Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 253 of 332
Found at i:84378852 original size:18 final size:17
Alignment explanation
Indices: 84378819--84378866 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
84378809 TAATTCATTT
84378819 TCTCTTCTTT-CT-TCAA
1 TCTCTT-TTTCCTCTCAA
*
84378835 TTTCTTTTTCACTCTCAA
1 TCTCTTTTTC-CTCTCAA
84378853 TCTCTTTTTCCTCT
1 TCTCTTTTTCCTCT
84378867 TTTTCATTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.11
16 5 0.19
17 6 0.22
18 13 0.48
ACGTcount: A:0.10, C:0.31, G:0.00, T:0.58
Consensus pattern (17 bp):
TCTCTTTTTCCTCTCAA
Found at i:84378867 original size:27 final size:27
Alignment explanation
Indices: 84378837--84378892 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
84378827 TTCTTCAATT
84378837 TCTTTTTCACTCTCAATCTCTTTTTCC
1 TCTTTTTCACTCTCAATCTCTTTTTCC
* ** *
84378864 TCTTTTTCATTCTCTTTTTCTTTTTCC
1 TCTTTTTCACTCTCAATCTCTTTTTCC
84378891 TC
1 TC
84378893 ACTTGTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.62
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTCC
Found at i:84386543 original size:15 final size:15
Alignment explanation
Indices: 84386520--84386570 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
84386510 ATACCCATGG
*
84386520 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
84386535 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
84386550 TCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
84386564 CCTTAAA
1 CCATAAA
84386571 TATTAAACCG
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:84386747 original size:16 final size:17
Alignment explanation
Indices: 84386723--84386756 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
84386713 AAAGTTATAG
*
84386723 TTTAGGGTTTAG-GGTT
1 TTTAAGGTTTAGAGGTT
84386739 TTTAAGGTTTAGAGGTT
1 TTTAAGGTTTAGAGGTT
84386756 T
1 T
84386757 AGTGTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (17 bp):
TTTAAGGTTTAGAGGTT
Found at i:84386955 original size:41 final size:41
Alignment explanation
Indices: 84386814--84386953 Score: 228
Period size: 41 Copynumber: 3.4 Consensus size: 41
84386804 AGGGTTATAT
*
84386814 GACTTTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
84386855 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
* * *
84386896 GACTTTTAGCGGCGTTTTACCAAAAGTGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
*
84386937 G-TTTTTAGCGGCGTTTT
1 GACTTTTAGCGGCGTTTT
84386954 TAGTAAAACC
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 15 0.16
41 79 0.84
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCC
Found at i:84387443 original size:40 final size:40
Alignment explanation
Indices: 84387379--84387455 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
84387369 TTTATACTAA
* * *
84387379 TTTTTTGTTTTGAATTTTTAAATTTATTTTGATAAAATGAG
1 TTTTTTGTTTTCAACTTTTAAATTTA-TTTGACAAAATGAG
*
84387420 TTTTTT-TTTTCAACTTTTGAATTTATTTGACAAAAT
1 TTTTTTGTTTTCAACTTTTAAATTTATTTGACAAAAT
84387456 TTTAAAGTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 10 0.31
40 16 0.50
41 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (40 bp):
TTTTTTGTTTTCAACTTTTAAATTTATTTGACAAAATGAG
Found at i:84387977 original size:125 final size:124
Alignment explanation
Indices: 84387788--84388130 Score: 512
Period size: 125 Copynumber: 2.7 Consensus size: 124
84387778 GAACGAAGAC
* * *
84387788 AATCTATTTACCTTCACAATATAT-CAGAATGA-ATCATGTTCTTACCTACCCTAAAATTAAATG
1 AATCTATTTACCTTCACAATA-ATCCATAAT-ATATCATGCTCTTACCTA-CCTAAAATTAGATG
84387851 AATTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
63 AATTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
84387913 AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTATCCTAAAATTAGATGAA
1 AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTA-CCTAAAATTAGATGAA
* *
84387978 TTGATTTAGGTCAACGATTTAAAAAACCCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
65 TTGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
* * * **
84388038 AATCTATTTACCTTCACAATAATCCATAATATACCATGCTCTTATCTACCTTAAACTTAGACAAA
1 AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTACC-TAAAATTAGATGAA
84388103 TTGATTTAGGTCAA-AGATTTAGAAAAAA
65 TTGATTTAGGTCAACA-ATTTA-AAAAAA
84388131 AGGCACCATG
Statistics
Matches: 200, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
124 5 0.03
125 190 0.95
126 5 0.03
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (124 bp):
AATCTATTTACCTTCACAATAATCCATAATATATCATGCTCTTACCTACCTAAAATTAGATGAAT
TGATTTAGGTCAACAATTTAAAAAAACCTAATGACAAGCATTAAAAAGGGAGCGTGAAT
Found at i:84395730 original size:21 final size:21
Alignment explanation
Indices: 84395683--84395730 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
84395673 TACTAACTTT
*
84395683 AAAAGTCAAATTACAAAGGAAC
1 AAAA-TCAAATTACAAAGAAAC
* * *
84395705 TAAATCAAGTTACAAATAAAC
1 AAAATCAAATTACAAAGAAAC
84395726 AAAAT
1 AAAAT
84395731 AAACAAAATG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.19
Consensus pattern (21 bp):
AAAATCAAATTACAAAGAAAC
Found at i:84398280 original size:6 final size:6
Alignment explanation
Indices: 84398271--84398315 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
84398261 TGGGTGCTAC
* * *
84398271 TGCTGG TGCTGG TGCTGG TGCCGG TGCTGG TGCCGG TGCCGG TGC
1 TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGCTGG TGC
84398316 CGTTGAGGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.00, C:0.24, G:0.49, T:0.27
