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 226 of 325
Found at i:70382322 original size:13 final size:13
Alignment explanation
Indices: 70382292--70382323 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
70382282 CTAAAATTAT
*
70382292 TGGGCCTTGAGTA
1 TGGGTCTTGAGTA
70382305 TGGGTCTTGAGTA
1 TGGGTCTTGAGTA
70382318 TGGGTC
1 TGGGTC
70382324 CGTAAAAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.41, T:0.34
Consensus pattern (13 bp):
TGGGTCTTGAGTA
Found at i:70384061 original size:27 final size:27
Alignment explanation
Indices: 70384031--70384083 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
70384021 GCATCTAATA
*
70384031 CTGATTCTG-TACTGGGCTTAGGCCCAC
1 CTGATTCTGTTAATGGGC-TAGGCCCAC
70384058 CTGATTCTGTTAATGGGCTAGGCCCA
1 CTGATTCTGTTAATGGGCTAGGCCCA
70384084 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (27 bp):
CTGATTCTGTTAATGGGCTAGGCCCAC
Found at i:70384874 original size:62 final size:63
Alignment explanation
Indices: 70384803--70384937 Score: 254
Period size: 62 Copynumber: 2.1 Consensus size: 63
70384793 AGATTGACTA
70384803 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG-
1 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAGT
70384865 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAGT
1 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAGT
70384928 TCAAGTACCA
1 TCAA-TACCA
70384938 CATACGTACT
Statistics
Matches: 71, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 62 0.87
63 4 0.06
64 5 0.07
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (63 bp):
TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAGT
Found at i:70394482 original size:21 final size:22
Alignment explanation
Indices: 70394456--70394497 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
70394446 CACTTAACAC
*
70394456 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACACCCGTGTGAG
*
70394477 AGGGGCAACACATCCGTGTGA
1 AGGGGCAACACACCCGTGTGA
70394498 CCATTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.26, G:0.38, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGAG
Found at i:70404431 original size:16 final size:16
Alignment explanation
Indices: 70404410--70404452 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
70404400 TAATCAAATT
70404410 ACAAGAATATTTAATA
1 ACAAGAATATTTAATA
70404426 ACAAG-A-ATTTAATA
1 ACAAGAATATTTAATA
*
70404440 ATAA-AATATTTAA
1 ACAAGAATATTTAA
70404453 ACATCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ACAAGAATATTTAATA
Found at i:70404803 original size:7 final size:7
Alignment explanation
Indices: 70404770--70404822 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
70404760 TTATAAAATA
70404770 AAAG-AC
1 AAAGAAC
*
70404776 AAAGAAT
1 AAAGAAC
*
70404783 AAAGAAT
1 AAAGAAC
70404790 AAAGAAC
1 AAAGAAC
70404797 AAAGAAC
1 AAAGAAC
*
70404804 AACGAAC
1 AAAGAAC
*
70404811 AAAAAAC
1 AAAGAAC
70404818 AAAGA
1 AAAGA
70404823 GAATGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.72, C:0.11, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAGAAC
Found at i:70408230 original size:10 final size:10
Alignment explanation
Indices: 70408202--70408262 Score: 77
Period size: 10 Copynumber: 6.0 Consensus size: 10
70408192 CTTAAATTCC
70408202 AAAAGATAAAT
1 AAAA-ATAAAT
* *
70408213 ACAAATAATT
1 AAAAATAAAT
*
70408223 AAATATAAAT
1 AAAAATAAAT
*
70408233 AAAGATAAAT
1 AAAAATAAAT
70408243 AAAAATAAAT
1 AAAAATAAAT
70408253 AAAAATAAAT
1 AAAAATAAAT
70408263 CCTAAAATTG
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
10 40 0.93
11 3 0.07
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:70408238 original size:30 final size:30
Alignment explanation
Indices: 70408203--70408262 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
70408193 TTAAATTCCA
* * *
70408203 AAAGATAAATACAAATAATTAAATATAAAT
1 AAAGATAAATAAAAATAAATAAAAATAAAT
70408233 AAAGATAAATAAAAATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAATAAAAATAAAT
70408263 CCTAAAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.72, C:0.02, G:0.03, T:0.23
Consensus pattern (30 bp):
AAAGATAAATAAAAATAAATAAAAATAAAT
Found at i:70408258 original size:16 final size:16
Alignment explanation
Indices: 70408223--70408261 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
70408213 ACAAATAATT
* *
70408223 AAATATAAATAAAGAT
1 AAATAAAAATAAAGAA
*
70408239 AAATAAAAATAAATAA
1 AAATAAAAATAAAGAA
70408255 AAATAAA
1 AAATAAA
70408262 TCCTAAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAATAAAAATAAAGAA
Found at i:70417155 original size:17 final size:18
Alignment explanation
Indices: 70417113--70417161 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
70417103 AGTTGAAAAG
70417113 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
70417132 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
70417149 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
70417162 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:70418049 original size:40 final size:40
Alignment explanation
Indices: 70417983--70418149 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
70417973 AAATTGAATG
* * *
70417983 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
70418022 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
70418062 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
70418102 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
70418142 ATATCCGG
1 ATATCCGG
70418150 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:70425157 original size:17 final size:18
Alignment explanation
Indices: 70425115--70425163 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
70425105 AGTTGAAAAG
70425115 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
70425134 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
70425151 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
70425164 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:70426052 original size:40 final size:40
Alignment explanation
Indices: 70425986--70426152 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
70425976 AAATTGAATG
* * *
70425986 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
70426025 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
70426065 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
70426105 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
70426145 ATATCCGG
1 ATATCCGG
70426153 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:70433606 original size:40 final size:40
Alignment explanation
Indices: 70433551--70433702 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
70433541 GGATATAATT
* * *
70433551 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
70433591 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
70433631 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
70433671 ACTCACGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
70433703 TTATCATCCA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:70441666 original size:40 final size:40
Alignment explanation
Indices: 70441563--70441713 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
70441553 GGATATAATT
* * *
70441563 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
70441603 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
70441642 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
70441682 ACTCGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
70441714 TTATCATCCA
Statistics
Matches: 104, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 34 0.33
40 70 0.67
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:70441682 original size:79 final size:80
Alignment explanation
Indices: 70441563--70441713 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 80
70441553 GGATATAATT
*
70441563 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACA-ATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAGATGCCTTCGGGACTT
70441627 AGCCCGGATTTAGTA
66 AGCCCGGATTTAGTA
* * *
70441642 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCGCAGATGCCTTCGGGACT
1 ACTCGCACAAATGCCTTCGGGACATAGCCCGG-TTAGAGTAACTCGCACAGATGCCTTCGGGACT
70441706 TAGCCCGG
65 TAGCCCGG
70441714 TTATCATCCA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
79 42 0.64
80 24 0.36
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (80 bp):
ACTCGCACAAATGCCTTCGGGACATAGCCCGGTTAGAGTAACTCGCACAGATGCCTTCGGGACTT
AGCCCGGATTTAGTA
Found at i:70444001 original size:40 final size:40
Alignment explanation
Indices: 70443933--70444095 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
70443923 CGGGATTTAA
** *
70443933 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
70443972 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
70444012 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
70444052 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
70444092 CCGG
1 CCGG
70444096 GTATCATTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:70444055 original size:80 final size:79
Alignment explanation
