original size:16 final size:16
Alignment explanation
Indices: 45648009--45648040 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
45647999 CTATTGTTAC
45648009 TGTTATTATCATCACT
1 TGTTATTATCATCACT
*
45648025 TGTTATTCTCATCACT
1 TGTTATTATCATCACT
45648041 ATTATTATAA
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:0.22, C:0.22, G:0.06, T:0.50
Consensus pattern (16 bp):
TGTTATTATCATCACT
Found at i:45648242 original size:20 final size:20
Alignment explanation
Indices: 45648197--45648243 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
45648187 TTATTTAATA
45648197 TATTAT-TTTTACTATTATC
1 TATTATATTTTACTATTATC
*
45648216 T-TCATATTGTTACTATTA-C
1 TATTATATT-TTACTATTATC
45648235 TATTATATT
1 TATTATATT
45648244 ATTAGGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 3 0.13
19 5 0.22
20 15 0.65
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.60
Consensus pattern (20 bp):
TATTATATTTTACTATTATC
Found at i:45648290 original size:22 final size:22
Alignment explanation
Indices: 45648260--45648348 Score: 67
Period size: 22 Copynumber: 4.1 Consensus size: 22
45648250 TTATTATATC
*
45648260 TTTTACTATTATTATTGTTGTA
1 TTTTACTATTATTATTGTTATA
* * *
45648282 TTTTTCTATTATTGTTATTATA
1 TTTTACTATTATTATTGTTATA
* * *
45648304 TTTTCCT-TTATTTTTGTATTTA
1 TTTTACTATTATTATTGT-TATA
*
45648326 CTTATAC-ATTATTATT-TTATA
1 -TTTTACTATTATTATTGTTATA
45648347 TT
1 TT
45648349 ATCTAATTTG
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.04
21 11 0.21
22 28 0.54
23 11 0.21
ACGTcount: A:0.22, C:0.07, G:0.04, T:0.66
Consensus pattern (22 bp):
TTTTACTATTATTATTGTTATA
Found at i:45648294 original size:3 final size:3
Alignment explanation
Indices: 45648040--45648275 Score: 87
Period size: 3 Copynumber: 78.3 Consensus size: 3
45648030 TTCTCATCAC
* * * *
45648040 TAT TAT TAT AATT TAT CAT TGT TACT TAT TAT T-T TAC TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
45648086 CTAA TA- TAT CAT CAT TAT CAT TAT T-T TCAT TAT AACT TAA TA- GAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT
* * *
45648131 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG CAC TACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * *
45648177 T-T TAT TAC TAT TAT T-T AAT ATAT TAT TTT TAC TAT TAT CT-T CA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * *
45648220 TAT TGT TAC TAT TAC TAT TA- TAT TAT TAGGT TAT TA- TAT CTTT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT -TAT TAT
45648266 TAT TAT TAT T
1 TAT TAT TAT T
45648276 GTTGTATTTT
Statistics
Matches: 169, Mismatches: 43, Indels: 42
0.67 0.17 0.17
Matches are distributed among these distances:
2 15 0.09
3 134 0.79
4 17 0.10
5 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.03, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:45648390 original size:17 final size:17
Alignment explanation
Indices: 45648368--45648400 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
45648358 GATAACTGTA
45648368 TATTTT-TTTAGCATATT
1 TATTTTATTTA-CATATT
45648385 TATTTTATTTACATAT
1 TATTTTATTTACATAT
45648401 CAGTACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTTTATTTACATATT
Found at i:45651248 original size:40 final size:35
Alignment explanation
Indices: 45651163--45651330 Score: 196
Period size: 35 Copynumber: 4.7 Consensus size: 35
45651153 TTTCCTCATT
** *
45651163 GAAATACCATACCTACATTTTTCAACTCGGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* **
45651198 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
*
45651233 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ----GA-AATACCATACCTACATTTCACAACTCAGTATGG
45651272 GATAATACCATACCTACATTTCACAACTCAGTAT-G
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
*
45651307 GATATACCATACCTACATTTCACA
1 GAAATACCATACCTACATTTCACA
45651331 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 10, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
34 21 0.18
35 67 0.57
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:45651248 original size:75 final size:74
Alignment explanation
Indices: 45651161--45651330 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 74
45651151 GTTTTCCTCA
** * * **
45651161 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
45651225 CAGTATGGAT
65 CAGTATGGAT
*
45651235 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
45651300 CAGTATGGA-
65 CAGTATGGAT
45651309 -T---ATACCATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
45651331 CTTTGCCATG
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
69 21 0.24
73 1 0.01
74 7 0.08
75 58 0.67
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AGTATGGAT
Found at i:45658648 original size:35 final size:35
Alignment explanation
Indices: 45658604--45658770 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
45658594 TCCTCATTGA
** *
45658604 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
45658639 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
45658679 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
45658714 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
45658749 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
45658771 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:45658687 original size:75 final size:73
Alignment explanation
Indices: 45658599--45658770 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
45658589 GGTTTTCCTC
** * * **
45658599 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
45658663 TCAGTATGG
65 TCAGTATGG
*
45658672 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
45658737 CTCAGTATGG
64 CTCAGTATGG
45658747 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
45658771 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:45662990 original size:29 final size:30
Alignment explanation
Indices: 45662914--45662992 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
45662904 GATTGAATAA
* *
45662914 AAATTTAAGTTTCATATATACATTTAAACC
1 AAATTAAAGTTTCATATATACAATTAAACC
* * * *
45662944 ACAATCAAAGTTTAATATATATAATTACACC
1 A-AATTAAAGTTTCATATATACAATTAAACC
45662975 AAATTAAAG-TTCATATAT
1 AAATTAAAGTTTCATATAT