Consensus pattern (6 bp):
TGCTGG
Found at i:84398286 original size:18 final size:18
Alignment explanation
Indices: 84398263--84398303 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
84398253 TGAACTAGTG
*
84398263 GGTGCTACTGCTGGTGCT
1 GGTGCTACTGCCGGTGCT
**
84398281 GGTGCTGGTGCCGGTGCT
1 GGTGCTACTGCCGGTGCT
84398299 GGTGC
1 GGTGC
84398304 CGGTGCCGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.22, G:0.46, T:0.29
Consensus pattern (18 bp):
GGTGCTACTGCCGGTGCT
Found at i:84398296 original size:12 final size:12
Alignment explanation
Indices: 84398271--84398317 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
84398261 TGGGTGCTAC
*
84398271 TGCTGGTGCTGG
1 TGCTGGTGCCGG
84398283 TGCTGGTGCCGG
1 TGCTGGTGCCGG
84398295 TGCTGGTGCCGG
1 TGCTGGTGCCGG
*
84398307 TGCCGGTGCCG
1 TGCTGGTGCCG
84398318 TTGAGGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.00, C:0.26, G:0.49, T:0.26
Consensus pattern (12 bp):
TGCTGGTGCCGG
Found at i:84398308 original size:18 final size:18
Alignment explanation
Indices: 84398275--84398315 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
84398265 TGCTACTGCT
*
84398275 GGTGCTGGTGCTGGTGCC
1 GGTGCTGGTGCCGGTGCC
84398293 GGTGCTGGTGCCGGTGCC
1 GGTGCTGGTGCCGGTGCC
84398311 GGTGC
1 GGTGC
84398316 CGTTGAGGGG
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:0.00, C:0.24, G:0.51, T:0.24
Consensus pattern (18 bp):
GGTGCTGGTGCCGGTGCC
Found at i:84400866 original size:33 final size:33
Alignment explanation
Indices: 84400738--84400853 Score: 144
Period size: 33 Copynumber: 3.5 Consensus size: 33
84400728 TCAACATAAG
* *
84400738 TGATTGGAACATCTATCATGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
* **
84400771 TGATTGGAACATCTAT-TGGTGCAGCTTTGTCAT
1 TGATTGGAACATCTATCAGG-GCAGCTTCATCAT
* * *
84400804 TTATTGCAACATCTATTAGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAT
84400837 TGATTGGAACATCTATC
1 TGATTGGAACATCTATC
84400854 GGGGTCGTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
32 1 0.01
33 65 0.96
34 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAT
Found at i:84405495 original size:101 final size:101
Alignment explanation
Indices: 84405320--84405523 Score: 390
Period size: 101 Copynumber: 2.0 Consensus size: 101
84405310 CATAACTTAT
*
84405320 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTGGAGTTAAACTAGCTTCCAAAAGTAAAT
1 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
84405385 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
66 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
84405421 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
1 ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
*
84405486 TTGCTATTAATTTAAGTGTTGATTTACAAGTAAACA
66 TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
84405522 AT
1 AT
84405524 AGCTTATAAA
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (101 bp):
ATGGAAAGTGTTGAATAACTTTTATAAAATCTTCTTTAGAGTTAAACTAGCTTCCAAAAGTAAAT
TTACTATTAATTTAAGTGTTGATTTACAAGTAAACA
Found at i:84407916 original size:20 final size:20
Alignment explanation
Indices: 84407886--84407932 Score: 85
Period size: 20 Copynumber: 2.3 Consensus size: 20
84407876 ATTACAAATT
84407886 TTGATCTTTCTAAATCACTAG
1 TTGA-CTTTCTAAATCACTAG
84407907 TTGACTTTCTAAATCACTAG
1 TTGACTTTCTAAATCACTAG
84407927 TTGACT
1 TTGACT
84407933 AAGTATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 22 0.85
21 4 0.15
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (20 bp):
TTGACTTTCTAAATCACTAG
Found at i:84409469 original size:174 final size:176
Alignment explanation
Indices: 84409178--84409523 Score: 617
Period size: 174 Copynumber: 2.0 Consensus size: 176
84409168 TGAATAGCAT
84409178 ATATCTTTATAATTTTTTAAATGATTAAATCAAAATTTTATCATTTTTAGGAGGCCAAAGTACAA
1 ATATCTTTATAATTTTTTAAATGATTAAATCAAAATTTTATCATTTTTAGGAGGCCAAAGTACAA
*
84409243 TTTCACATTTACTAATTTAAAACTTTAAAGAAAATTAAAAGGCCTAAATGGAAAATTTACCATTT
66 TTTCACATTTACTAATTTAAAACTTTAAAAAAAATTAAAAGGCCTAAATGGAAAATTTACCATTT
84409308 TAAGGGGGATTAGG-G-CCTTGCCAGCCCCCTTGGCTATGCCCCTAG
131 TAAGGGGGATT-GGAGCCCTTGCCAGCCCCCTTGGCTATGCCCCTAG
* *
84409353 ATATCTTTATAA-TTTTTAAATTATTAAATCAAAATTTTATCATTTTTAGGGGGCCAAAGTACAA
1 ATATCTTTATAATTTTTTAAATGATTAAATCAAAATTTTATCATTTTTAGGAGGCCAAAGTACAA
* *
84409417 TTTTACATTTACTAATTTAAAACTTTAAAAAAAATTAAAAGGCCTAAATGGAAAGTTTACCATTT
66 TTTCACATTTACTAATTTAAAACTTTAAAAAAAATTAAAAGGCCTAAATGGAAAATTTACCATTT
84409482 TAAGGGGGATTGGAGCCCTTGCCAGCCCCCTTGGCTATGCCC
131 TAAGGGGGATTGGAGCCCTTGCCAGCCCCCTTGGCTATGCCC
84409524 TAAGTATCTA
Statistics
Matches: 164, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
173 2 0.01
174 124 0.76
175 38 0.23
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (176 bp):
ATATCTTTATAATTTTTTAAATGATTAAATCAAAATTTTATCATTTTTAGGAGGCCAAAGTACAA
TTTCACATTTACTAATTTAAAACTTTAAAAAAAATTAAAAGGCCTAAATGGAAAATTTACCATTT
TAAGGGGGATTGGAGCCCTTGCCAGCCCCCTTGGCTATGCCCCTAG
Found at i:84416749 original size:88 final size:87
Alignment explanation
Indices: 84416589--84416756 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
84416579 CTTGAATTGA
* * **
84416589 ATTTATTTTAATTTTGGCCCTAGGATTTAGATTTATGTTTTAATAGATTTTATTAGATTTTAGTT
1 ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTATGCTTTAATAGATTCAATTAGATTTTAGTT
84416654 CAAAATTTAGGTTATGGATCAG
66 CAAAATTTAGGTTATGGATCAG
* * * *
84416676 ATTTATTTTATTTTTAGCCCTATGATTTATATTT-TGGGCTTTAATATATTCAATTAGATTTTAG