Indices: 70443919--70444095 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 79
70443909 GAATCACGTA
* * * **
70443919 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
70443983 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** *
70443997 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
70444061 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
70444077 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
70444096 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 11 0.13
80 58 0.71
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATG
Found at i:70451794 original size:6 final size:6
Alignment explanation
Indices: 70451783--70451821 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
70451773 GGATTGCAAG
**
70451783 TTTCCA TTTCCA TTTCCA TTTCCA TTTTTA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
70451822 ATATTTTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.26, G:0.00, T:0.59
Consensus pattern (6 bp):
TTTCCA
Found at i:70451826 original size:12 final size:12
Alignment explanation
Indices: 70451788--70451827 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
70451778 GCAAGTTTCC
**
70451788 ATTTCCATTTCC
1 ATTTCCATTTAT
*
70451800 ATTTCCATTTTT
1 ATTTCCATTTAT
70451812 ATTTCCATTTAT
1 ATTTCCATTTAT
70451824 ATTT
1 ATTT
70451828 TTGGAAACCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (12 bp):
ATTTCCATTTAT
Found at i:70451827 original size:18 final size:18
Alignment explanation
Indices: 70451794--70451829 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
70451784 TTCCATTTCC
*
70451794 ATTTCCATTTCCATTTTT
1 ATTTCCATTTACATTTTT
*
70451812 ATTTCCATTTATATTTTT
1 ATTTCCATTTACATTTTT
70451830 GGAAACCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.17, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTCCATTTACATTTTT
Found at i:70459722 original size:40 final size:40
Alignment explanation
Indices: 70459667--70459876 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
70459657 AACATTGGAA
70459667 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
70459707 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
70459747 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
70459787 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
70459826 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
70459867 CTATATCCGG
1 ATATATCCGG
70459877 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:70467855 original size:40 final size:40
Alignment explanation
Indices: 70467800--70468009 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
70467790 AACATTGGAA
70467800 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
70467840 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
70467880 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
70467920 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
70467959 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
70468000 CTATATCCGG
1 ATATATCCGG
70468010 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:70470216 original size:21 final size:21
Alignment explanation
Indices: 70470177--70470217 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
70470167 CATGCCTTTG
* *
70470177 GCTAAAATACATGATCGTGTT
1 GCTAAAACACATGACCGTGTT
*
70470198 GCTAAAACACATGCCCGTGT
1 GCTAAAACACATGACCGTGT
70470218 GATTGAGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
GCTAAAACACATGACCGTGTT
Found at i:70473199 original size:43 final size:43
Alignment explanation
Indices: 70473130--70473313 Score: 196
Period size: 43 Copynumber: 4.3 Consensus size: 43
70473120 CGCTATATGT
** * *
70473130 AACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTTTCGCA
1 AACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTTTAGCA
* *
70473173 AACGTCGTTAAAGGCCATGGCCTTTAGCGGCGCTTTTTTAGCA
1 AACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTTTAGCA
*
70473216 AACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTTCTA-AA
1 AACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTT-TAGCA
* * ** * *
70473259 AACGCCACTATA--TAATAGACCTTTAGCGACGCTTTTTTCA-CA
1 AACGCCGCTAAAGGCCAT-GGCCTTTAGCGGCGCTTTTTT-AGCA
70473301 AACGCCGCTAAAG
1 AACGCCGCTAAAG
70473314 AATATAAACT
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.03
42 30 0.25
43 84 0.71
44 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
AACGCCGCTAAAGGCCATGGCCTTTAGCGGCGCTTTTTTAGCA
Found at i:70473655 original size:75 final size:75
Alignment explanation
Indices: 70473529--70473676 Score: 269
Period size: 75 Copynumber: 2.0 Consensus size: 75
70473519 AAGCAATCAG
*
70473529 AAAGAATAGTACAGGAAATTCTTAGTATCCTACTTGAAGAAAGCATAGGAAAATATAAAGAGGAT
1 AAAGAATAGTACAGGAAATTCTTAGTATCCTACCTGAAGAAAGCATAGGAAAATATAAAGAGGAT
*
70473594 GAGGATGAGT
66 GAGAATGAGT
*
70473604 AAAGAATAGTACAGGAAATTCTTAGTATCCTACCTGAAGAAAGCATCGGAAAATATAAAGAGGAT
1 AAAGAATAGTACAGGAAATTCTTAGTATCCTACCTGAAGAAAGCATAGGAAAATATAAAGAGGAT
70473669 GAGAATGA
66 GAGAATGA
70473677 ATACAAGGAA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (75 bp):
AAAGAATAGTACAGGAAATTCTTAGTATCCTACCTGAAGAAAGCATAGGAAAATATAAAGAGGAT
GAGAATGAGT
Found at i:70475332 original size:2 final size:2
Alignment explanation
Indices: 70475307--70475350 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
70475297 TCTACAATTT
* * *
70475307 TA TA TC TA TA TC TA TA TC 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 TA TA TA TA TA
70475349 TA
1 TA
70475351 CACGTGAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:70477549 original size:14 final size:14
Alignment explanation
Indices: 70477511--70477561 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 14
70477501 AGTTAAATAA
*
70477511 TTTTATAAAATATT
1 TTTTATAAATTATT
* *
70477525 TATTAT-TATTATT
1 TTTTATAAATTATT
*
70477538 TTTTATAAATTAGT
1 TTTTATAAATTATT
70477552 TTTTATAAAT
1 TTTTATAAAT
70477562 AAAAAAATCA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (14 bp):
TTTTATAAATTATT
Found at i:70478210 original size:8 final size:7
Alignment explanation
Indices: 70478192--70478368 Score: 59
Period size: 7 Copynumber: 24.7 Consensus size: 7
70478182 ACTAATTAAT
70478192 CTAAACC
1 CTAAACC
70478199 CTAAATCC
1 CTAAA-CC
*
70478207 CTAACCC
1 CTAAACC
*
70478214 CTAACCC
1 CTAAACC
70478221 CTAAACC
1 CTAAACC
* *
70478228 TTAAACA
1 CTAAACC
* *
70478235 ATAAAAC
1 CTAAACC
*
70478242 ATAAACC
1 CTAAACC
* *
70478249 CTTAACA
1 CTAAACC
**
70478256 CTTCACC
1 CTAAACC
*
70478263 CTTAACAC
1 CTAAAC-C
*
70478271 ATAAACC
1 CTAAACC
*
70478278 TTAAACC
1 CTAAACC
* *
70478285 CCAACCC
1 CTAAACC
*
70478292 TCTAAAAC
1 -CTAAACC
*
70478300 TTAAACC
1 CTAAACC
70478307 CT-AACC
1 CTAAACC
* *
70478313 ATTAATCC
1 -CTAAACC
*
70478321 ATAAACC
1 CTAAACC
*
70478328 ATAAACC
1 CTAAACC
* *
70478335 ATAATCC
1 CTAAACC
70478342 CTAAACC
1 CTAAACC
*
70478349 CATAATCC
1 C-TAAACC
*
70478357 ATAAACC
1 CTAAACC
*
70478364 TTAAA
1 CTAAA
70478369 ATAGTAACTC
Statistics
Matches: 127, Mismatches: 37, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
6 4 0.03
7 100 0.79
8 23 0.18
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:70478329 original size:15 final size:14
Alignment explanation
Indices: 70478301--70478363 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
70478291 CTCTAAAACT
*
70478301 TAAACCCTAA-CCA
1 TAAACCATAATCCA
* *
70478314 TTAATCCATAAACCA
1 -TAAACCATAATCCA
*
70478329 TAAACCATAATCCC
1 TAAACCATAATCCA
70478343 TAAACCCATAATCCA
1 TAAA-CCATAATCCA
70478358 TAAACC
1 TAAACC
70478364 TTAAAATAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 25 0.61
15 16 0.39
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:70478359 original size:22 final size:21
Alignment explanation
Indices: 70478301--70478360 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
70478291 CTCTAAAACT
70478301 TAAACCC-TAACCATTAATCCA
1 TAAACCCATAACCA-TAATCCA
*
70478322 TAAA-CCATAAACCATAATCCC
1 TAAACCCAT-AACCATAATCCA
70478343 TAAACCCATAATCCATAA
1 TAAACCCATAA-CCATAA
70478361 ACCTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 15 0.44
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCATAACCATAATCCA
Found at i:70478368 original size:22 final size:20
Alignment explanation
Indices: 70478260--70478402 Score: 79
Period size: 22 Copynumber: 6.6 Consensus size: 20
70478250 TTAACACTTC
70478260 ACCCTTAACACATAAACCTTAA
1 ACCC-TAAC-CATAAACCTTAA
* * *
70478282 ACCCCAACCCTCTAAAACTTAA
1 ACCCTAA-CC-ATAAACCTTAA
* *
70478304 ACCCTAACCATTAATCCATAA
1 ACCCTAACCA-TAAACCTTAA
* * *
70478325 ACCATAAACCATAATCCCTAA
1 ACCCT-AACCATAAACCTTAA
70478346 ACCCATAATCCATAAACCTTAAA
1 ACCC-TAA-CCATAAACCTT-AA
*** *
70478369 ATAGTAACTCATAAACATTAA
1 ACCCTAAC-CATAAACCTTAA
70478390 ACCCTTAACCATA
1 ACCC-TAACCATA
70478403 TGTCATAAAC
Statistics
Matches: 92, Mismatches: 20, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
21 38 0.41
22 51 0.55
23 3 0.03
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.22
Consensus pattern (20 bp):
ACCCTAACCATAAACCTTAA
Found at i:70478623 original size:40 final size:40
Alignment explanation