45662993 TAAACTACAT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 8 0.20
30 8 0.20
31 24 0.60
ACGTcount: A:0.47, C:0.13, G:0.04, T:0.37
Consensus pattern (30 bp):
AAATTAAAGTTTCATATATACAATTAAACC
Found at i:45663319 original size:31 final size:31
Alignment explanation
Indices: 45663278--45663342 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
45663268 CAGAATGGTT
* *
45663278 ATTGATCTATTTGAAAATTTTCATTTAAGTC
1 ATTGAACTATTTGAAAATTTTCATTTAAATC
* *
45663309 ATTGAACTATTTGAAAGTTTTTATTTAAATC
1 ATTGAACTATTTGAAAATTTTCATTTAAATC
45663340 ATT
1 ATT
45663343 AGCTGTTAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (31 bp):
ATTGAACTATTTGAAAATTTTCATTTAAATC
Found at i:45664601 original size:2 final size:2
Alignment explanation
Indices: 45664560--45664586 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45664550 TTTAAAGGTT
45664560 TA 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 TA T
45664587 TATTTTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45665742 original size:24 final size:24
Alignment explanation
Indices: 45665710--45665761 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
45665700 CTTAATTGGT
45665710 ACTTAAACTTGAAATTTCTTAAGC
1 ACTTAAACTTGAAATTTCTTAAGC
*
45665734 ACTTGAACTTGAAATTTCTTAAGC
1 ACTTAAACTTGAAATTTCTTAAGC
45665758 ACTT
1 ACTT
45665762 TGTTACATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (24 bp):
ACTTAAACTTGAAATTTCTTAAGC
Found at i:45668689 original size:26 final size:27
Alignment explanation
Indices: 45668653--45668706 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
45668643 AAGTAAATAT
*
45668653 TAATAATTTTATT-TAAATATAATTAAA
1 TAATAATTTTATTATAAATA-AATGAAA
45668680 TAATAA-TTTATTATAAATAAATGAAA
1 TAATAATTTTATTATAAATAAATGAAA
45668706 T
1 T
45668707 TTTGTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
TAATAATTTTATTATAAATAAATGAAA
Found at i:45679157 original size:37 final size:37
Alignment explanation
Indices: 45679116--45679202 Score: 111
Period size: 37 Copynumber: 2.4 Consensus size: 37
45679106 GTTATTGTTA
* *
45679116 ATCTCCGTCTTTTCTTTATAGAGAATTATCACTATTC
1 ATCTCCGTCTTTTCTTTACAGAGAATTATCACTATCC
* * * * *
45679153 ATCTCCATCTTTTCTTTGCATAGAATTATTACTGTCC
1 ATCTCCGTCTTTTCTTTACAGAGAATTATCACTATCC
45679190 ATCTCCGTCTTTT
1 ATCTCCGTCTTTT
45679203 GTCTTCCAGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.21, C:0.24, G:0.08, T:0.47
Consensus pattern (37 bp):
ATCTCCGTCTTTTCTTTACAGAGAATTATCACTATCC
Found at i:45679325 original size:21 final size:22
Alignment explanation
Indices: 45679300--45679358 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
45679290 ATAAATCTAA
45679300 GTTTTAAAAATTTTTAAATT-T
1 GTTTTAAAAATTTTTAAATTCT
* * *
45679321 GTTTTCAATATTTTTGAATTCT
1 GTTTTAAAAATTTTTAAATTCT
* * *
45679343 GATTTAACAATCTTTA
1 GTTTTAAAAATTTTTA
45679359 TTAATGTATT
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (22 bp):
GTTTTAAAAATTTTTAAATTCT
Found at i:45679578 original size:68 final size:68
Alignment explanation
Indices: 45679499--45679636 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
45679489 GGAAATATGA
45679499 AAACAAAAAGATGTTTTCTTTCCTTAGGAGAACCAACTTTTTTGCAACCTTTACCTCCAATCATT
1 AAACAAAAAGATGTTTTCTTTCCTTAGGAGAACCAACTTTTTTGCAACCTTTACCTCCAATCATT
45679564 CCC
66 CCC
45679567 AAACAAAAAGATGTTTTCTTTCCTTAGGAGAACCAACTTTTTTGCAACCTTTACCTCCAATCATT
1 AAACAAAAAGATGTTTTCTTTCCTTAGGAGAACCAACTTTTTTGCAACCTTTACCTCCAATCATT
45679632 CCC
66 CCC
45679635 AA
1 AA
45679637 GAGTGTGACC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.33
Consensus pattern (68 bp):
AAACAAAAAGATGTTTTCTTTCCTTAGGAGAACCAACTTTTTTGCAACCTTTACCTCCAATCATT
CCC
Found at i:45681413 original size:6 final size:6
Alignment explanation
Indices: 45681402--45681430 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
45681392 TGTTAGATGA
45681402 TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATAT
45681431 ATATTACATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:45681830 original size:20 final size:20
Alignment explanation
Indices: 45681805--45681851 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
45681795 TATTTAATAA
45681805 TATAATAACA-TTATTATTTT
1 TATAATAACATTTATTA-TTT
45681825 TATAATAACATTTATTATTT
1 TATAATAACATTTATTATTT
45681845 TATAATA
1 TATAATA
45681852 TTTCTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
TATAATAACATTTATTATTT
Found at i:45682286 original size:54 final size:54
Alignment explanation
Indices: 45682204--45682308 Score: 210
Period size: 54 Copynumber: 1.9 Consensus size: 54
45682194 GTGGGACAAG
45682204 TCTTATATTAGTTACTTACAATCCATTACATAGTTTATAGCATATTCAACAGCA
1 TCTTATATTAGTTACTTACAATCCATTACATAGTTTATAGCATATTCAACAGCA
45682258 TCTTATATTAGTTACTTACAATCCATTACATAGTTTATAGCATATTCAACA
1 TCTTATATTAGTTACTTACAATCCATTACATAGTTTATAGCATATTCAACA
45682309 ACTTCTATTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (54 bp):
TCTTATATTAGTTACTTACAATCCATTACATAGTTTATAGCATATTCAACAGCA
Found at i:45693309 original size:50 final size:48
Alignment explanation
Indices: 45693189--45693319 Score: 156
Period size: 50 Copynumber: 2.6 Consensus size: 48
45693179 TTATCGAGCC
** * *
45693189 CGATGCCATGTCCCAGACATAATCTTACACTAGCTTTCGTACTTACATG
1 CGATGCCATGTCCCAGACATGGTATTACACTAACTTTCGTAC-TACATG
*
45693238 CTGATGCCATGTCCCAGACATGGTATTACACTAACTCTTGCGTA-TCCATG
1 C-GATGCCATGTCCCAGACATGGTATTACACTAACT-TT-CGTACTACATG
*
45693288 TCGATGCCATGTCCCAGACATGGTTTTACACT
1 -CGATGCCATGTCCCAGACATGGTATTACACT
45693320 GACATATCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
49 1 0.01
50 64 0.89
51 3 0.04
52 4 0.06
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTATTACACTAACTTTCGTACTACATG
Found at i:45693354 original size:45 final size:45
Alignment explanation
Indices: 45693289--45693454 Score: 149
Period size: 45 Copynumber: 3.6 Consensus size: 45
45693279 GTATCCATGT
* * *
45693289 CGATGCCATGTCCCAGACATGGTTTTACACTGACATATCTCGTTGC
1 CGATGCCATGTCCCAAACAT-GTCTTACACTGACATATCTCGATGC
* * *
45693335 CGATG-CATGTCCCAAACATGTCTTACACTGGCTTAGTCTCGAGGC
1 CGATGCCATGTCCCAAACATGTCTTACACTGACATA-TCTCGATGC
* *** * *