1 ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTAT--GCTTTAATAGATTCAATTAGATTTTAG
* *
84416740 TTTAGAATTTAGGTTAT
64 TTCAAAATTTAGGTTAT
84416757 AAATATTCGT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 30 0.43
88 38 0.55
ACGTcount: A:0.28, C:0.06, G:0.14, T:0.52
Consensus pattern (87 bp):
ATTTATTTTAATTTTAGCCCTAGGATTTAGATTTATGCTTTAATAGATTCAATTAGATTTTAGTT
CAAAATTTAGGTTATGGATCAG
Found at i:84419534 original size:46 final size:48
Alignment explanation
Indices: 84419415--84419543 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 48
84419405 TATTTGAGTT
* * *
84419415 CCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGGCA
* ** *
84419461 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCAA-ATGC-
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGGCA
84419508 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84419544 GCGGGTTACA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
46 33 0.48
47 25 0.36
48 5 0.07
50 6 0.09
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (48 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGGCA
Found at i:84419759 original size:12 final size:12
Alignment explanation
Indices: 84419742--84419769 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
84419732 AGCAAAACAG
84419742 GTTTTTAGCGGC
1 GTTTTTAGCGGC
84419754 GTTTTTAGCGGC
1 GTTTTTAGCGGC
84419766 GTTT
1 GTTT
84419770 GAATGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.32, T:0.46
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:84419822 original size:39 final size:40
Alignment explanation
Indices: 84419775--84419862 Score: 124
Period size: 39 Copynumber: 2.2 Consensus size: 40
84419765 CGTTTGAATG
84419775 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGC-TTTTC
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
* ** * *
84419814 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
84419854 AAAAACGCC
1 AAAAACGCC
84419863 GCTATATGTA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
39 30 0.70
40 13 0.30
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (40 bp):
AAAAACGCCACTAAAGAACGAGCATTAGCGGCGCTTTTTC
Found at i:84419882 original size:40 final size:40
Alignment explanation
Indices: 84419775--84419892 Score: 118
Period size: 40 Copynumber: 3.0 Consensus size: 40
84419765 CGTTTGAATG
*
84419775 AAAAACGCCACTAAAGA-ACGAGC-ATTAGCGGCGC-TTTTC
1 AAAAACGCCGCTAAAGATAC-A-CTATTAGCGGCGCTTTTTC
** * *
84419814 AAAAACGCCGCTAAAGATTGAGTATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGATACACTATTAGCGGCGCTTTTTC
* *
84419854 AAAAACGCCGCTATATG-TACACTTTTAGCGGCGCTTTTT
1 AAAAACGCCGCTA-AAGATACACTATTAGCGGCGCTTTTT
84419893 AGAAAGCGCC
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
39 28 0.43
40 35 0.54
41 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGATACACTATTAGCGGCGCTTTTTC
Found at i:84420420 original size:49 final size:49
Alignment explanation
Indices: 84420367--84420465 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
84420357 AATTGTAAAT
84420367 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
* *
84420416 GAGATGGTATTATTTTTAAAATATTGAATTAATTATCATTATATTTTAG
1 GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
84420465 G
1 G
84420466 GTTTACGATA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.47
Consensus pattern (49 bp):
GAGATAGTATTAATTTTAAAATATTGAATTAATTATCATTATATTTTAG
Found at i:84420618 original size:22 final size:22
Alignment explanation
Indices: 84420568--84420628 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
84420558 GGGTTAAAAG
* *
84420568 TTAGGGTTTAAGTTTTAGGGGG
1 TTAGGGTTTAAGGTTTAGGGGA
*
84420590 TTGGGGTTTAAGGTTTA-GGGA
1 TTAGGGTTTAAGGTTTAGGGGA
84420611 TTAAGGG-TTAAGGGTTTA
1 TT-AGGGTTTAA-GGTTTA
84420629 TATTTTATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 9 0.27
22 24 0.73
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (22 bp):
TTAGGGTTTAAGGTTTAGGGGA
Found at i:84426406 original size:43 final size:43
Alignment explanation
Indices: 84426359--84426449 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
84426349 TTTTTAGTGA
84426359 CGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGG
1 CGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGG
* * *
84426402 CGTTTGTGGGATAAGCGCCGCTAAAGGTCATGACTTTTAGCGG
1 CGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGG
84426445 CGTTT
1 CGTTT
84426450 TTTTCATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (43 bp):
CGTTTGTAGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGG
Found at i:84435083 original size:24 final size:24
Alignment explanation
Indices: 84435051--84435101 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
84435041 TATTTTTTTA
84435051 TCATAAGAACGCGATGAAAAGTGT
1 TCATAAGAACGCGATGAAAAGTGT
84435075 TCATAAGAACGCGATGAAAAGTGT
1 TCATAAGAACGCGATGAAAAGTGT
84435099 TCA
1 TCA
84435102 ATAGTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (24 bp):
TCATAAGAACGCGATGAAAAGTGT
Found at i:84437554 original size:33 final size:33
Alignment explanation
Indices: 84437512--84437593 Score: 146
Period size: 33 Copynumber: 2.5 Consensus size: 33
84437502 TCAACATAAG
84437512 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
* *
84437545 TGATTGGAACATCTATCGGGGCAGCTTCATCAT
1 TGATTGGAACATCTATCAGGGCAGCTTCATCAA
84437578 TGATTGGAACATCTAT
1 TGATTGGAACATCTAT
84437594 GGAGGCAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (33 bp):