Indices: 70478576--70478721 Score: 136
Period size: 40 Copynumber: 3.7 Consensus size: 40
70478566 CATTTTTTGT
70478576 GGCGTTTTTTAAAAAACGCCGCTAAAGATCAAGCAT-TAGC
1 GGCGTTTTTTAAAAAACGCCGCTAAAGATCAA-CATATAGC
* * * * **
70478616 TGCGTTTTCTAAAAAGCGCCGCTAAAGGTGTACATATAGC
1 GGCGTTTTTTAAAAAACGCCGCTAAAGATCAACATATAGC
* ** * * *
70478656 GGCATTTTTTAAAAAACGCCGCTAATACTTGATC-TTTAGC
1 GGCGTTTTTTAAAAAACGCCGCTAA-AGATCAACATATAGC
*
70478696 GGC-TTTTTTAAAAAGCGCCGCTAAAG
1 GGCGTTTTTTAAAAAACGCCGCTAAAG
70478722 CCACTAAAGG
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
38 1 0.01
39 23 0.26
40 59 0.68
41 4 0.05
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (40 bp):
GGCGTTTTTTAAAAAACGCCGCTAAAGATCAACATATAGC
Found at i:70489334 original size:40 final size:40
Alignment explanation
Indices: 70489290--70489373 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
70489280 GTGTTGTACA
70489290 TAGCCGAAGCTAT-CTCAAATCC-CACACTAAGTGCCAAATT
1 TAGCCGAAGCTATACT-AAA-CCGCACACTAAGTGCCAAATT
* *
70489330 TAGCCGAAGCTATACTGAACCGCACACTAAGTGCCATATT
1 TAGCCGAAGCTATACTAAACCGCACACTAAGTGCCAAATT
70489370 TAGC
1 TAGC
70489374 TGATATGTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 2 0.05
40 36 0.90
41 2 0.05
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (40 bp):
TAGCCGAAGCTATACTAAACCGCACACTAAGTGCCAAATT
Found at i:70492941 original size:42 final size:42
Alignment explanation
Indices: 70492892--70492975 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
70492882 AATCTCTATC
70492892 GCAATCTTAGTTAATTAGAGAATTAGTGTTAGTTTAAAAACA
1 GCAATCTTAGTTAATTAGAGAATTAGTGTTAGTTTAAAAACA
70492934 GCAATCTTAGTTAATTAGAGAATTAGTGTTAGTTTAAAAACA
1 GCAATCTTAGTTAATTAGAGAATTAGTGTTAGTTTAAAAACA
70492976 TTCTCTTAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.36
Consensus pattern (42 bp):
GCAATCTTAGTTAATTAGAGAATTAGTGTTAGTTTAAAAACA
Found at i:70499911 original size:20 final size:22
Alignment explanation
Indices: 70499886--70499938 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
70499876 TTTCCTCTAA
*
70499886 TTTATTTTATTTGCTT-ATA-T
1 TTTATTTTATTTACTTGATATT
*
70499906 TTTATTTTATTTATTTGATATT
1 TTTATTTTATTTACTTGATATT
70499928 TTTATTTTATT
1 TTTATTTTATT
70499939 CTTGCCATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.48
21 3 0.10
22 12 0.41
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTATTTTATTTACTTGATATT
Found at i:70511957 original size:96 final size:97
Alignment explanation
Indices: 70511829--70512012 Score: 244
Period size: 96 Copynumber: 1.9 Consensus size: 97
70511819 ATTTAATTTA
* * * * * *
70511829 TTTATTTTTACTTAGGAATATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCCA
**
70511894 CCCCGGTTACTCAACCCAACATACTCCTAATT
66 CCCCAATTACTCAACCCAACATACTCCTAATT
* * *
70511926 TTTATTTTT-CTTAATAACATATCGAACCTTTTGACGCAAAGAAAGATGACAGTCAAGCACCTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCCA
* *
70511990 CCCTAATTACTCAGCCCAACATA
66 CCCCAATTACTCAACCCAACATA
70512013 TTCTTAAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
96 65 0.88
97 9 0.12
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAAAGATGACAGCCAAGCACCCCA
CCCCAATTACTCAACCCAACATACTCCTAATT
Found at i:70512924 original size:21 final size:21
Alignment explanation
Indices: 70512899--70512950 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
70512889 AATAATTAAG
* *
70512899 TAATAAATCATTAAGATAAAA
1 TAATAAATAATTAAAATAAAA
70512920 TAATAAATAATTAAAATAAAA
1 TAATAAATAATTAAAATAAAA
70512941 TAATAAATAA
1 TAATAAATAA
70512951 AAATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATAAATAATTAAAATAAAA
Found at i:70512934 original size:8 final size:7
Alignment explanation
Indices: 70512887--70512962 Score: 54
Period size: 7 Copynumber: 11.0 Consensus size: 7
70512877 CCAAAAAAAG
70512887 TAAATAA
1 TAAATAA
*
70512894 TTAAGTAA
1 -TAAATAA
*
70512902 TAAATCAT
1 TAAAT-AA
70512910 TAAGAT-A
1 TAA-ATAA
70512917 -AAATAA
1 TAAATAA
70512923 TAAATAA
1 TAAATAA
*
70512930 TTAA-AA
1 TAAATAA
70512936 TAAAATAA
1 T-AAATAA
70512944 TAAATAA
1 TAAATAA
70512951 -AAATAA
1 TAAATAA
70512957 -AAATAA
1 TAAATAA
70512963 AGAAAAATAA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
5 2 0.04
6 18 0.32
7 21 0.38
8 13 0.23
9 2 0.04
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (7 bp):
TAAATAA
Found at i:70512943 original size:14 final size:12
Alignment explanation
Indices: 70512914--70512963 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
70512904 AATCATTAAG
70512914 ATAAAATAATAA
1 ATAAAATAATAA
*
70512926 AT--AATTA-AA
1 ATAAAATAATAA
70512935 ATAAAATAATAA
1 ATAAAATAATAA
70512947 ATAAAAATAA-AA
1 AT-AAAATAATAA
70512959 ATAAA
1 ATAAA
70512964 GAAAAATAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 7 0.22
12 10 0.31
13 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:70512948 original size:12 final size:11
Alignment explanation
Indices: 70512914--70512992 Score: 58
Period size: 10 Copynumber: 7.2 Consensus size: 11
70512904 AATCATTAAG
70512914 ATAAAATAATAA
1 ATAAAATAA-AA
*
70512926 AT--AATTAAA
1 ATAAAATAAAA
70512935 ATAAAATAATAA
1 ATAAAATAA-AA
70512947 ATAAAAATAAAA
1 AT-AAAATAAAA
*
70512959 AT-AAAGAAAA
1 ATAAAATAAAA
*
70512969 ATAACAATAAAG
1 ATAA-AATAAAA
*
70512981 A-GAAATAAAA
1 ATAAAATAAAA
70512991 AT
1 AT
70512993 TGGGTTGCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.08
10 20 0.38
11 6 0.11
12 16 0.30
13 7 0.13
ACGTcount: A:0.75, C:0.01, G:0.04, T:0.20
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:70512951 original size:17 final size:16
Alignment explanation
Indices: 70512914--70512991 Score: 61
Period size: 16 Copynumber: 4.8 Consensus size: 16
70512904 AATCATTAAG
*
70512914 ATAAAATAATAAATAA
1 ATAAAATAAAAAATAA
*
70512930 TTAAAATAAAATAATAA
1 ATAAAATAAAA-AATAA
70512947 ATAAAA-ATAAAAATAA
1 ATAAAATA-AAAAATAA
* *
70512963 AGAAAA-ATAACAATAA
1 ATAAAATA-AAAAATAA
*
70512979 AGAGAAATAAAAA
1 ATA-AAATAAAAA
70512992 TTGGGTTGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
16 32 0.62
17 19 0.37
18 1 0.02
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAAAATAA
Found at i:70512963 original size:16 final size:16
Alignment explanation
Indices: 70512932--70512992 Score: 77
Period size: 16 Copynumber: 3.7 Consensus size: 16
70512922 ATAAATAATT
*
70512932 AAAATAAAATAATAAATA
1 AAAAT-AAA-AATAAAGA
70512950 AAAATAAAAATAAAGA
1 AAAATAAAAATAAAGA
*
70512966 AAAATAACAATAAAGA
1 AAAATAAAAATAAAGA
*
70512982 GAAATAAAAAT
1 AAAATAAAAAT
70512993 TGGGTTGCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
16 31 0.79
17 3 0.08
18 5 0.13
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (16 bp):
AAAATAAAAATAAAGA
Found at i:70520137 original size:28 final size:28
Alignment explanation
Indices: 70520105--70520174 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
70520095 GATATTTCGA
*
70520105 ACACTAAGTGTCATTCTCAATATCTCAC
1 ACACTAAGTTTCATTCTCAATATCTCAC
* * *
70520133 ACACTACGTTTCATTCTCAATATTTCGC
1 ACACTAAGTTTCATTCTCAATATCTCAC
70520161 ACACTAAGTTTCAT
1 ACACTAAGTTTCAT
70520175 ATTTTATGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (28 bp):
ACACTAAGTTTCATTCTCAATATCTCAC
Found at i:70526708 original size:46 final size:46
Alignment explanation
Indices: 70526649--70526808 Score: 200
Period size: 46 Copynumber: 3.5 Consensus size: 46
70526639 TATTTGGGCA
*
70526649 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * * *
70526695 TCCAAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAAGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGAA-CG
70526742 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
70526788 CCCGAGCTCGTTGAGTTGAGT
1 TCCGAGCTCGTTGAGTTGAGT
70526809 TCAAGTTCTC
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 51 0.54
47 32 0.34
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:70526816 original size:93 final size:93
Alignment explanation
Indices: 70526646--70526816 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
70526636 AGATATTTGG
*
70526646 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCAAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
*
70526711 TGAGTCCGAGTTCGTGAGATGTAACTAA
66 TGAGTCCAAGTTCGTGAGATGTAACTAA
* *
70526739 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
*
70526804 TGAGTTCAAGTTC
66 TGAGTCCAAGTTC
70526817 TCTGTGACAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAGCTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAA
Found at i:70528549 original size:29 final size:29
Alignment explanation
Indices: 70528517--70528619 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
70528507 GTGACGAGAT
* *
70528517 TGGCACTGAGTGTGCGAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
70528546 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGAAATATA
* * *
70528575 TGGCACTATGTGTGCGGGCTT-AAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAAT-ATA
70528604 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
70528620 TGATCGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATATA
Found at i:70533109 original size:15 final size:16