45693380 CAATG-CATGTCCTGGACATGTCTTACACT-AGCACTCGTCTCAATGC
1 CGATGCCATGTCCCAAACATGTCTTACACTGA-CA-T-ATCTCGATGC
45693426 CGATGCCATGTCCCAAACATGGTCTTACA
1 CGATGCCATGTCCCAAACAT-GTCTTACA
45693455 TTGGCACACA
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
44 13 0.14
45 46 0.48
46 17 0.18
47 11 0.12
48 8 0.08
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
CGATGCCATGTCCCAAACATGTCTTACACTGACATATCTCGATGC
Found at i:45694192 original size:12 final size:12
Alignment explanation
Indices: 45694175--45694199 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45694165 CAAAAATGTA
45694175 AAAATCATCAAG
1 AAAATCATCAAG
45694187 AAAATCATCAAG
1 AAAATCATCAAG
45694199 A
1 A
45694200 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:45695489 original size:13 final size:13
Alignment explanation
Indices: 45695471--45695507 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
45695461 GGAAGGTAGA
*
45695471 GAGAAAAAAAATT
1 GAGAAAAAAAACT
45695484 GAGAAAAAAAACT
1 GAGAAAAAAAACT
45695497 GAGAAAAAAAA
1 GAGAAAAAAAA
45695508 GAAAATATGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.73, C:0.03, G:0.16, T:0.08
Consensus pattern (13 bp):
GAGAAAAAAAACT
Found at i:45695813 original size:21 final size:22
Alignment explanation
Indices: 45695789--45695838 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
45695779 CAATCAAGTT
45695789 AAAATTTTTTTAATAGG-TGAA
1 AAAATTTTTTTAATAGGTTGAA
**
45695810 AAAA-TAATTTAATAGGTTGAA
1 AAAATTTTTTTAATAGGTTGAA
*
45695831 AATATTTT
1 AAAATTTT
45695839 AATTGGTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
20 10 0.45
21 11 0.50
22 1 0.05
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (22 bp):
AAAATTTTTTTAATAGGTTGAA
Found at i:45695834 original size:19 final size:19
Alignment explanation
Indices: 45695797--45695841 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
45695787 TTAAAATTTT
45695797 TTTAATAGGTGAAAAAATAA
1 TTTAATAGGTG-AAAAATAA
*
45695817 TTTAATAGGTTG-AAAATAT
1 TTTAATAGG-TGAAAAATAA
45695836 TTTAAT
1 TTTAAT
45695842 TGGTATTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTAATAGGTGAAAAATAA
Found at i:45699076 original size:46 final size:46
Alignment explanation
Indices: 45699026--45699198 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
45699016 TGGTTGAGCA
*
45699026 TCCGAACTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
45699072 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATG
* *
45699120 T-CGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
45699165 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
45699199 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 59 0.57
47 30 0.29
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:45699187 original size:93 final size:93
Alignment explanation
Indices: 45699023--45699193 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
45699013 GGATGGTTGA
* * *
45699023 GCATCCGAACTCGTTGAGTTGGGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
45699088 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
45699116 GCATTCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
45699180 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
45699194 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:45718173 original size:6 final size:6
Alignment explanation
Indices: 45718150--45718182 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
45718140 TTATTTATTG
45718150 AAATAA AAA-AA TAAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA -AAATAA AAATAA AAATAA AAA
45718183 ACTAATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 2 0.08
6 21 0.84
7 2 0.08
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:45719080 original size:30 final size:30
Alignment explanation
Indices: 45719044--45719142 Score: 189
Period size: 30 Copynumber: 3.3 Consensus size: 30
45719034 TAGGTACAAG
*
45719044 TGGTGGTGGAGCAAGTGTGGCTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
45719074 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
45719104 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
1 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
45719134 TGGTGGTGG
1 TGGTGGTGG
45719143 CAAAGGCTAG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 68 1.00
ACGTcount: A:0.15, C:0.04, G:0.52, T:0.29
Consensus pattern (30 bp):
TGGTGGTGGAGCAAGTGTGGTTAGTGGAGT
Found at i:45719102 original size:18 final size:18
Alignment explanation
Indices: 45719079--45719132 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
45719069 GGAGTTGGTG
45719079 GTGGAGCAAGTGTGGTTA
1 GTGGAGCAAGTGTGGTTA
*
45719097 GT-G-G--AGT-TGG-TG
1 GTGGAGCAAGTGTGGTTA
45719109 GTGGAGCAAGTGTGGTTA
1 GTGGAGCAAGTGTGGTTA
45719127 GTGGAG
1 GTGGAG
45719133 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 4 0.14
14 4 0.14
16 4 0.14
17 4 0.14
18 9 0.32
ACGTcount: A:0.19, C:0.04, G:0.50, T:0.28
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGTTA
Found at i:45720033 original size:17 final size:17
Alignment explanation
Indices: 45720011--45720044 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
45720001 TTAATTTTTG
*
45720011 AAAATATAAATTGAAAA
1 AAAATAAAAATTGAAAA
45720028 AAAATAAAAATTGAAAA
1 AAAATAAAAATTGAAAA
45720045 TACCTCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAATAAAAATTGAAAA
Found at i:45720121 original size:16 final size:16
Alignment explanation
Indices: 45720100--45720133 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
45720090 TTGATTTTTG
*
45720100 AAAAATATAAATTGAA
1 AAAAATAGAAATTGAA
45720116 AAAAATAGAAATTGAA
1 AAAAATAGAAATTGAA
45720132 AA
1 AA
45720134 TATCTCCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (16 bp):
AAAAATAGAAATTGAA
Found at i:45720178 original size:89 final size:89
Alignment explanation
Indices: 45719972--45720208 Score: 307
Period size: 89 Copynumber: 2.6 Consensus size: 89
45719962 CATATGCCCC
* * *
45719972 GAGGCTCAACTCATCTCTCGCAATATGAATTAATTTTTG-AAAATATAAATTGAAAAAAAATAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTG-AAAAAAATAAA
** *
45720036 AATTGAAAATACCTCAGTGTGTCTT
65 AATTGAAAATACCTCAGCATGTCCT