TGATTGGAACATCTATCAGGGCAGCTTCATCAA
Found at i:84437607 original size:33 final size:33
Alignment explanation
Indices: 84437512--84437611 Score: 132
Period size: 33 Copynumber: 3.0 Consensus size: 33
84437502 TCAACATAAG
* *
84437512 TGATTGGAACATCTAT-CAGGGCAGCTTCATCAA
1 TGATTGGAACATCTATGGA-GGCAGCTTCATCAT
84437545 TGATTGGAACATCTATCGG-GGCAGCTTCATCAT
1 TGATTGGAACATCTAT-GGAGGCAGCTTCATCAT
**
84437578 TGATTGGAACATCTATGGAGGCAATTTCATCAT
1 TGATTGGAACATCTATGGAGGCAGCTTCATCAT
84437611 T
1 T
84437612 CTGTTCAACT
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
32 2 0.03
33 58 0.97
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (33 bp):
TGATTGGAACATCTATGGAGGCAGCTTCATCAT
Found at i:84448143 original size:42 final size:42
Alignment explanation
Indices: 84448096--84448180 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
84448086 TATTTCATTT
84448096 GGAGAAAGTTTTATTTTTATTCTTAAATGTAACTTCAATTAA
1 GGAGAAAGTTTTATTTTTATTCTTAAATGTAACTTCAATTAA
84448138 GGAGAAAGTTTTATTTTTATTCTTAAATGTAACTTCAATTAA
1 GGAGAAAGTTTTATTTTTATTCTTAAATGTAACTTCAATTAA
84448180 G
1 G
84448181 CTAGGTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (42 bp):
GGAGAAAGTTTTATTTTTATTCTTAAATGTAACTTCAATTAA
Found at i:84451216 original size:42 final size:42
Alignment explanation
Indices: 84451162--84451362 Score: 215
Period size: 42 Copynumber: 4.8 Consensus size: 42
84451152 ACACATAGAA
* * **
84451162 TCATACCAATGCCATATCCCAGATATGGTCTTACATGGGATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
* * * * * *
84451204 TCATATCGATGCCAATAGCCCGGCTATGGTCTTACACG-ATTC
1 TCATAACAATGCC-ATATCCCAGATATGGTCTTACACGAAATC
* * * * * *
84451246 TCATATCGATGTCATGTCCCAGACATGGTCCTACACGAAATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
* *
84451288 TCATAACAATGCCATATCCCATATATGGTCTTACACGTAATC
1 TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
*
84451330 TCATAACAATGCCATATCTCAGATATGGTCTTA
1 TCATAACAATGCCATATCCCAGATATGGTCTTA
84451363 AACATAAACT
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
41 18 0.14
42 93 0.71
43 20 0.15
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (42 bp):
TCATAACAATGCCATATCCCAGATATGGTCTTACACGAAATC
Found at i:84451375 original size:42 final size:42
Alignment explanation
Indices: 84451154--84451378 Score: 147
Period size: 42 Copynumber: 5.4 Consensus size: 42
84451144 AATTACATAC
*
84451154 ACATAGAA-TCATACCAATGCCATATCCCAGATATGGTCTT--
1 ACATA-AACTCATAACAATGCCATATCCCAGATATGGTCTTAA
* * * * * * * *
84451194 ACATGGGATCTCATATCGATGCCAATAGCCCGGCTATGGTCTTAC
1 ACAT--AAACTCATAACAATGCC-ATATCCCAGATATGGTCTTAA
* * * * * * * *
84451239 ACGAT--TCTCATATCGATGTCATGTCCCAGACATGGTCCTAC
1 AC-ATAAACTCATAACAATGCCATATCCCAGATATGGTCTTAA
* * *
84451280 ACGA-AATCTCATAACAATGCCATATCCCATATATGGTCTTAC
1 AC-ATAAACTCATAACAATGCCATATCCCAGATATGGTCTTAA
* * *
84451322 ACGTAATCTCATAACAATGCCATATCTCAGATATGGTCTTAA
1 ACATAAACTCATAACAATGCCATATCCCAGATATGGTCTTAA
84451364 ACATAAACTCATAAC
1 ACATAAACTCATAAC
84451379 CCTAATGTCA
Statistics
Matches: 148, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
40 4 0.03
41 20 0.14
42 104 0.70
43 16 0.11
45 2 0.01
46 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (42 bp):
ACATAAACTCATAACAATGCCATATCCCAGATATGGTCTTAA
Found at i:84459197 original size:25 final size:26
Alignment explanation
Indices: 84459146--84459198 Score: 63
Period size: 29 Copynumber: 2.0 Consensus size: 26
84459136 GAACTATTAT
*
84459146 CATGGCCCGAAGCCAAATCATTTGGTATG
1 CATGCCCCGAAGCCAAATC---TGGTATG
84459175 CATGCCCCGAAGCCAAATC-GGTAT
1 CATGCCCCGAAGCCAAATCTGGTAT
84459199 AACTTGCACT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 5 0.22
29 18 0.78
ACGTcount: A:0.28, C:0.28, G:0.23, T:0.21
Consensus pattern (26 bp):
CATGCCCCGAAGCCAAATCTGGTATG
Found at i:84472850 original size:21 final size:21
Alignment explanation
Indices: 84472826--84472894 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
84472816 ACTCAGGGCC
84472826 AACTGGAGGACACTATAGTGG
1 AACTGGAGGACACTATAGTGG
* * * *
84472847 AACTAAGACCGCCACT-CAG-GG
1 AACT-GGA-GGACACTATAGTGG
84472868 CCAACTGGAGGACACTATAGTGG
1 --AACTGGAGGACACTATAGTGG
84472891 AACT
1 AACT
84472895 AAGACCGCAC
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
21 15 0.44
22 8 0.24
23 11 0.32
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (21 bp):
AACTGGAGGACACTATAGTGG
Found at i:84472863 original size:44 final size:44
Alignment explanation
Indices: 84472813--84472902 Score: 180
Period size: 44 Copynumber: 2.0 Consensus size: 44
84472803 CTGGAACATT
84472813 GCCACTCAGGGCCAACTGGAGGACACTATAGTGGAACTAAGACC
1 GCCACTCAGGGCCAACTGGAGGACACTATAGTGGAACTAAGACC
84472857 GCCACTCAGGGCCAACTGGAGGACACTATAGTGGAACTAAGACC
1 GCCACTCAGGGCCAACTGGAGGACACTATAGTGGAACTAAGACC
84472901 GC
1 GC
84472903 ACATAAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.28, G:0.28, T:0.13
Consensus pattern (44 bp):
GCCACTCAGGGCCAACTGGAGGACACTATAGTGGAACTAAGACC
Found at i:84485791 original size:21 final size:21
Alignment explanation
Indices: 84485761--84485802 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
84485751 CGTGTGCCTC
*
84485761 ACACGGCATTAGACACGCCCA
1 ACACGACATTAGACACGCCCA
84485782 ACACGACATTAGACACGCCCA
1 ACACGACATTAGACACGCCCA
84485803 TGTGTCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.38, G:0.17, T:0.10
Consensus pattern (21 bp):
ACACGACATTAGACACGCCCA