Alignment explanation
Indices: 70533086--70533133 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
70533076 TAGTATCGTA
70533086 TCTTGGGTTTCTTTAT
1 TCTTGGGTTTCTTTAT
* *
70533102 TC-TGGGTTT-TTCAA
1 TCTTGGGTTTCTTTAT
*
70533116 TCTTGGATTTCTTTAT
1 TCTTGGGTTTCTTTAT
70533132 TC
1 TC
70533134 AGTTTTCTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.10, C:0.15, G:0.17, T:0.58
Consensus pattern (16 bp):
TCTTGGGTTTCTTTAT
Found at i:70535998 original size:46 final size:46
Alignment explanation
Indices: 70535870--70536000 Score: 176
Period size: 46 Copynumber: 2.8 Consensus size: 46
70535860 GATATTTGGG
* *
70535870 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCAATTATGGATACTAA
1 CATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
*
70535916 CATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
* * *
70535962 CA-CTCGAGCTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 CATC-CAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70536001 GTGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
45 3 0.04
46 74 0.96
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (46 bp):
CATCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAA
Found at i:70538689 original size:20 final size:20
Alignment explanation
Indices: 70538664--70538706 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
70538654 AGTAAAATGA
*
70538664 AATCTTATAACAGTATAATT
1 AATCTTATAACAATATAATT
* *
70538684 AATCTTGTTACAATATAATT
1 AATCTTATAACAATATAATT
70538704 AAT
1 AAT
70538707 TTCATGTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (20 bp):
AATCTTATAACAATATAATT
Found at i:70541985 original size:26 final size:26
Alignment explanation
Indices: 70541949--70541999 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
70541939 CCCTGCAATA
* *
70541949 AAAGCCTTTGTGGTGTAATATGAAAT
1 AAAGCCTTTGTGGCGGAATATGAAAT
*
70541975 AAAGCTTTTGTGGCGGAATATGAAA
1 AAAGCCTTTGTGGCGGAATATGAAA
70542000 GGAATGTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.25, T:0.31
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGGAATATGAAAT
Found at i:70542382 original size:19 final size:19
Alignment explanation
Indices: 70542358--70542408 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
70542348 TATGAATAAT
70542358 GAAGTGATGAGATATAGAA
1 GAAGTGATGAGATATAGAA
*
70542377 GAAGTGATTAGATATAGAA
1 GAAGTGATGAGATATAGAA
70542396 GAAGTGATG-GATA
1 GAAGTGATGAGATA
70542409 AATTTGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (19 bp):
GAAGTGATGAGATATAGAA
Found at i:70543051 original size:13 final size:13
Alignment explanation
Indices: 70543020--70543049 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
70543010 GTTATATCTA
70543020 TATTTACTCATTG
1 TATTTACTCATTG
70543033 TATTTACTCA-TG
1 TATTTACTCATTG
70543045 TATTT
1 TATTT
70543050 TAGTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (13 bp):
TATTTACTCATTG
Found at i:70544437 original size:13 final size:13
Alignment explanation
Indices: 70544414--70544438 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70544404 AAAAAAAAAT
70544414 CTTTTAAAAATTG
1 CTTTTAAAAATTG
70544427 CTTTTAAAAATT
1 CTTTTAAAAATT
70544439 TTGATAGTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
CTTTTAAAAATTG
Found at i:70545780 original size:25 final size:27
Alignment explanation
Indices: 70545752--70545803 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
70545742 ACTAATTGCT
*
70545752 ATATTTCTTTTAT-GAATTAT-ATTTC
1 ATATTCCTTTTATAGAATTATAATTTC
*
70545777 ATATTCCTTTTATATAATTATAATTTC
1 ATATTCCTTTTATAGAATTATAATTTC
70545804 GAATTCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 12 0.52
26 6 0.26
27 5 0.22
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.58
Consensus pattern (27 bp):
ATATTCCTTTTATAGAATTATAATTTC
Found at i:70545949 original size:41 final size:41
Alignment explanation
Indices: 70545904--70546002 Score: 148
Period size: 41 Copynumber: 2.4 Consensus size: 41
70545894 TGACGAAAAC
70545904 TTAAATTAGT-TGA-AATTTAATATTTTTAATAATTTATTCTT
1 TTAAATTAGTCT-ATAA-TTAATATTTTTAATAATTTATTCTT
*
70545945 TTAAATTTGTCTATAATTAATATTTTTAATAATTTATTCTT
1 TTAAATTAGTCTATAATTAATATTTTTAATAATTTATTCTT
*
70545986 TTAAATTTGTCTATAAT
1 TTAAATTAGTCTATAAT
70546003 AAAACACAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
41 52 0.95
42 3 0.05
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (41 bp):
TTAAATTAGTCTATAATTAATATTTTTAATAATTTATTCTT
Found at i:70548510 original size:32 final size:32
Alignment explanation
Indices: 70548474--70548536 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
70548464 TTCTATTTTC
70548474 ACCCTAAATAAAAGAGAGAAAACATTTTTCTT
1 ACCCTAAATAAAAGAGAGAAAACATTTTTCTT
70548506 ACCCTAAATAAAAGAGAGAAAACATTTTTCT
1 ACCCTAAATAAAAGAGAGAAAACATTTTTCT
70548537 AGTTCTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.27
Consensus pattern (32 bp):
ACCCTAAATAAAAGAGAGAAAACATTTTTCTT
Found at i:70549324 original size:47 final size:47
Alignment explanation
Indices: 70549264--70549358 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
70549254 CAAGGTCAAG
70549264 TACTAATATTTTCATTAACTCTATGTTTAACAAACAAAAAGGTTATA
1 TACTAATATTTTCATTAACTCTATGTTTAACAAACAAAAAGGTTATA
*
70549311 TACTAATGTTTTCATTAACTCTATGTTTAACAAACAAAAAGGTTATA
1 TACTAATATTTTCATTAACTCTATGTTTAACAAACAAAAAGGTTATA
70549358 T
1 T
70549359 GATGTTATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (47 bp):
TACTAATATTTTCATTAACTCTATGTTTAACAAACAAAAAGGTTATA
Found at i:70549701 original size:13 final size:14
Alignment explanation
Indices: 70549671--70549707 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
70549661 AAATTAATTA
*
70549671 ATTTAATAATATCT
1 ATTTAAAAATATCT
70549685 -TTTAAAAAT-TCT
1 ATTTAAAAATATCT
70549697 ATTTAAAAATA
1 ATTTAAAAATA
70549708 ATATAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTTAAAAATATCT
Found at i:70551402 original size:654 final size:657
Alignment explanation
Indices: 70549944--70551524 Score: 1977
Period size: 654 Copynumber: 2.4 Consensus size: 657
70549934 TATTAATTAG
*
70549944 TGTTGAGTAATTTTATCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGCTATTACA
1 TGTTGAGTAATTTTATCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGTTATTACA
* * *
70550009 GCTCACGATATGACCCCACTATTTTGTCTTGGCTCTG-CTGTTCCTAGTACTGACA-TTCTGTGT
66 GCTCACGATATGACCCCACTGTTTTGTCTTGACTCCGTC-GTTCCTAGTACTGACATTTC-GTGT
* * * * * * *
70550072 GGACTTCAGACCTACTGAATACATGTTTCACTCTATGTTGCCCGCGGAGCATGCGGTCCCTCTTC
129 GGACTTCAGGCCTACTGGACACGTGTTT--CTCTAGGTTGCCTGTGGAGCATGCGGTCCC-CTTC
* *
70550137 TACGAGCTCCTTGGA-AGCATGCGAACTAAGA-TCGTGGCCTTCCCTTGGTTCGTGCGAGCTAGA
191 TACGAGCTCCTTGGACA-CATGCGAACTAAGACT-GTGGCTTTCCCTTGGTTCGTGCAAGCTAGA
* *
70550200 TCTACAAGCCTGCTTTGCAATCTGGGTCCGTGAACTCCCCTTGCTATCCTCTCGCAATTCACTTT
254 TCTACAAGCCTGCCTTGCAATCTGGGTCCGTAAACTCCCCTTG-----C-CT--C-ATTCAC-TT
*** * * * *
70550265 GCACTCAATCATCTGATAGGACCTATCTGGGTCACGAGGTGACCCGGATCTTAGCTAGGACTCAA
309 GCACTCAATCATCTGATAGGACCTATCCAAGTCACGAGATGACCCAGATCCTAGCTAGGACCCAA
70550330 ATTGGTGATCACTGATGTATAACAATAGTCCCCCCTTTAGTGGGTCTAAGGAGGGTTACAAAGTG
374 ATTGGTGATCACTGATGTATAACAATAGTCCCCCCTTTAGTGGGTCTAAGGAGGGTTACAAAGTG
* * *
70550395 GCACTTCTTAGATCCATCACATCGAGTTTAAATTCAGCTTGTTGGGTACACTACGAGCTGTGATG
439 GCACTTCTTAAATCCATCACATCGAGTTTAAATGCAGCTTGTTGGGTACACTACAAGCTGTGATG
* * * *
70550460 CACAATGGCTATTCTGCTACATGTATGAATGGGTTTTGGGTGCATGTATCTGACCGTCGAAAAAT
504 CACAACGGCTATTCTACCACATGTATGAATGGGTTTTGAGTGCATGTATCTGACCGTCGAAAAAT
* * * * *
70550525 TGAACCATTTCTATCTGCTTGAATCTGGATCGTTGATCTTCTTCAGTCATATAAAGGTCGCGTGT
569 TGAACCATTTCCATCTGCTCGAATCTGGATCGTTAATCTTCCTCAGTCATATAAAGGTCACGTGT
*
70550590 TCGATCCACGCTTACCACACCAAT
634 TCGATCCACGCTCACCACACCAAT
*
70550614 TGTTGAGTAATTTTGTCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGTTATTACA
1 TGTTGAGTAATTTTATCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGTTATTACA
* * * * * *
70550679 GCTCATGATATGACCCCA-TAGTTTTGTCTTGACTTCATCGTTCCTAGTATTGACATTCCGTGGG
66 GCTCACGATATGACCCCACT-GTTTTGTCTTGACTCCGTCGTTCCTAGTACTGACATTTCGTGTG
* * **
70550743 GACTTCAGGCCTACTGGACACGTGTTT-TCTGGGTTGCTTGTGGAGCACACGGTCCTCCTTCTAC
130 GACTTCAGGCCTACTGGACACGTGTTTCTCTAGGTTGCCTGTGGAGCATGCGGTCC-CCTTCTAC
* * * * *
70550807 AAGCTCCTTGGACACATGCGAACTAAGACTATGGATTTCCCTTAGTTCGTGCTAGCTAGATCTAC
194 GAGCTCCTTGGACACATGCGAACTAAGACTGTGGCTTTCCCTTGGTTCGTGCAAGCTAGATCTAC
* * *
70550872 GAGCCTGCCTTGCAAGT-TGGGTTCGTAAACTCCCCTTG-CT-A-TCA-TTGTACTCAATCATCT
259 AAGCCTGCCTTGCAA-TCTGGGTCCGTAAACTCCCCTTGCCTCATTCACTTGCACTCAATCATCT
* * * ***
70550932 GGTGGGACCTATCCAAGTCACAGGTAGATGACCCAGATCCTATCTAGGACCCGGGTTGGTGATCA
323 GATAGGACCTATCCAAGTCAC--G-AGATGACCCAGATCCTAGCTAGGACCCAAATTGGTGATCA
* *
70550997 CTGATGTATAACAATAGTCCCCCC-TTAGTGGGTCTAAGGAGGGTTACAAATTGGCGCTTCTTAA
385 CTGATGTATAACAATAGTCCCCCCTTTAGTGGGTCTAAGGAGGGTTACAAAGTGGCACTTCTTAA
* *
70551061 ATCCATCACATTGAGTTTAAATGCAGCTTGTTGGGTACACTCCAAGCTGTGATGCACAACGGCTA
450 ATCCATCACATCGAGTTTAAATGCAGCTTGTTGGGTACACTACAAGCTGTGATGCACAACGGCTA
* * **