* *
45720061 GAGGCTAAACTCACCT-TGCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAATAGA
1 GAGGCTCAACTCACCTCT-CGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAATAAA
* *
45720125 AATTGAAAATATCTCCGCATGTCCT
65 AATTGAAAATACCTCAGCATGTCCT
* * *
45720150 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAACTTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-TTTTGAAAAATATAAATTGAAAA
45720209 GCACCTCAGC
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
88 1 0.01
89 93 0.72
90 15 0.12
91 20 0.16
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (89 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAATAAAA
ATTGAAAATACCTCAGCATGTCCT
Found at i:45720317 original size:73 final size:73
Alignment explanation
Indices: 45720122--45720640 Score: 722
Period size: 73 Copynumber: 7.1 Consensus size: 73
45720112 TGAAAAAAAT
* * * * *
45720122 AGAAATTGAAAATATCTCCGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTCT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-T
*
45720187 TTTGA-AAAGT
64 TTTGACAAA-C
* ** * *
45720197 AGAACTTGAAAAGCACCTCAGCGTGCCCTGAGGCTCAACTCATCTCTCGTAATATGAGTTGATTT
1 AGAAATTG-AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
45720262 TTGACAAAC
65 TTGACAAAC
45720271 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG-TGTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
45720335 TTGACAAAC
65 TTGACAAAC
* *
45720344 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAGTATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
45720409 TGACAAAC
66 TGACAAAC
* * * *
45720417 AGAAATTGAAATTACATCAGCGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG-TGTC
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TT
45720481 TTGACAAAC
65 TTGACAAAC
*
45720490 AGAAATTGAAATTACCTCAGCGTTCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
45720555 TGACAAAC
66 TGACAAAC
* * * * ** *
45720563 AGAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTT
1 AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
45720628 TGA-AAAT
66 TGACAAAC
45720635 AGAAAT
1 AGAAAT
45720641 AAAAACATCA
Statistics
Matches: 401, Mismatches: 37, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
72 11 0.03
73 319 0.80
74 15 0.04
75 11 0.03
76 45 0.11
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (73 bp):
AGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGACAAAC
Found at i:45732412 original size:74 final size:75
Alignment explanation
Indices: 45732264--45732429 Score: 204
Period size: 74 Copynumber: 2.3 Consensus size: 75
45732254 GCAAAGTGTG
** *
45732264 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
* **
45732324 CTGAGCTGTG
66 CCGAGCTGAA
45732334 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAATGTAGGTATGGCATT-TCCCAT
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTAT-CCAT
*
45732397 ACCGAGTTGAA
65 ACCGAGCTGAA
45732408 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
45732430 TGAGGAAAAC
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
70 14 0.17
73 9 0.11
74 46 0.55
75 14 0.17
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTGAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:45732427 original size:35 final size:35
Alignment explanation
Indices: 45732264--45732427 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
45732254 GCAAAGTGTG
* **
45732264 AAATGTAGGTATGGTATCAT-CCATACTGAGTTGTG
1 AAATGTAGGTATGGTAT-TTCCCATACTGAGTTGAA
* **
45732299 AAATGTAGGTATGGTATTAT-CCATACTGAGCTGTG
1 AAATGTAGGTATGGTATT-TCCCATACTGAGTTGAA
45732334 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AA
1 AAATGTAGGTATGGTATT-TC----CCATACTGAGTTGAA
* *
45732373 AAATGTAGGTATGGCATTTCCCATACCGAGTTGAA
1 AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
45732408 AAATGTAGGTATGGTATTTC
1 AAATGTAGGTATGGTATTTC
45732428 AATGAGGAAA
Statistics
Matches: 114, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
34 11 0.10
35 73 0.64
38 2 0.02
39 17 0.15
40 11 0.10
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.34
Consensus pattern (35 bp):
AAATGTAGGTATGGTATTTCCCATACTGAGTTGAA
Found at i:45735547 original size:74 final size:73
Alignment explanation
Indices: 45735408--45735563 Score: 294
Period size: 74 Copynumber: 2.1 Consensus size: 73
45735398 TTTACAGCTC
45735408 GAAAATTGATTCGGAAAGGTAATAAAGCATTTCAGCTTATATTCTTGATACTCGGGGTTCTGAAT
1 GAAAATTGATTCGGAAAGGTAATAAAGCATTTCAGCTTATATTCTTGATACTCGGGGTTCTGAAT
45735473 TGAAGATG
66 TGAAGATG
45735481 GAAAATTGATTCGGAAAGGTAATAAAGCATTTCTAGCTTATATTCTTGATACTCGGGGTTCTGAA
1 GAAAATTGATTCGGAAAGGTAATAAAGCATTTC-AGCTTATATTCTTGATACTCGGGGTTCTGAA
45735546 TTGAAGATG
65 TTGAAGATG
45735555 GAACAATTG
1 GAA-AATTG
45735564 TCAGTTGTTA
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
73 33 0.41
74 43 0.53
75 5 0.06
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (73 bp):
GAAAATTGATTCGGAAAGGTAATAAAGCATTTCAGCTTATATTCTTGATACTCGGGGTTCTGAAT
TGAAGATG
Found at i:45739909 original size:35 final size:35
Alignment explanation
Indices: 45739818--45739981 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
45739808 CATGGCAAAG
* *
45739818 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
45739853 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
* *
45739888 TGTGAAATGTAGGTATGGTATTATCAAATCCAT-A-C
1 TGTGAAATGTAGGTATGGTATTATC-CATAC-TGAGC
* * * *
45739923 TGAGAAAAATGTAGGTATGGCATT-TCCCATACCGAGT
1 TGTG--AAATGTAGGTATGGTATTAT-CCATACTGAGC
**
45739960 TGAAAAATGTAGGTATGGTATT
1 TGTGAAATGTAGGTATGGTATT
45739982 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
35 79 0.72
36 9 0.08
37 22 0.20
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
Found at i:45747111 original size:40 final size:40
Alignment explanation
Indices: 45747045--45747195 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
45747035 AAATTGAATG
* *
45747045 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
45747084 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
45747124 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
45747164 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