Found at i:84491155 original size:10 final size:10
Alignment explanation
Indices: 84491142--84491180 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
84491132 ATATGTGAAT
84491142 ATATCATGGC
1 ATATCATGGC
84491152 ATATCATGTGC
1 ATATCATG-GC
84491163 ATATCATGGC
1 ATATCATGGC
84491173 ATATCATG
1 ATATCATG
84491181 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:84491168 original size:21 final size:21
Alignment explanation
Indices: 84491142--84491181 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
84491132 ATATGTGAAT
84491142 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
84491163 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
84491182 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:84498889 original size:25 final size:25
Alignment explanation
Indices: 84498861--84498918 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
84498851 TAGAGGCCTA
84498861 CCCTCTTTAAAT-AACTGGGGCAAAG
1 CCCT-TTTAAATAAACTGGGGCAAAG
** *
84498886 CCCTTTTCGATAAATTGGGGCAAAG
1 CCCTTTTAAATAAACTGGGGCAAAG
84498911 CCCTTTTA
1 CCCTTTTA
84498919 GCACTTCCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (25 bp):
CCCTTTTAAATAAACTGGGGCAAAG
Found at i:84498977 original size:10 final size:10
Alignment explanation
Indices: 84498964--84499002 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
84498954 ATATTTGAAT
84498964 ATATCATGGC
1 ATATCATGGC
*
84498974 ATATCATGTAC
1 ATATCATG-GC
84498985 ATATCATGGC
1 ATATCATGGC
84498995 ATATCATG
1 ATATCATG
84499003 TACAAAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:84498990 original size:21 final size:21
Alignment explanation
Indices: 84498964--84499006 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
84498954 ATATTTGAAT
84498964 ATATCATGGCATATCATGTAC
1 ATATCATGGCATATCATGTAC
84498985 ATATCATGGCATATCATGTAC
1 ATATCATGGCATATCATGTAC
84499006 A
1 A
84499007 AAAGCAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
ATATCATGGCATATCATGTAC
Found at i:84499071 original size:25 final size:25
Alignment explanation
Indices: 84499043--84499090 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
84499033 ATAACATAAC
* *
84499043 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGTAAAAAGGTCATTTTCA
84499068 CCTAGGGGTAAAAAGGTCATTTT
1 CCTAGGGGTAAAAAGGTCATTTT
84499091 TACATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGTAAAAAGGTCATTTTCA
Found at i:84509566 original size:7 final size:7
Alignment explanation
Indices: 84509550--84509587 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
84509540 TTCAAACTCC
84509550 TTTTTA-
1 TTTTTAT
84509556 TTTTTAT
1 TTTTTAT
84509563 TTTTTAT
1 TTTTTAT
84509570 TTTTTAT
1 TTTTTAT
*
84509577 TTTTAAT
1 TTTTTAT
84509584 TTTT
1 TTTT
84509588 AGCAGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:84509568 original size:13 final size:13
Alignment explanation
Indices: 84509550--84509588 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
84509540 TTCAAACTCC
84509550 TTTTTATTTTTAT
1 TTTTTATTTTTAT
84509563 TTTTTATTTTTTAT
1 TTTTTA-TTTTTAT
*
84509577 TTTTAATTTTTA
1 TTTTTATTTTTA
84509589 GCAGATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:84509575 original size:20 final size:20
Alignment explanation
Indices: 84509550--84509588 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
84509540 TTCAAACTCC
*
84509550 TTTTTATTTTTATTTTTTAT
1 TTTTTATTTTTAATTTTTAT
84509570 TTTTTATTTTTAATTTTTA
1 TTTTTATTTTTAATTTTTA
84509589 GCAGATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTATTTTTAATTTTTAT
Found at i:84512023 original size:25 final size:24
Alignment explanation
Indices: 84511995--84512050 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
84511985 ATACGGATAT
84511995 ATAACAATAATAAAATGACATAAAA
1 ATAACAATAAT-AAATGACATAAAA
* *
84512020 ATAACAAATAATATATGAGATAAAA
1 ATAAC-AATAATAAATGACATAAAA
*
84512045 TTAACA
1 ATAACA
84512051 TGTTAAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 20 0.74
26 6 0.22
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.23
Consensus pattern (24 bp):
ATAACAATAATAAATGACATAAAA
Found at i:84512109 original size:12 final size:12
Alignment explanation
Indices: 84512092--84512118 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
84512082 GATAAAAAAC
84512092 AAACAATTTTAA
1 AAACAATTTTAA
84512104 AAACAATTTTAA
1 AAACAATTTTAA
84512116 AAA
1 AAA
84512119 TAAATGAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (12 bp):
AAACAATTTTAA
Found at i:84512397 original size:14 final size:14
Alignment explanation
Indices: 84512378--84512429 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
84512368 AAGTAATATA
84512378 AATATAATAAAAAT
1 AATATAATAAAAAT
*
84512392 AATATAATGAATAAT
1 AATATAAT-AAAAAT
*
84512407 ATATATAGT-AAAAT
1 A-ATATAATAAAAAT
*
84512421 GATATAATA
1 AATATAATA
84512430 TATTATAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 6 0.20
14 12 0.40
15 6 0.20
16 6 0.20
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AATATAATAAAAAT
Found at i:84512407 original size:32 final size:33
Alignment explanation
Indices: 84512347--84512409 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
84512337 TTTTTAAAAT
* *
84512347 TATACATAATAATAAATATTGAAGTAATATAAA
1 TATACATAAAAATAAATAATGAAGTAATATAAA
84512380 TATA-ATAAAAATAATATAATGAA-TAATATA
1 TATACATAAAAATAA-ATAATGAAGTAATATA
84512410 TATAGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (33 bp):