70551126 TTCTACCACGA-GTATGAATGGGTTTTGAGTGCATGTATTTGACCGTTG-AAAATTGAACTGTTT
515 TTCTACCAC-ATGTATGAATGGGTTTTGAGTGCATGTATCTGACCGTCGAAAAATTGAACCATTT
* ** * * * ** *
70551189 CCATCTGCTCGCATCTGGATTTTTAATCTTCCTCGGTCATCTAAAGGTCACGTGTTTGATTTATG
579 CCATCTGCTCGAATCTGGATCGTTAATCTTCCTCAGTCATATAAAGGTCACGTGTTCGATCCACG
70551254 CTCACCACACCAAT
644 CTCACCACACCAAT
* *
70551268 TGTTGAGTAATTTTATCTCTTATCTTATTAATGGGAGTATTCAAGTATTTATACATGTTATTACA
1 TGTTGAGTAATTTTATCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGTTATTACA
* * *
70551333 GCTTACGATATGACCCCACTGTTTTCTCTTGACTCCGTCGTTCCTAATACTGACATTTCGTGTGG
66 GCTCACGATATGACCCCACTGTTTTGTCTTGACTCCGTCGTTCCTAGTACTGACATTTCGTGTGG
** * *
70551398 ACTTCAGGCCTGTTGGACACGTATTTCACTCTAGGTTGCCTGTGGAGCATGCAGTCCCCCTTCTA
131 ACTTCAGGCCTACTGGACACGTGTTT--CTCTAGGTTGCCTGTGGAGCATGCGGT-CCCCTTCTA
* * * * * *
70551463 CGAGCTCTTTAGACGCATGTGAATTAAGACCGTGGCCTTT-CCTTGGTTCGTGCAAGCTAGAT
193 CGAGCTCCTTGGACACATGCGAACTAAGACTGTGG-CTTTCCCTTGGTTCGTGCAAGCTAGAT
70551525 TGCGAGCTGG
Statistics
Matches: 787, Mismatches: 107, Indels: 47
0.84 0.11 0.05
Matches are distributed among these distances:
653 31 0.04
654 216 0.27
655 143 0.18
656 58 0.07
657 75 0.10
658 5 0.01
660 2 0.00
667 115 0.15
668 4 0.01
669 1 0.00
670 134 0.17
671 3 0.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (657 bp):
TGTTGAGTAATTTTATCTCTTGTCTTATTAATGGGAGTATTCGAGTATTTATACATGTTATTACA
GCTCACGATATGACCCCACTGTTTTGTCTTGACTCCGTCGTTCCTAGTACTGACATTTCGTGTGG
ACTTCAGGCCTACTGGACACGTGTTTCTCTAGGTTGCCTGTGGAGCATGCGGTCCCCTTCTACGA
GCTCCTTGGACACATGCGAACTAAGACTGTGGCTTTCCCTTGGTTCGTGCAAGCTAGATCTACAA
GCCTGCCTTGCAATCTGGGTCCGTAAACTCCCCTTGCCTCATTCACTTGCACTCAATCATCTGAT
AGGACCTATCCAAGTCACGAGATGACCCAGATCCTAGCTAGGACCCAAATTGGTGATCACTGATG
TATAACAATAGTCCCCCCTTTAGTGGGTCTAAGGAGGGTTACAAAGTGGCACTTCTTAAATCCAT
CACATCGAGTTTAAATGCAGCTTGTTGGGTACACTACAAGCTGTGATGCACAACGGCTATTCTAC
CACATGTATGAATGGGTTTTGAGTGCATGTATCTGACCGTCGAAAAATTGAACCATTTCCATCTG
CTCGAATCTGGATCGTTAATCTTCCTCAGTCATATAAAGGTCACGTGTTCGATCCACGCTCACCA
CACCAAT
Found at i:70551782 original size:19 final size:17
Alignment explanation
Indices: 70551758--70551806 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
70551748 TTTAATTAAA
70551758 TAAATATAACTTTTATCTT
1 TAAATATAA-TTTTAT-TT
*
70551777 TAAATATGATTTTATTT
1 TAAATATAATTTTATTT
*
70551794 TATAATAAAATTT
1 TA-AATATAATTT
70551807 CATGTTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 14 0.54
19 8 0.31
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (17 bp):
TAAATATAATTTTATTT
Found at i:70552029 original size:13 final size:14
Alignment explanation
Indices: 70552011--70552039 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
70552001 ATAAATTTTT
70552011 ATTTA-TAAATATG
1 ATTTATTAAATATG
70552024 ATTTATTAAATATG
1 ATTTATTAAATATG
70552038 AT
1 AT
70552040 AATAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.33
14 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATTTATTAAATATG
Found at i:70552209 original size:24 final size:23
Alignment explanation
Indices: 70552182--70552226 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
70552172 TTTTTAATTT
*
70552182 ATATAAAAATTCAAAAGAAAATAA
1 ATATAAAAATT-AAAACAAAATAA
* *
70552206 ATATTATAATTAAAACAAAAT
1 ATATAAAAATTAAAACAAAAT
70552227 TTTTTTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (23 bp):
ATATAAAAATTAAAACAAAATAA
Found at i:70552440 original size:20 final size:19
Alignment explanation
Indices: 70552396--70552445 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
70552386 AATTTTTTTA
70552396 AATAT-ATA-AAAATAATG
1 AATATAATATAAAATAATG
* *
70552413 AATGTAATATAAAATAATT
1 AATATAATATAAAATAATG
70552432 AACTATAATTATAA
1 AA-TATAA-TATAA
70552446 TTATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 3 0.12
19 10 0.38
20 4 0.15
21 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (19 bp):
AATATAATATAAAATAATG
Found at i:70552547 original size:15 final size:15
Alignment explanation
Indices: 70552527--70552557 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
70552517 ATTGTAGTTA
70552527 TTTTATTAATAATGT
1 TTTTATTAATAATGT
*
70552542 TTTTATTATTAATGT
1 TTTTATTAATAATGT
70552557 T
1 T
70552558 ATACTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTATTAATAATGT
Found at i:70559119 original size:2 final size:2
Alignment explanation
Indices: 70559112--70559148 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
70559102 GAGACTAGTC
70559112 AT AT 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 AT AT A
70559149 CATGTCATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:70562570 original size:15 final size:15
Alignment explanation
Indices: 70562550--70562580 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
70562540 AAACTTGTAA
*
70562550 AAATTAAATTAAACT
1 AAATTAAATAAAACT
70562565 AAATTAAATAAAACT
1 AAATTAAATAAAACT
70562580 A
1 A
70562581 CTAACTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATTAAATAAAACT
Found at i:70569096 original size:22 final size:23
Alignment explanation
Indices: 70569071--70569127 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
70569061 GGAAATACGA
*
70569071 AAAATAAAATAAAAAAAATT-CG
1 AAAATAAAATAAAAAAAATTAAG
* * *
70569093 AAAATACAA-AAATAAATTTAAG
1 AAAATAAAATAAAAAAAATTAAG
70569115 AAAATAAAATAAA
1 AAAATAAAATAAA
70569128 TGGATAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 8 0.29
22 17 0.61
23 3 0.11
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AAAATAAAATAAAAAAAATTAAG
Found at i:70579219 original size:11 final size:11
Alignment explanation
Indices: 70579164--70579294 Score: 95
Period size: 11 Copynumber: 11.7 Consensus size: 11
70579154 CAAATGCCTC
* *
70579164 AAAATAGTAAC
1 AAAATAATAAT
70579175 AAAATTAATAAT
1 AAAA-TAATAAT
*
70579187 AAAATAAGAGTTAT
1 AAAAT-A-A-TAAT
* *
70579201 ACAATAATAAC
1 AAAATAATAAT
70579212 AAAATAATAAT
1 AAAATAATAAT
* *
70579223 AATATAATAGT
1 AAAATAATAAT
*
70579234 GAAATAATAAT
1 AAAATAATAAT
70579245 AAAATAATAA-
1 AAAATAATAAT
*
70579255 AAAATAATAAA
1 AAAATAATAAT
* *
70579266 AAAATAACAAC
1 AAAATAATAAT
* *
70579277 AGAACAATAA-
1 AAAATAATAAT
70579287 AAAATAAT
1 AAAATAAT
70579295 TTTTTTTTAC
Statistics
Matches: 94, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
10 16 0.17
11 58 0.62
12 11 0.12
13 2 0.02
14 7 0.07
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:70579220 original size:3 final size:3
Alignment explanation
Indices: 70579203--70579264 Score: 55
Period size: 3 Copynumber: 22.7 Consensus size: 3
70579193 AGAGTTATAC
* * *
70579203 AAT AAT AAC AA- AAT AAT AAT AAT -AT AAT AGT GA- AAT AAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
70579247 AAT AAT AA- AA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
70579265 AAAAATAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
2 11 0.22
3 38 0.78
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:70579231 original size:25 final size:25
Alignment explanation
Indices: 70579180--70579231 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
70579170 GTAACAAAAT
* * *
70579180 TAATAATAAAATAAGAGTTATACAA
1 TAATAACAAAATAAGAATAATACAA
* *
70579205 TAATAACAAAATAATAATAATATAA
1 TAATAACAAAATAAGAATAATACAA
70579230 TA
1 TA
70579232 GTGAAATAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (25 bp):
TAATAACAAAATAAGAATAATACAA
Found at i:70582225 original size:2 final size:2
Alignment explanation
Indices: 70582218--70582248 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70582208 AAACAAGTAA
70582218 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 A
70582249 ATAAGTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70587749 original size:31 final size:31
Alignment explanation
Indices: 70587711--70587774 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
70587701 GGATCCATTC
70587711 TTTGGTTAAATCAAATTTTGCCCCTGAATTA
1 TTTGGTTAAATCAAATTTTGCCCCTGAATTA
*
70587742 TTTGGTTAAATCAAATTTTTCCCCTGAATTA
1 TTTGGTTAAATCAAATTTTGCCCCTGAATTA
70587773 TT
1 TT
70587775 CATTTGGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTGGTTAAATCAAATTTTGCCCCTGAATTA
Found at i:70589861 original size:33 final size:33
Alignment explanation
Indices: 70589801--70589871 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
70589791 AGTAGCAGTT
* *
70589801 GTTTCCTCACCCAAGTTTGCAGGAATGGT-TGTA
1 GTTTCCTCACCCAAGGTTGCAGAAATGGTCTG-A
* *
70589834 GTTTCCTCACCCATGGTTGTAGAAATGGTCTGA
1 GTTTCCTCACCCAAGGTTGCAGAAATGGTCTGA
70589867 GTTTC
1 GTTTC
70589872 TGGACCCGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (33 bp):
GTTTCCTCACCCAAGGTTGCAGAAATGGTCTGA
Found at i:70589946 original size:33 final size:34
Alignment explanation
Indices: 70589896--70589981 Score: 86
Period size: 33 Copynumber: 2.6 Consensus size: 34
70589886 CTGGAACAGT
* * * * *
70589896 AGGAGTTCCCTCACTGAAAGGAT-GAGGAATTGT
1 AGGAGTTTCTTCACTGAAAGGATGGAAGAATGGC
** *
70589929 AGGAGTTTCTTTGCTG-AATGATGGAAGAATGGC
1 AGGAGTTTCTTCACTGAAAGGATGGAAGAATGGC
70589962 AGGAGTTTCTTCACTGAAAG
1 AGGAGTTTCTTCACTGAAAG
70589982 TCAGAGGAAC