45747196 ACGTGGTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
39 16 0.18
40 72 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:45747209 original size:40 final size:40
Alignment explanation
Indices: 45747082--45747211 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
45747072 ATGCTGGAAA
* * *
45747082 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
45747122 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
45747162 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
45747202 TTATATCCGG
1 TTATATCCGG
45747212 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:45747210 original size:80 final size:79
Alignment explanation
Indices: 45747045--45747211 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
45747035 AAATTGAATG
*
45747045 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
45747110 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * * * *
45747124 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
45747187 CATTTGTGC-ACGTGGTT
63 CAATTGTGCTA-GTGGCT
45747204 ATATCCGG
1 ATATCCGG
45747212 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
79 18 0.24
80 57 0.76
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:45750005 original size:16 final size:16
Alignment explanation
Indices: 45749984--45750023 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
45749974 TTGGACTAAA
45749984 TTGAATGAAAATATGT
1 TTGAATGAAAATATGT
45750000 TTGAATGAAAATATGT
1 TTGAATGAAAATATGT
45750016 TTGAATGA
1 TTGAATGA
45750024 GCTTAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.20, T:0.38
Consensus pattern (16 bp):
TTGAATGAAAATATGT
Found at i:45752626 original size:50 final size:49
Alignment explanation
Indices: 45752490--45752629 Score: 183
Period size: 50 Copynumber: 2.8 Consensus size: 49
45752480 TCTGATATGT
* * *
45752490 ATAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAATCTGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACTC-ACAATCTGATACAC
* **
45752539 GTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCGTCTGATACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-CTCACAATCTGATACAC
*
45752589 ATAGTAGCCTGCACTTAGTACTACATACGTGTACTCACAAT
1 ATAGTAGCCTGCACTTAGTACTACACACGTG-ACTCACAAT
45752630 GGGTCATTCG
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
49 29 0.37
50 47 0.60
51 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
ATAGTAGCCTGCACTTAGTACTACACACGTGACTCACAATCTGATACAC
Found at i:45764321 original size:2 final size:2
Alignment explanation
Indices: 45764314--45764345 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45764304 CATTTTAACT
45764314 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45764346 CACAAATCAT
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):
TA
Found at i:45769688 original size:50 final size:50
Alignment explanation
Indices: 45769571--45769800 Score: 250
Period size: 50 Copynumber: 4.6 Consensus size: 50
45769561 CTGATACGCA
* * * **
45769571 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
*
45769620 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
* * * * * *
45769670 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTCAT-TGAATACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTG-GTACACG
* * * * *
45769721 TAGTAGCCTGCACTTAGTACTACAGATGCGACTTAA-CAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGGTACACG
*
45769771 TAGTAGCCTGCACTTAGTACTACAGACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
45769801 TACTCACAAT
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
49 33 0.22
50 80 0.53
51 39 0.26
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGGTACACG
Found at i:45772199 original size:19 final size:20
Alignment explanation
Indices: 45772171--45772217 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
45772161 AAGAACATGT
45772171 TATATAATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
45772192 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
45772211 TATATAT
1 TATATAT
45772218 ACGTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:45772480 original size:29 final size:29
Alignment explanation
Indices: 45772438--45772494 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
45772428 CAAAAATCAT
* *
45772438 ACTTTTACAAATTTACATTTTGACCCTAA
1 ACTTTCACAAATTTACAATTTGACCCTAA
* * *
45772467 ACTTTCACATATTTTCAATTTGGCCCTA
1 ACTTTCACAAATTTACAATTTGACCCTA
45772495 GGCTCGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (29 bp):
ACTTTCACAAATTTACAATTTGACCCTAA
Found at i:45775876 original size:27 final size:29
Alignment explanation
Indices: 45775846--45775961 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
45775836 AACGCAAGAG
*
45775846 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
45775873 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
45775902 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
45775932 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
45775961 T
1 T
45775962 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:45775914 original size:30 final size:29
Alignment explanation
Indices: 45775859--45775961 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
45775849 ATAGTGAATC
45775859 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45775888 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
45775918 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45775947 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45775962 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:45775935 original size:59 final size:60
Alignment explanation
Indices: 45775858--45775991 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
45775848 TATAGTGAAT
* * *
45775858 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
45775917 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
45775977 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45775992 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:45779505 original size:40 final size:40
Alignment explanation
Indices: 45779402--45779568 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