TATACATAAAAATAAATAATGAAGTAATATAAA
Found at i:84512428 original size:34 final size:31
Alignment explanation
Indices: 84512390--84512459 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 31
84512380 TATAATAAAA
*
84512390 ATAATATA-ATGAATAATATATATAGTAAAATGAT
1 ATAATATATAT-AA-AATATATA-AATAAAATG-T
84512424 ATAATATATTATAAAATATATAAATAAAATGT
1 ATAATATA-TATAAAATATATAAATAAAATGT
84512456 ATAA
1 ATAA
84512460 CAATGTAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
32 5 0.15
33 8 0.24
34 16 0.48
35 2 0.06
36 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.36
Consensus pattern (31 bp):
ATAATATATATAAAATATATAAATAAAATGT
Found at i:84512432 original size:20 final size:19
Alignment explanation
Indices: 84512402--84512446 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 19
84512392 AATATAATGA
84512402 ATAATATATATAGTAAAATGAT
1 ATAATATAT-TA-TAAAAT-AT
84512424 ATAATATATTATAAAATAT
1 ATAATATATTATAAAATAT
84512443 ATAA
1 ATAA
84512447 ATAAAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.26
20 6 0.26
21 2 0.09
22 9 0.39
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
ATAATATATTATAAAATAT
Found at i:84512449 original size:20 final size:22
Alignment explanation
Indices: 84512379--84512446 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
84512369 AGTAATATAA
* * * *
84512379 ATATAATAAAAATAATATAATG
1 ATATAATATATATAGTAAAATG
84512401 A-ATAATATATATAGTAAAATG
1 ATATAATATATATAGTAAAATG
84512422 ATATAATATAT-TA-TAAAAT-
1 ATATAATATATATAGTAAAATG
84512441 ATATAA
1 ATATAA
84512447 ATAAAATGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.35
Consensus pattern (22 bp):
ATATAATATATATAGTAAAATG
Found at i:84514551 original size:44 final size:44
Alignment explanation
Indices: 84514018--84514538 Score: 701
Period size: 44 Copynumber: 11.9 Consensus size: 44
84514008 TCCGTTATCC
* * *
84514018 TCGATCTGCTCACTGTCAATATAGAGACGCCAAATCT-ACTATC-
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC-ATCT
* * *
84514061 TCTGATCTGCTCTCTGAT-AATACAGAGATGCCAAACCTGTTATCT
1 TC-GATCTGCTCTCTG-TCAATACAGAGACGCCAAATCTGTCATCT
* *
84514106 TCGATCTGCTCTCTGTCAATACAGAAATGCCAAATCTGTCAT-T
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * * *
84514149 TACGATCTACTCTCTATCAATACAGAGACGCCAAATTTGTCACCT
1 T-CGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * *
84514194 TCGATCTGCTCTCTGACAATACAGAGACACTAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* *
84514238 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAACCTATCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * * * * *
84514282 TTGATATGCTCTCTGACAATACAGAGACACCAAACCTGTTATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
84514326 TTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
84514370 TCGATCTGCTCTCTGTCAA-ACAGAGATGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
84514413 TCGATCTACTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
* * *
84514457 TCAATTTGCTCTCTGTCAATACAGAGACGCCAAATTTGTCATCT
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
*
84514501 TCGATCTGCTCTCTGTCAATACAGAGACTCCAAATCTG
1 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
84514539 CTATTAGTGA
Statistics
Matches: 420, Mismatches: 50, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
43 46 0.11
44 369 0.88
45 5 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (44 bp):
TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCT
Found at i:84525889 original size:13 final size:13
Alignment explanation
Indices: 84525871--84525895 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84525861 GTGTTAGTGC
84525871 GCACGGCCGTGTT
1 GCACGGCCGTGTT
84525884 GCACGGCCGTGT
1 GCACGGCCGTGT
84525896 CTGTCTTTGT
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:0.08, C:0.32, G:0.40, T:0.20
Consensus pattern (13 bp):
GCACGGCCGTGTT
Found at i:84525996 original size:55 final size:55
Alignment explanation
Indices: 84525936--84526071 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 55
84525926 TATGAAGGGC
* ** * *
84525936 CACGCCCGTGTTGTTTTGGCAGGTTCACCCACCGTTGCTTGGCACGGGCGTGTCG
1 CACGCCCGTGTTGTTTTGGCAGGTTCACCCACAGTTGCAAGGCACAGGCGTGTAG
** * ** *
84525991 CACGCCCGTGTTAATTTGACAGGTTCGGCCACAGTTTCAAGGCACAGGCGTGTAG
1 CACGCCCGTGTTGTTTTGGCAGGTTCACCCACAGTTGCAAGGCACAGGCGTGTAG
* * *
84526046 CACGCTCGTGTTGTTTTTGTAGGTTC
1 CACGCCCGTGTTGTTTTGGCAGGTTC
84526072 GTCCACAGCC
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
55 64 1.00
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.29
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGGCAGGTTCACCCACAGTTGCAAGGCACAGGCGTGTAG
Found at i:84532307 original size:14 final size:14
Alignment explanation
Indices: 84532288--84532317 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
84532278 CGTTCGAAAA
84532288 GTAGTTTTCAGAAT
1 GTAGTTTTCAGAAT
84532302 GTAGTTTTCAGAAT
1 GTAGTTTTCAGAAT
84532316 GT
1 GT
84532318 CTGGATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.23, T:0.43
Consensus pattern (14 bp):
GTAGTTTTCAGAAT
Found at i:84534445 original size:50 final size:51
Alignment explanation
Indices: 84534368--84534489 Score: 194
Period size: 50 Copynumber: 2.4 Consensus size: 51
84534358 GACCATGGCA
84534368 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
84534419 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* *
84534469 ACAAGTGAAAAGTGGTAGCTT
1 ACAAGTGATAAGTGATAGCTT
84534490 TAGCTACCTG
Statistics