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
32 5 0.12
33 33 0.82
34 2 0.05
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (34 bp):
AGGAGTTTCTTCACTGAAAGGATGGAAGAATGGC
Found at i:70597206 original size:31 final size:31
Alignment explanation
Indices: 70597165--70597234 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
70597155 AGAGAGAGAG
*
70597165 AGAGAGAAAGAAAAGATTTGTATTAAATAGA
1 AGAGAAAAAGAAAAGATTTGTATTAAATAGA
*
70597196 AGAGAAAAAGAAAAGATTTGTGTTAAATAGA
1 AGAGAAAAAGAAAAGATTTGTATTAAATAGA
70597227 AGAGAAAA
1 AGAGAAAA
70597235 CAAATTGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (31 bp):
AGAGAAAAAGAAAAGATTTGTATTAAATAGA
Found at i:70601981 original size:29 final size:29
Alignment explanation
Indices: 70601917--70602072 Score: 132
Period size: 29 Copynumber: 5.4 Consensus size: 29
70601907 TTTGACAGAT
* * * * *
70601917 ATAGCCACAAAGGCATCCTTTTAACAAAG
1 ATAGCCACAAAGACTTCCTTATAATAGAG
* * * *
70601946 GTCGCCACAAAGGCTTTCTTATAATAGAG
1 ATAGCCACAAAGACTTCCTTATAATAGAG
* * * * *
70601975 ATTGCCAAAAAGGCTTCATTATAATTGAG
1 ATAGCCACAAAGACTTCCTTATAATAGAG
* * *
70602004 ATCGCCAAAAAGACTTCCTTATAATTGAG
1 ATAGCCACAAAGACTTCCTTATAATAGAG
* * *
70602033 ATAGCTACAAAGACTTCCTTATAACAAAG
1 ATAGCCACAAAGACTTCCTTATAATAGAG
70602062 ATAGCCACAAA
1 ATAGCCACAAA
70602073 TGCGTCCATT
Statistics
Matches: 104, Mismatches: 23, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 104 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (29 bp):
ATAGCCACAAAGACTTCCTTATAATAGAG
Found at i:70605837 original size:46 final size:46
Alignment explanation
Indices: 70605770--70605985 Score: 315
Period size: 46 Copynumber: 4.7 Consensus size: 46
70605760 GGCAACCTGA
70605770 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*
70605816 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* *
70605862 GTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
*** * * *
70605908 GAACAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT
1 GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
* * * *
70605954 GAGTAAGACCATAGTTGAAAGACACTATGGCA
1 GTGTAAGACCATGGTTGAAAGATACCATGGCA
70605986 TCATGTCAAA
Statistics
Matches: 156, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 156 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
GTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATAAAAT
Found at i:70605965 original size:138 final size:130
Alignment explanation
Indices: 70605720--70605985 Score: 379
Period size: 138 Copynumber: 2.0 Consensus size: 130
70605710 AGTGTGCTCT
*
70605720 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
* * * * * *
70605785 TGAAAGATACCATGGCAACCTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
*
70605850 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAACAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG--A-G---TG--CAAG
*
70605915 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACT
58 ACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACC
70605980 ATGGCA
123 ATGGCA
70605986 TCATGTCAAA
Statistics
Matches: 119, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
130 48 0.40
132 1 0.01
133 1 0.01
136 2 0.02
138 67 0.56
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGTGCAAGACCATGGT
TGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACCATGGCAAC
Found at i:70608924 original size:20 final size:21
Alignment explanation
Indices: 70608880--70608926 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
70608870 AAATAAATCC
70608880 TAAGTATTGATACAATCACCA
1 TAAGTATTGATACAATCACCA
* *
70608901 -AAGTATTGATACCA-GACCA
1 TAAGTATTGATACAATCACCA
70608920 TAAGTAT
1 TAAGTAT
70608927 CAATACCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.28
Consensus pattern (21 bp):
TAAGTATTGATACAATCACCA
Found at i:70609012 original size:114 final size:114
Alignment explanation
Indices: 70608691--70609096 Score: 435
Period size: 114 Copynumber: 3.5 Consensus size: 114
70608681 CCAGTGACAA
* * * * *
70608691 AAGTATTGATACCCA-ATGCTTGTATCGATACTAAATTCGGCTTCGATGTTTTGAAAAAAATGAA
1 AAGTATTAATACCCATA-GCTGGTATCGATACCAATTTCGGCTTCGATGTTTT-CAAAAAATGAA
* *
70608755 AAATAAATACTAAGTATCGATA-CATTCACCAAGGTATCGATACCAGGGA-C-T
64 AAATAAATCCTAAGTATCGATACCA-TCACCAAAGTATCGATACCA--GACCAT
* ** * * ****
70608806 AAGAATTAATACCCATAGCTATTATCGATACCAATTTTGTCTTTCGATGTTTAGGGAAAATGAAA
1 AAGTATTAATACCCATAGCTGGTATCGATACCAATTTCGGC-TTCGATGTTTTCAAAAAATGAAA
* * *
70608871 AATAAATCCTAAGTATTGATACAATCACCAAAGTATTGATACCAGACCAT
65 AATAAATCCTAAGTATCGATACCATCACCAAAGTATCGATACCAGACCAT
* * *
70608921 AAGTATCAATACCCATAGCTGGTATCAATACCAATTTCGACTTCGATGTTTTCAAAAAATGAAAA
1 AAGTATTAATACCCATAGCTGGTATCGATACCAATTTCGGCTTCGATGTTTTCAAAAAATGAAAA
* * *
70608986 ATAAATCCTAAGTATCGATACCATCACCAATGTATCAATATCA-AGCCAT
66 ATAAATCCTAAGTATCGATACCATCACCAAAGTATCGATACCAGA-CCAT
* * * * **
70609035 AACTATTGATACCCATAGTTGGTATCGATACCAATTTAGGCTTTTATGTTTTCAAAAAATGA
1 AAGTATTAATACCCATAGCTGGTATCGATACCAATTTCGGCTTCGATGTTTTCAAAAAATGA
70609097 GGAAAAATTA
Statistics
Matches: 242, Mismatches: 43, Indels: 13
0.81 0.14 0.04
Matches are distributed among these distances:
113 3 0.01
114 115 0.48
115 112 0.46
116 12 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (114 bp):
AAGTATTAATACCCATAGCTGGTATCGATACCAATTTCGGCTTCGATGTTTTCAAAAAATGAAAA
ATAAATCCTAAGTATCGATACCATCACCAAAGTATCGATACCAGACCAT
Found at i:70614280 original size:18 final size:18
Alignment explanation
Indices: 70614257--70614294 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
70614247 TTTCCTTATT
70614257 TTCCCCTAAAACTTT-TAC
1 TTCCCCTAAAA-TTTCTAC
*
70614275 TTCCCCTCAAATTTCTAC
1 TTCCCCTAAAATTTCTAC
70614293 TT
1 TT
70614295 TCCTCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (18 bp):
TTCCCCTAAAATTTCTAC
Found at i:70614341 original size:25 final size:26
Alignment explanation
Indices: 70614278--70614331 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
70614268 CTTTTACTTC
*
70614278 CCCTC-AAA-TTTCTACTTTCCTCAAA
1 CCCTCAAAACTTT-TACTTCCCTCAAA
70614303 CCCTCAAAACTTTTACTTCCCTCAAA
1 CCCTCAAAACTTTTACTTCCCTCAAA
70614329 CCC
1 CCC
70614332 CCAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 5 0.19
26 18 0.69
27 3 0.12
ACGTcount: A:0.28, C:0.41, G:0.00, T:0.31
Consensus pattern (26 bp):
CCCTCAAAACTTTTACTTCCCTCAAA
Found at i:70614617 original size:18 final size:17
Alignment explanation
Indices: 70614596--70614629 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
70614586 TTAAAAAAGC
*
70614596 ATATTTTTTTTACATTTA
1 ATATATTTTTTA-ATTTA
70614614 ATATATTTTTTAATTT
1 ATATATTTTTTAATTT
70614630 CAAAATACAT
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:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATATTTTTTAATTTA
Found at i:70621178 original size:40 final size:40
Alignment explanation
Indices: 70621123--70621203 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
70621113 AAAAGGAAAT
*
70621123 GCATACAGTTGGTTTCATGTGTATATGTTGATGTTCAAAG
1 GCATACAGTTGGTTTCATGTGTACATGTTGATGTTCAAAG
70621163 GCATACAGTTGGTTTCATGTGTACATGTTGATGTTCAAAG
1 GCATACAGTTGGTTTCATGTGTACATGTTGATGTTCAAAG
70621203 G
1 G
70621204 AATGGTAGGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (40 bp):
GCATACAGTTGGTTTCATGTGTACATGTTGATGTTCAAAG
Found at i:70623390 original size:79 final size:76
Alignment explanation
Indices: 70623300--70623498 Score: 238
Period size: 77 Copynumber: 2.5 Consensus size: 76
70623290 GCAGGAAAAG
* ** * *
70623300 AATCCTGAAACATAATTATTCAATTGATTTCTGTTTGAAACAAAAAAATTGAACAAATCCTTTTA
1 AATCCTGAAACA-AATTGTTCAATTGATTTCTGTTTGAAAC-AAAAAATCAAACAAATCCTATCA
70623365 AACAACAAGAATA
64 AACAACAAGAATA
70623378 ACATCCTGAAACAAAATTGTTCAATTGATTTTCTGTTTGAAAC-AAAAATCAAACAAATCCTATC
1 A-ATCCTGAAAC-AAATTGTTCAATTGA-TTTCTGTTTGAAACAAAAAATCAAACAAATCCTATC
** *
70623442 AAACAGTAGGAATA
63 AAACAACAAGAATA
* *
70623456 AATCTTGAAACAAGATTGTTCAATTGAATTTTTGTTTGAAACA
1 AATCCTGAAACAA-ATTGTTCAATTG-ATTTCTGTTTGAAACA
70623499 TAATACAATC
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
76 2 0.02
77 34 0.32
78 31 0.30
79 23 0.22
80 15 0.14
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (76 bp):
AATCCTGAAACAAATTGTTCAATTGATTTCTGTTTGAAACAAAAAATCAAACAAATCCTATCAAA
CAACAAGAATA
Found at i:70623487 original size:78 final size:76
Alignment explanation
Indices: 70623300--70623498 Score: 240
Period size: 78 Copynumber: 2.6 Consensus size: 76
70623290 GCAGGAAAAG
* ** * *
70623300 AATCCTGAAACATAATTATTCAATTGA-TTTCTGTTTGAAACAAAAAAATTGAACAAATCCTTTT
1 AATCCTGAAACA-AATTGTTCAATTGATTTTCTGTTTGAAAC--AAAAATCAAACAAATCCTATC
70623364 AAACAACAAGAATA
63 AAACAACAAGAATA
70623378 ACATCCTGAAACAAAATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAATCCTATCA
1 A-ATCCTGAAAC-AAATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAATCCTATCA
** *
70623443 AACAGTAGGAATA
64 AACAACAAGAATA
*
70623456 AATCTTGAAACAAGATTGTTCAATTGAATTTT-TGTTTGAAACA
1 AATCCTGAAACAA-ATTGTTCAATTG-ATTTTCTGTTTGAAACA
70623499 TAATACAATC
Statistics
Matches: 107, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
76 2 0.02
77 32 0.30