45779392 AAATTGAATG
* * * * *
45779402 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
***
45779442 ATATCCGGG-TAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
* *
45779481 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAATT
* * *
45779521 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTA-GTAATT
45779561 ATATCCGG
1 ATATCCGG
45779569 TTATATTCCA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 35 0.33
40 70 0.65
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAATT
Found at i:45786479 original size:40 final size:40
Alignment explanation
Indices: 45786412--45786579 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
45786402 AAATTGAATG
* * *
45786412 ATATCCGGGCTAAG-CCCTGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCC-GAAGGCAATTGTGCTGGTAATT
* * ***
45786452 ATATCCGGGCTATGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
45786492 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
45786532 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
45786572 ATATCCGG
1 ATATCCGG
45786580 TTATATTCCA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
39 3 0.03
40 97 0.92
41 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:45792703 original size:27 final size:29
Alignment explanation
Indices: 45792673--45792788 Score: 110
Period size: 29 Copynumber: 4.0 Consensus size: 29
45792663 AACGCAAGAG
*
45792673 TATATA-GTGAATC-CGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
45792700 TATATATTTTCAGCTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
* **
45792729 TATATAATTTTCAGCTCGCACACTTAGTGC
1 TATAT-ATGTGAAGCTCGCACACTTAGTGC
* ** *
45792759 TATATATTTTCAGTTCGCACACTTAGTGC
1 TATATATGTGAAGCTCGCACACTTAGTGC
45792788 T
1 T
45792789 GTACAATTTT
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 6 0.07
28 3 0.04
29 43 0.53
30 29 0.36
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (29 bp):
TATATATGTGAAGCTCGCACACTTAGTGC
Found at i:45792741 original size:30 final size:29
Alignment explanation
Indices: 45792686--45792788 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
45792676 ATAGTGAATC
45792686 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45792715 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
*
45792745 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
45792774 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45792789 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:45792762 original size:59 final size:60
Alignment explanation
Indices: 45792685--45792818 Score: 207
Period size: 59 Copynumber: 2.2 Consensus size: 60
45792675 TATAGTGAAT
* * *
45792685 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA-TTTTCAGC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
* * *
45792744 TCGCACACTTAGTGCTATATATTTTCAGTTCGCACACTTAGTGCTGTACAATTTTTAAAC
1 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
45792804 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45792819 CAATCTTGTC
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
59 47 0.70
60 20 0.30
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.35
Consensus pattern (60 bp):
CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATACAATTTTTAAAC
Found at i:45805377 original size:47 final size:47
Alignment explanation
Indices: 45805314--45805749 Score: 692
Period size: 47 Copynumber: 9.3 Consensus size: 47
45805304 CCCTTCGGGA
* * *
45805314 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
45805361 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
45805408 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
45805455 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
45805502 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
45805549 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGG
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
45805596 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
45805643 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
45805690 CTTGTCACATATATACACTTTCACATTCATCACATTGGTCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
45805737 CTTATCACATATA
1 CTTATCACATATA
45805750 CATATCTTGT
Statistics
Matches: 356, Mismatches: 33, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 356 1.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:45807759 original size:28 final size:28
Alignment explanation
Indices: 45807719--45807871 Score: 96
Period size: 28 Copynumber: 5.5 Consensus size: 28
45807709 AAACGAAATC
45807719 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * * * **
45807747 CGCACACATAGTGCTCAGTTAAAGGAT-T
1 CGCACACACAGTGCCCA-CTGACCGATCT
*
45807775 CGCACACACAGTGTCCAC-GACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* * * ** * **
45807802 CGCACAGATAGTGCTCGGTTAAAGAAT-T
1 CGCACACACAGTGCCCACTGACCG-ATCT
* *
45807830 TGCACACACAGTGTCCACTGACCGATCT
1 CGCACACACAGTGCCCACTGACCGATCT
* *
45807858 CTCACACATAGTGC
1 CGCACACACAGTGC
45807872 TCGGTTAAAG
Statistics
Matches: 84, Mismatches: 36, Indels: 10
0.65 0.28 0.08
Matches are distributed among these distances:
26 4 0.05
27 15 0.18
28 58 0.69
29 7 0.08
ACGTcount: A:0.28, C:0.32, G:0.20, T:0.20
Consensus pattern (28 bp):
CGCACACACAGTGCCCACTGACCGATCT
Found at i:45807780 original size:56 final size:56
Alignment explanation
Indices: 45807719--45807900 Score: 303
Period size: 56 Copynumber: 3.3 Consensus size: 56
45807709 AAACGAAATC
* * *
45807719 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCAGTTAAAGGATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
45807775 CGCACACACAGTGTCCAC-GACCGATCTCGCACAGATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
* *
45807830 TGCACACACAGTGTCCACTGACCGATCTCTCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
45807886 CGCACACACAGTGTC
1 CGCACACACAGTGTC
45807901 TCAATTCATT
Statistics
Matches: 117, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
55 51 0.44
56 66 0.56
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:45807917 original size:25 final size:25
Alignment explanation