Matches: 66, Mismatches: 3, Indels: 4
0.90 0.04 0.05
Matches are distributed among these distances:
50 45 0.68
51 21 0.32
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:84534510 original size:31 final size:31
Alignment explanation
Indices: 84534472--84534651 Score: 254
Period size: 31 Copynumber: 5.8 Consensus size: 31
84534462 ACAAATGACA
**
84534472 AGTGAAAAGTGGTAGCTTTAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
84534503 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
84534534 AGTGAAAAGTGGTAG-TTCCGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* * *
84534565 AGTGAAAAATGGTAGCTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
84534596 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
84534627 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
84534652 AAGTGACAAG
Statistics
Matches: 135, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.01
31 132 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:84534746 original size:47 final size:48
Alignment explanation
Indices: 84534677--84534799 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 48
84534667 AGTGATTTTC
* * *
84534677 GTATAAGGCCATATCTGGGATATGGCATCGGTGTGATATATGCTAC-T
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACGT
* * *
84534724 GTATAAGACCATATCTGGGATATGACATCAGTGAGATATATGATTCGT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACGT
* * *
84534772 GTA-AA-ACCATAGCTAGGCTATGGCATCG
1 GTATAAGACCATATCTGGGATATGGCATCG
84534800 ATATATGAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
46 18 0.28
47 42 0.66
48 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (48 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACGT
Found at i:84534823 original size:42 final size:42
Alignment explanation
Indices: 84534758--84534884 Score: 145
Period size: 42 Copynumber: 3.0 Consensus size: 42
84534748 ACATCAGTGA
*
84534758 GATATATG-AT-TCGTGTAAAACCATAGCTAGGCTATGGCATC
1 GATATATGAATAT-GTGTAAGACCATAGCTAGGCTATGGCATC
*
84534799 GATATATGAATATGTGTAAGACCATAGCTGGGCTATGGCATC
1 GATATATGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
* * * *
84534841 -ATTATGTGAAGATGTGTAAGACCATAG-TTGACCTATGGCATC
1 GA-TATATGAATATGTGTAAGACCATAGCTAG-GCTATGGCATC
84534883 GA
1 GA
84534885 GAAAATGAAG
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
41 11 0.15
42 62 0.83
43 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
GATATATGAATATGTGTAAGACCATAGCTAGGCTATGGCATC
Found at i:84538496 original size:12 final size:12
Alignment explanation
Indices: 84538479--84538505 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
84538469 TTTCCTCAGG
84538479 CTCCCAAGTAGC
1 CTCCCAAGTAGC
84538491 CTCCCAAGTAGC
1 CTCCCAAGTAGC
84538503 CTC
1 CTC
84538506 TTCTACTCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.44, G:0.15, T:0.19
Consensus pattern (12 bp):
CTCCCAAGTAGC
Found at i:84559264 original size:42 final size:43
Alignment explanation
Indices: 84559164--84559330 Score: 148
Period size: 43 Copynumber: 3.9 Consensus size: 43
84559154 AGCTTGTACA
* * *
84559164 ATGCCAACGTCCCAGAC-GTGGTCTTACATG-TAA-TCAAATATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAAACTC-AA-ATCG
* *
84559207 ATGCCATTGTCCCAGACAGGGTCTTACACGAAAA--CATATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGAAAACTCAAAT-CG
* * * *
84559249 ATGTCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACG-AAAACTCAAATCG
*
84559293 ATGCCAATGTCCCAGAC-GTGGTCTTACACGATAACTCA
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGAAAACTCA
84559331 TATCAGAATC
Statistics
Matches: 101, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
41 2 0.02
42 29 0.29
43 35 0.35
44 31 0.31
45 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGAAAACTCAAATCG
Found at i:84563724 original size:29 final size:29
Alignment explanation
Indices: 84563651--84563724 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 29
84563641 GCATTTTACC
* *
84563651 GATTTGGCTTCAGACCATGCATATGGGAT
1 GATTTGGCTTCAGGCCATGCATATCGGAT
*
84563680 GATTTGGCTTCGGGCCATGCATATCGGAT
1 GATTTGGCTTCAGGCCATGCATATCGGAT
*
84563709 GATTTGGCTCCAGGCC
1 GATTTGGCTTCAGGCC
84563725 TTGATAATAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (29 bp):
GATTTGGCTTCAGGCCATGCATATCGGAT
Found at i:84572764 original size:21 final size:21
Alignment explanation
Indices: 84572739--84572778 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
84572729 CTTGCGTTTG
*
84572739 TTCATT-TTTCCCTTTATTTTC
1 TTCATTCTTTCAC-TTATTTTC
84572760 TTCATTCTTTCACTTATTT
1 TTCATTCTTTCACTTATTT
84572779 CATGATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.12, C:0.23, G:0.00, T:0.65
Consensus pattern (21 bp):
TTCATTCTTTCACTTATTTTC
Found at i:84581917 original size:34 final size:33
Alignment explanation
Indices: 84581808--84581920 Score: 118
Period size: 34 Copynumber: 3.3 Consensus size: 33
84581798 CTGTTATGTT
*
84581808 AATGGGCTTAGGCCCAGACTGCTACTGTTATTGA
1 AATGGGC-TAGGCCCAGACTGCTACTGTTACTGA
* * * *
84581842 AACGGGGATAGGCTCAGACTGCTACTGTTACTAA
1 AA-TGGGCTAGGCCCAGACTGCTACTGTTACTGA
* * * *
84581876 AACGGGCTCAGGCCCATATTGCTACCGTTACTGA
1 AATGGGCT-AGGCCCAGACTGCTACTGTTACTGA
84581910 AATGGGCTAGG
1 AATGGGCTAGG
84581921 GCCCTAACTG
Statistics
Matches: 64, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
33 7 0.11
34 54 0.84
35 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (33 bp):
AATGGGCTAGGCCCAGACTGCTACTGTTACTGA