78 35 0.33
79 23 0.21
80 15 0.14
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (76 bp):
AATCCTGAAACAAATTGTTCAATTGATTTTCTGTTTGAAACAAAAATCAAACAAATCCTATCAAA
CAACAAGAATA
Found at i:70631213 original size:2 final size:2
Alignment explanation
Indices: 70631206--70631235 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
70631196 ATCATACGAC
70631206 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
70631236 GACCTAGGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70631748 original size:15 final size:15
Alignment explanation
Indices: 70631728--70631760 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
70631718 ACTCCATTTT
70631728 ATTTATATTAGGATA
1 ATTTATATTAGGATA
70631743 ATTTATATTAGGATA
1 ATTTATATTAGGATA
70631758 ATT
1 ATT
70631761 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:70636816 original size:40 final size:40
Alignment explanation
Indices: 70636711--70636927 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
70636701 CGGATGATAA
* *
70636711 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
70636751 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
70636790 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
70636830 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
70636870 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
70636910 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
70636928 TACTTGGTTT
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 51 0.31
40 115 0.69
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:70636925 original size:119 final size:119
Alignment explanation
Indices: 70636707--70636927 Score: 331
Period size: 119 Copynumber: 1.9 Consensus size: 119
70636697 TATTCGGATG
* *
70636707 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
* * *
70636772 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
70636826 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
70636890 ATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 ATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
70636928 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
118 2 0.02
119 64 0.70
120 26 0.28
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:70644081 original size:40 final size:40
Alignment explanation
Indices: 70643976--70644192 Score: 291
Period size: 40 Copynumber: 5.5 Consensus size: 40
70643966 CGGATGATAA
* *
70643976 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
70644016 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
70644055 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
70644096 -CGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
70644135 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
70644175 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
70644193 TACTTGGTTT
Statistics
Matches: 160, Mismatches: 12, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 52 0.32
40 106 0.66
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:70644182 original size:119 final size:119
Alignment explanation
Indices: 70643971--70644192 Score: 315
Period size: 119 Copynumber: 1.9 Consensus size: 119
70643961 ATATTCGGAT
* * *
70643971 GATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCA
1 GATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCA
* * *
70644036 TTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC
66 TTTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTAC
* *
70644090 GATAATCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGG
1 GATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGG
*
70644154 CATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
64 CATTTGAGCAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
70644193 TACTTGGTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
118 2 0.02
119 63 0.69
120 26 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (119 bp):
GATAACCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCA
TTTGAGCAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTAC
Found at i:70647877 original size:93 final size:93
Alignment explanation
Indices: 70647769--70647938 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
70647759 GCCCCTAAGT
* * *
70647769 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
70647834 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
*
70647862 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
70647927 CGAGTTCGGATG
66 CAAGTTCGGATG
70647939 TCCAAATATC
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:70647936 original size:46 final size:46
Alignment explanation
Indices: 70647764--70647936 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
70647754 AACCCGCCCC
* * *
70647764 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
70647810 TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* * *
70647858 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
70647903 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
70647937 TGTCCAAATA
Statistics
Matches: 103, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 59 0.57
47 27 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:70648391 original size:30 final size:30
Alignment explanation
Indices: 70648357--70648416 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
70648347 ATTTAATACG
*
70648357 AACTTTAGAAAAATTACACTTTTGTCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
70648387 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
70648417 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:70649740 original size:17 final size:17
Alignment explanation
Indices: 70649718--70649769 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 17
70649708 AGGCAACCCA
70649718 ATTTATATTTATATTTT
1 ATTTATATTTATATTTT
70649735 ATTTAT-TTT-TA-TTT
1 ATTTATATTTATATTTT
70649749 ATTT-TATCTTATTATTTT
1 ATTTATAT-TTA-TATTTT
70649767 ATT
1 ATT
70649770 ATTTATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.03
14 8 0.27
15 4 0.13
16 3 0.10
17 8 0.27
18 6 0.20
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATATTTATATTTT
Found at i:70649742 original size:21 final size:21
Alignment explanation
Indices: 70649718--70649780 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 21
70649708 AGGCAACCCA
70649718 ATTTATATTTATATTTTATTT
1 ATTTATATTTATATTTTATTT
*
70649739 ATTTTTA-TT-TATTTTATCTT
1 ATTTATATTTATATTTTAT-TT
70649759 A-TTAT-TTTAT-TATTTA-TT
1 ATTTATATTTATAT-TTTATTT
70649777 ATTT
1 ATTT
70649781 TCAGATATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
18 3 0.09
19 16 0.46
20 10 0.29
21 6 0.17
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (21 bp):
ATTTATATTTATATTTTATTT
Found at i:70649747 original size:15 final size:17
Alignment explanation
Indices: 70649718--70649781 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 17
70649708 AGGCAACCCA
70649718 ATTTATATT-TATATTTT
1 ATTTATATTAT-TATTTT
70649735 ATTTAT-TT-TTA-TTT
1 ATTTATATTATTATTTT
*
70649749 ATTTTATCTTATTATTTT
1 A-TTTATATTATTATTTT
70649767 A-TTAT-TTATTATTTT
1 ATTTATATTATTATTTT
70649782 CAGATATTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.09
15 17 0.40
16 9 0.21
17 9 0.21
18 4 0.09
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTATATTATTATTTT
Found at i:70651381 original size:15 final size:15
Alignment explanation
Indices: 70651361--70651393 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
70651351 ACTCCATTTT
70651361 ATTTATATTAGGATA
1 ATTTATATTAGGATA
70651376 ATTTATATTAGGATA
1 ATTTATATTAGGATA
70651391 ATT
1 ATT
70651394 ATTAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
ATTTATATTAGGATA
Found at i:70663009 original size:40 final size:39
Alignment explanation
Indices: 70662844--70663027 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
70662834 AAATTGAATG
* * *
70662844 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
70662884 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * * *
70662924 ACATCCGGGCTAAGACCCGAAGGCATTCGTTCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
70662964 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
70663003 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
70663028 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 102 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:70669052 original size:42 final size:42
Alignment explanation
Indices: 70668941--70669060 Score: 168
Period size: 43 Copynumber: 2.8 Consensus size: 42
70668931 TACCATACCA
* *
70668941 ATGCCATATCCCAGATATGGTCTTACATGAAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCGTATCG
* * *
70668983 ATGCCAATAGCCTAGTTATGGTCTTACACGAAGTCTCGTATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGAAATCTCGTATCG
* *
70669026 ATGGCATATCCTAGATATGGTCTTACACGTAATCT
1 ATGCCATATCCTAGATATGGTCTTACACGAAATCT
70669061 TAGTAAACCT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 31 0.46
43 36 0.54
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGAAATCTCGTATCG
Found at i:70675789 original size:21 final size:21