Indices: 45807883--45807938 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
45807873 CGGTTAAAGA
* *
45807883 ATTCGCACACACAGTGTCTCA-ATTC
1 ATTCGTACACACAGTGCCT-ATATTC
*
45807908 ATTCGTACACATAGTGCCTATATTC
1 ATTCGTACACACAGTGCCTATATTC
45807933 ATTCGT
1 ATTCGT
45807939 TATTACACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (25 bp):
ATTCGTACACACAGTGCCTATATTC
Found at i:45808166 original size:40 final size:40
Alignment explanation
Indices: 45808106--45808247 Score: 250
Period size: 40 Copynumber: 3.6 Consensus size: 40
45808096 CACATCATCC
* * *
45808106 GCACGAATGCCCTTCAGGACTTAGCCCAGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
45808146 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
45808186 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACC-
1 GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
45808225 GCACGAATGCTCTTCGGGACTTA
1 GCACGAATGCTCTTCGGGACTTA
45808248 ACCTGGATCA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 23 0.23
40 76 0.77
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.20
Consensus pattern (40 bp):
GCACGAATGCTCTTCGGGACTTAGCCCGGATGTAACACCA
Found at i:45808429 original size:38 final size:38
Alignment explanation
Indices: 45808343--45808461 Score: 195
Period size: 38 Copynumber: 3.2 Consensus size: 38
45808333 TAGCCATCGA
* *
45808343 TCTTTACCCGGGCATAATCTCCACATATAGTCATC-GG
1 TCTTTACCCGGACACAATCTCCACATATAGTCATCGGG
45808380 TCTTTACCCGGACACAATCTCCACATATAGTCATCGGG
1 TCTTTACCCGGACACAATCTCCACATATAGTCATCGGG
* *
45808418 TCTTTACCCGGACACAATCTCTACTTATAGTCATCGGG
1 TCTTTACCCGGACACAATCTCCACATATAGTCATCGGG
45808456 TCTTTA
1 TCTTTA
45808462 AGCCCGGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
37 33 0.43
38 44 0.57
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.31
Consensus pattern (38 bp):
TCTTTACCCGGACACAATCTCCACATATAGTCATCGGG
Found at i:45810464 original size:47 final size:47
Alignment explanation
Indices: 45810395--45810834 Score: 704
Period size: 47 Copynumber: 9.4 Consensus size: 47
45810385 ACAAATGCCC
* * *
45810395 TTCGGACTTATCACATTTATACACTTTCACATCCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
45810442 TTCGGCCTTATCACATATATACACCTTCACATCCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
45810489 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
45810536 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
45810583 TT-AGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
45810629 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* * *
45810676 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
*
45810723 TT-GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
* *
45810769 TTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
45810816 TTCGGCCTTATCACATATA
1 TTCGGCCTTATCACATATA
45810835 CATATCTTGT
Statistics
Matches: 362, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 86 0.24
47 276 0.76
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCA
Found at i:45810648 original size:140 final size:140
Alignment explanation
Indices: 45810395--45810834 Score: 727
Period size: 140 Copynumber: 3.1 Consensus size: 140
45810385 ACAAATGCCC
* * *
45810395 TTCGGACTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATAT
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATT-GGCCTTATCACATAT
* * * *
45810460 ATACACCTTCACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCAT
65 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
45810525 CACATTGGCCA
130 CACATTGGCCA
* * *
45810536 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTTGTCACATATA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATA
* *
45810601 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
45810666 ACATTGGCCA
131 ACATTGGCCA
* * *
45810676 TTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATA
1 TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATA
*
45810741 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATC
66 TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
45810806 ACATTGGCCA
131 ACATTGGCCA
45810816 TTCGGCCTTATCACATATA
1 TTCGGCCTTATCACATATA
45810835 CATATCTTGT
Statistics
Matches: 275, Mismatches: 24, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
140 230 0.84
141 45 0.16
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.34
Consensus pattern (140 bp):
TTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTGGCCTTATCACATATA
TACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
ACATTGGCCA
Found at i:45810779 original size:187 final size:187
Alignment explanation
Indices: 45810405--45810834 Score: 799
Period size: 187 Copynumber: 2.3 Consensus size: 187
45810395 TTCGGACTTA
* *
45810405 TCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTC
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTC
45810470 ACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCC
66 ACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCC
45810535 ATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTTG
131 ATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTTG
*
45810592 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTC
* *
45810657 ACATTCATCACATTGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCC
66 ACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCC
45810722 ATT-GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTG
131 ATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA-GCCTTG
45810779 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
1 TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA
45810835 CATATCTTGT
Statistics
Matches: 237, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
186 47 0.20
187 190 0.80
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (187 bp):
TCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTC
ACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATTCATCACATTGGCC
ATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGCCTTG
Found at i:45819986 original size:39 final size:40
Alignment explanation
Indices: 45819810--45819972 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
45819800 TTGAATGATA
* * *
45819810 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
45819850 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
45819890 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
45819930 CCGGGTTAAGA-CCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
45819969 CCGG
1 CCGG
45819973 TTAAATCCCG
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
39 28 0.27
40 69 0.68
41 5 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:45827875 original size:40 final size:40
Alignment explanation
Indices: 45827820--45827983 Score: 188
Period size: 40 Copynumber: 4.1 Consensus size: 40
45827810 TGAATGATAC
* * *
45827820 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
45827860 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * ** *
45827900 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
45827940 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
45827980 CCGG
1 CCGG
45827984 TTAAATCCCG
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
39 3 0.03
40 95 0.92
41 5 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:45829935 original size:9 final size:9
Alignment explanation
Indices: 45829908--45829944 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
45829898 AAATAGGCAT
45829908 ATTAAACAC
1 ATTAAACAC
45829917 ATTTAAACAC
1 A-TTAAACAC
*
45829927 ATAAAACAC
1 ATTAAACAC
45829936 ATTAAACAC
1 ATTAAACAC
45829945 TCAACTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (9 bp):
ATTAAACAC
Found at i:45835359 original size:2 final size:2
Alignment explanation
Indices: 45835352--45835384 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45835342 GAGACTAGTC
45835352 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45835385 CATGTCATGA
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45839542 original size:27 final size:27
Alignment explanation
Indices: 45839511--45839625 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
45839501 TAGTTTACCA
* *
45839511 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
45839538 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
45839565 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
45839592 AATTACCGAGATA-CCCTCGTGGGGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
45839619 AATTACC
1 AATTACC
45839626 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
26 4 0.05
27 72 0.95
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:45839751 original size:15 final size:15
Alignment explanation
Indices: 45839731--45839761 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
45839721 GTTAGTGATT
45839731 GATTGTAGGATTATC
1 GATTGTAGGATTATC
45839746 GATTGTAGGATTATC
1 GATTGTAGGATTATC
45839761 G
1 G
45839762 CGTGGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.39
Consensus pattern (15 bp):
GATTGTAGGATTATC
Found at i:45840564 original size:6 final size:6
Alignment explanation
Indices: 45840526--45840655 Score: 70
Period size: 6 Copynumber: 21.2 Consensus size: 6
45840516 TGCATTCACG
* * *
45840526 TTCTGA TTTTGA TTCTG- TTACCTGA TACTGA TTCTGA TTCTAA TTCTG-
1 TTCTGA TTCTGA TTCTGA TT--CTGA TTCTGA TTCTGA TTCTGA TTCTGA
* * * * *
45840574 TCACCTAA TTCTGA TTCTTA TTCTGA TTCTGA TTCTG- TCACCTGA TTTTGA
1 T--TCTGA TTCTGA TTCTGA TTCTGA TTCTGA TTCTGA T--TCTGA TTCTGA
* * *
45840625 TTTTGA TTCTCA TTTTGA TTCT-A GTTCTGA T
1 TTCTGA TTCTGA TTCTGA TTCTGA -TTCTGA T
45840656 AATGTTTCTT
Statistics
Matches: 93, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 5 0.05
6 76 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.51
Consensus pattern (6 bp):
TTCTGA
Found at i:45840564 original size:31 final size:31
Alignment explanation
Indices: 45840526--45840604 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
45840516 TGCATTCACG
*
45840526 TTCTGATTTTGATTCTGTTACCTGATACTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
* * * *
45840557 TTCTGATTCTAATTCTGTCACCTAATTCTGA
1 TTCTGATTCTGATTCTGTTACCTGATACTGA
*
45840588 TTCTTATTCTGATTCTG
1 TTCTGATTCTGATTCTG
45840605 ATTCTGTCAC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTTACCTGATACTGA
Found at i:45840619 original size:31 final size:31
Alignment explanation
Indices: 45840526--45840634 Score: 94
Period size: 31 Copynumber: 3.3 Consensus size: 31
45840516 TGCATTCACG
* * * *
45840526 TTCTGATTTTGATTCTGTTACCTGATACTGA
1 TTCTGATTCTGATTCTGTCACCTGATTCTTA
*
45840557 TTCTGATTCTAATTCTGTCACCTAATTCTGATTCTTA
1 TTCTGATTCTGATTCTGTCA-C-----CTGATTCTTA
45840594 TTCTGATTCTGATTCTGTCACCTGATT-TTGA
1 TTCTGATTCTGATTCTGTCACCTGATTCTT-A
*
45840625 TTTTGATTCT
1 TTCTGATTCT
45840635 CATTTTGATT
Statistics
Matches: 64, Mismatches: 7, Indels: 14
0.75 0.08 0.16
Matches are distributed among these distances:
30 2 0.03
31 33 0.52
32 1 0.02
36 1 0.02
37 27 0.42
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.50
Consensus pattern (31 bp):
TTCTGATTCTGATTCTGTCACCTGATTCTTA
Found at i:45840644 original size:37 final size:38
Alignment explanation
Indices: 45840554--45840646 Score: 127
Period size: 37 Copynumber: 2.5 Consensus size: 38
45840544 TACCTGATAC
*
45840554 TGATTCTGATTCTAATTCTGTCACCTAATTCTGATTCT
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCT
* *
45840592 T-ATTCTGATTCTGATTCTGTCACCTGATTTTGATT-T
1 TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCT
* *
45840628 TGATTCTCATTTTGATTCT
1 TGATTCTGATTCTGATTCT
45840647 AGTTCTGATA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 2 0.04
37 46 0.94
38 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (38 bp):
TGATTCTGATTCTGATTCTGTCACCTAATTCTGATTCT
Found at i:45841688 original size:30 final size:30
Alignment explanation
Indices: 45841647--45841708 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
45841637 AAGTTCTAGT
45841647 TGAACTGTGATAGTGATAGTAGGATCAGAG
1 TGAACTGTGATAGTGATAGTAGGATCAGAG
*
45841677 TGAAGTGTGATAGTGATAGTAGGATCAGAG
1 TGAACTGTGATAGTGATAGTAGGATCAGAG
45841707 TG
1 TG
45841709 CGCAGCGGTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.32, C:0.05, G:0.35, T:0.27
Consensus pattern (30 bp):
TGAACTGTGATAGTGATAGTAGGATCAGAG
Done.