Alignment explanation
Indices: 70675747--70675789 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70675737 TTATGGCCTT
*
70675747 AAATGATTGGTTTATGTATGG
1 AAATGATTGGTATATGTATGG
* *
70675768 AAATGATTGGTATGTGTTTGG
1 AAATGATTGGTATATGTATGG
70675789 A
1 A
70675790 GATATTTGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (21 bp):
AAATGATTGGTATATGTATGG
Found at i:70691085 original size:21 final size:22
Alignment explanation
Indices: 70691059--70691103 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
70691049 ATATAGTTAC
* *
70691059 AATTAAAGA-ATAAATATGGTT
1 AATTAAAGACATAAACATGATT
*
70691080 AATTAATGACATAAACATGATT
1 AATTAAAGACATAAACATGATT
70691102 AA
1 AA
70691104 CTAAGTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.53, C:0.04, G:0.11, T:0.31
Consensus pattern (22 bp):
AATTAAAGACATAAACATGATT
Found at i:70695751 original size:27 final size:28
Alignment explanation
Indices: 70695694--70695763 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
70695684 AAATTTGTAC
**
70695694 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
70695722 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
70695749 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70695764 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:70695772 original size:27 final size:27
Alignment explanation
Indices: 70695694--70695775 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
70695684 AAATTTGTAC
* *
70695694 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
70695722 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
70695749 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
70695776 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:70703833 original size:27 final size:28
Alignment explanation
Indices: 70703776--70703845 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
70703766 AAATTTGTAC
**
70703776 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
70703804 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
70703831 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
70703846 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:70703854 original size:27 final size:27
Alignment explanation
Indices: 70703776--70703857 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
70703766 AAATTTGTAC
* *
70703776 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
70703804 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
70703831 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
70703858 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:70708345 original size:2 final size:2
Alignment explanation
Indices: 70708338--70708368 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
70708328 AAGATAATAG
70708338 TA TA 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 TA TA T
70708369 TCCAAAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70710286 original size:2 final size:2
Alignment explanation
Indices: 70710279--70710311 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
70710269 ACCTTTATTT
70710279 TA TA TA 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 TA TA TA T
70710312 GATGTTCATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:70710698 original size:2 final size:2
Alignment explanation
Indices: 70710693--70710720 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
70710683 AAAAAAAAAA
70710693 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
70710721 CTTTTGAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70713528 original size:33 final size:33
Alignment explanation
Indices: 70713484--70713559 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
70713474 GAGGAATAGT
* * *
70713484 AGTTCCTTCACTGTATGACGGAGGAACAGCTGG
1 AGTTTCTTCACTGAATGACGGAGGAACAGATGG
**
70713517 AGTTTCTTCACTGAATGTTGGAGGAACAGATGG
1 AGTTTCTTCACTGAATGACGGAGGAACAGATGG
70713550 AGTTTCTTCA
1 AGTTTCTTCA
70713560 TCCAAGGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (33 bp):
AGTTTCTTCACTGAATGACGGAGGAACAGATGG
Found at i:70713575 original size:33 final size:33
Alignment explanation
Indices: 70713505--70713631 Score: 91
Period size: 33 Copynumber: 3.8 Consensus size: 33
70713495 TGTATGACGG
* * **
70713505 AGGAACAGCTGGAGTTTCTTCA-CTGAATGTTGG
1 AGGAACAGCTGGAGTTTCTTCATC-CAAGGTTAC
* *
70713538 AGGAACAGATGGAGTTTCTTCATCCAAGGTTTC
1 AGGAACAGCTGGAGTTTCTTCATCCAAGGTTAC
* * * *
70713571 AGGAATA-CTGGGGCTTTCCTC-TGCCAAGGTCAC
1 AGGAACAGCTGGAG-TTTCTTCAT-CCAAGGTTAC
*
70713604 AGGATCAG-TAGGAGTTTCTTCATCCAAG
1 AGGAACAGCT-GGAGTTTCTTCATCCAAG
70713632 TTAGTTGGAA
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
32 5 0.07
33 63 0.86
34 5 0.07
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (33 bp):
AGGAACAGCTGGAGTTTCTTCATCCAAGGTTAC
Found at i:70720754 original size:21 final size:21
Alignment explanation
Indices: 70720714--70720776 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
70720704 GTTTTAAGAA
*
70720714 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTA-TTTTAT
70720735 TTGTTTTAATATTTATTTTAT
1 TTGTTTTAATATTTATTTTAT
* * *
70720756 GT-TTTTAA-ATATATTTGAT
1 TTGTTTTAATATTTATTTTAT
70720775 TT
1 TT
70720777 ATTATATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 10 0.28
20 6 0.17
21 17 0.47
22 3 0.08
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (21 bp):
TTGTTTTAATATTTATTTTAT
Found at i:70720971 original size:11 final size:11
Alignment explanation
Indices: 70720955--70720994 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
70720945 TTTACTTGGG
70720955 CCCGGCCCGAA
1 CCCGGCCCGAA
70720966 CCCGGCCCGAA
1 CCCGGCCCGAA
*
70720977 CCCGGCCCG-G
1 CCCGGCCCGAA
70720987 CCCGGCCC
1 CCCGGCCC
70720995 ATGATCACCT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 8 0.29
11 20 0.71
ACGTcount: A:0.10, C:0.60, G:0.30, T:0.00
Consensus pattern (11 bp):
CCCGGCCCGAA
Found at i:70723592 original size:25 final size:25
Alignment explanation
Indices: 70723530--70723583 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
70723520 TTTTTGGGTT
*
70723530 TTAATAATTATTTTTATATTTAAAC
1 TTAATAATTATTTTTATATTAAAAC
*
70723555 TTAATAATTATTTTTATATTAAAAT
1 TTAATAATTATTTTTATATTAAAAC
70723580 TTAA
1 TTAA
70723584 GTTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATAATTATTTTTATATTAAAAC
Found at i:70724711 original size:20 final size:20
Alignment explanation
Indices: 70724674--70724711 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
70724664 CTTTGCAGAG
*
70724674 TAAGGGACGAAACTTTCCTC
1 TAAGGGACGAAACCTTCCTC
70724694 TAAGGGAC-AATACCTTCC
1 TAAGGGACGAA-ACCTTCC
70724712 ATTGTTGAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
TAAGGGACGAAACCTTCCTC
Found at i:70726283 original size:48 final size:48
Alignment explanation
Indices: 70726156--70726325 Score: 138
Period size: 48 Copynumber: 3.7 Consensus size: 48
70726146 TGGTTAACGA
* * * *
70726156 GATCCCCTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATACGC
1 GATCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATCGATAAGC
* * * * * * *
70726204 GATCCCGTGTAAGACCTTATC-AGGGATATGGCTTCGGCATCGGTAAGT
1 GATCCCGTATAAGACCATGTCTA-GGACATGGCATCGGCATCGATAAGC
** * *
70726252 GATTTCGTATAAGACCATGTCTAGGACATGGCATC--AAT--ATGAG-
1 GATCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATCGATAAGC
*
70726295 G-TCCCGTATAAGACCATGTCTGGGACATGGC
1 GATCCCGTATAAGACCATGTCTAGGACATGGC
70726326 GTTGGCACTG
Statistics
Matches: 98, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
42 27 0.28
43 1 0.01
44 3 0.03
46 2 0.02
48 64 0.65
49 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (48 bp):
GATCCCGTATAAGACCATGTCTAGGACATGGCATCGGCATCGATAAGC
Found at i:70726349 original size:90 final size:90
Alignment explanation
Indices: 70726255--70726423 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
70726245 GGTAAGTGAT
** * *
70726255 TTCGTATAAGACCATGTCTAGGACATGGCATCAATATGAGGTCCCGTATAAGACCATGTCTGGGA
1 TTCGTATAAGACCATACCTAGGACATGGCATCAATATGAGGTCCCATATAAGACCATGTCTAGGA
70726320 CATGGCGTTGGCACTGATTTAAGAC
66 CATGGCGTTGGCACTGATTTAAGAC
* * * * * * *
70726345 TTCGTATAAGACCATACCTGGGATATGGCATCGATGTGTGGTCCCATGTAAGACTATGTCTAGGA
1 TTCGTATAAGACCATACCTAGGACATGGCATCAATATGAGGTCCCATATAAGACCATGTCTAGGA
*
70726410 CATGGCTTTGGCAC
66 CATGGCGTTGGCAC
70726424 CCTATTTGGT
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 67 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (90 bp):
TTCGTATAAGACCATACCTAGGACATGGCATCAATATGAGGTCCCATATAAGACCATGTCTAGGA
CATGGCGTTGGCACTGATTTAAGAC
Found at i:70729528 original size:93 final size:93
Alignment explanation
Indices: 70729369--70729541 Score: 294
Period size: 93 Copynumber: 1.9 Consensus size: 93
70729359 CGCCCATAAG
* * *
70729369 CGAACTTGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
70729434 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
70729462 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
70729526 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
70729542 CAAACATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Done.