Found at i:84585545 original size:23 final size:23
Alignment explanation
Indices: 84585519--84585629 Score: 145
Period size: 23 Copynumber: 4.8 Consensus size: 23
84585509 GCTCGTAAGT
* *
84585519 GCTTATTGTTTCAGCTCATTGGA
1 GCTTACTGTTTCAGCTCATTAGA
*
84585542 GCTTACCGTTTCAGCTCGA-TAGA
1 GCTTACTGTTTCAGCTC-ATTAGA
*
84585565 GCTTACTG-TTCATCTCATTAGA
1 GCTTACTGTTTCAGCTCATTAGA
84585587 GCTTACTGTTTCAGCTCATTAGA
1 GCTTACTGTTTCAGCTCATTAGA
84585610 GCTTACTGTTCATCAGCTCA
1 GCTTACTGTT--TCAGCTCA
84585630 AGAGGAGCTT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
21 1 0.01
22 19 0.25
23 48 0.62
24 1 0.01
25 8 0.10
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (23 bp):
GCTTACTGTTTCAGCTCATTAGA
Found at i:84585558 original size:46 final size:45
Alignment explanation
Indices: 84585487--84585621 Score: 152
Period size: 45 Copynumber: 3.0 Consensus size: 45
84585477 CTCAGCTCAA
* *
84585487 CTCATTGGAG-TTAACTGATTT-AGCTCG-TAAGTGCTTATTGTTTCAG
1 CTCATTGGAGCTT-ACTG-TTTCAGCTCGAT-AGAGCTTACTG-TTCAG
* *
84585533 CTCATTGGAGCTTACCGTTTCAGCTCGATAGAGCTTACTGTTCAT
1 CTCATTGGAGCTTACTGTTTCAGCTCGATAGAGCTTACTGTTCAG
*
84585578 CTCATTAGAGCTTACTGTTTCAGCTC-ATTAGAGCTTACTGTTCA
1 CTCATTGGAGCTTACTGTTTCAGCTCGA-TAGAGCTTACTGTTCA
84585622 TCAGCTCAAG
Statistics
Matches: 79, Mismatches: 6, Indels: 9
0.84 0.06 0.10
Matches are distributed among these distances:
44 1 0.01
45 47 0.59
46 28 0.35
47 3 0.04
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (45 bp):
CTCATTGGAGCTTACTGTTTCAGCTCGATAGAGCTTACTGTTCAG
Found at i:84599021 original size:50 final size:49
Alignment explanation
Indices: 84598898--84599231 Score: 156
Period size: 50 Copynumber: 6.6 Consensus size: 49
84598888 TTCGGGATAT
* *
84598898 TACACATAGGAGCCTGCACTTAGTACTACACATGCGACCTACCAATCTTG
1 TACAC-TAGTAGCCTGCACTTAGTACTACACACGCGACCTACCAATCTTG
* * * * * *
84598948 TACACTCAGTAGCTTCCAATTAGTACTGCACACGTGACTTAACC-ATC-TG
1 TACACT-AGTAGCCTGCACTTAGTACTACACACGCGACCT-ACCAATCTTG
* * ** ** **
84598997 ATACACGTAGTAGCCTGCACTTAGTACCTACACATGTGATCAAAGTTAA-CGGG
1 -TACAC-TAGTAGCCTGCACTTAGTA-CTACACACGCGA-CCTA-CCAATCTTG
* * * ** *
84599050 TACGCATAGTAGCCTGCACTTAGTACTACATATGCGACCTATTAATCTGG
1 TACAC-TAGTAGCCTGCACTTAGTACTACACACGCGACCTACCAATCTTG
* * * ** ** **
84599100 TACACGTAGTAGCCTGCAATTAGTACTACACATGTGATCGAAGTTAAT-GGG
1 TACAC-TAGTAGCCTGCACTTAGTACTACACACGCGA-CCTA-CCAATCTTG
* ** * ** *
84599151 TACGCATAGTAGCCTGCA-TTAGTACTACACATTCGACCAATGAATCTGG
1 TACAC-TAGTAGCCTGCACTTAGTACTACACACGCGACCTACCAATCTTG
*
84599200 TACACGTAGTAGCCTGCACTTAGTACTGCACA
1 TACAC-TAGTAGCCTGCACTTAGTACTACACA
84599232 TGTGACTCAC
Statistics
Matches: 227, Mismatches: 43, Indels: 28
0.76 0.14 0.09
Matches are distributed among these distances:
48 4 0.02
49 28 0.12
50 118 0.52
51 45 0.20
52 30 0.13
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TACACTAGTAGCCTGCACTTAGTACTACACACGCGACCTACCAATCTTG
Found at i:84599223 original size:100 final size:101
Alignment explanation
Indices: 84598992--84599236 Score: 393
Period size: 100 Copynumber: 2.4 Consensus size: 101
84598982 TGACTTAACC
*
84598992 ATCTGATACACGTAGTAGCCTGCACTTAGTACCTACACATGTGATCAAAGTTAACGGGTACGCAT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTA-CTACACATGTGATCAAAGTTAACGGGTACGCAT
* * *
84599057 AGTAGCCTGCACTTAGTACTACATATGCGACCTATTA
65 AGTAGCCTGCACTTAGTACTACACATGCGACCAATGA
* * *
84599094 ATCTGGTACACGTAGTAGCCTGCAATTAGTACTACACATGTGATCGAAGTTAATGGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCATA
*
84599159 GTAGCCTGCA-TTAGTACTACACATTCGACCAATGA
66 GTAGCCTGCACTTAGTACTACACATGCGACCAATGA
*
84599194 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACATGTGA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA
84599237 CTCACAATGG
Statistics
Matches: 133, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
100 62 0.47
101 42 0.32
102 29 0.22
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.27
Consensus pattern (101 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGATCAAAGTTAACGGGTACGCATA
GTAGCCTGCACTTAGTACTACACATGCGACCAATGA
Found at i:84601145 original size:6 final size:7
Alignment explanation
Indices: 84601128--84601152 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84601118 CAAGGTAAAC
84601128 AAAAAAG
1 AAAAAAG
84601135 AAAAAAG
1 AAAAAAG
84601142 AAAAAAG
1 AAAAAAG
84601149 AAAA
1 AAAA
84601153 TGAAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:84601670 original size:33 final size:33
Alignment explanation
Indices: 84601628--84601696 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
84601618 TATGGATATC
84601628 TATACATAGATTTAGGTTATTTCTTGTACATAG
1 TATACATAGATTTAGGTTATTTCTTGTACATAG
*
84601661 TATACATAGATTTAGGTTATTTCTTGTACATGG
1 TATACATAGATTTAGGTTATTTCTTGTACATAG
84601694 TAT
1 TAT
84601697 TTAGGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.29, C:0.09, G:0.16, T:0.46
Consensus pattern (33 bp):
TATACATAGATTTAGGTTATTTCTTGTACATAG
Found at i:84612976 original size:5 final size:5
Alignment explanation
Indices: 84612966--84612990 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
84612956 CAAATGGGCC
84612966 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
84612991 CACTATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:84615093 original size:56 final size:56
Alignment explanation
Indices: 84615007--84615126 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
84614997 ACAAGGGATG
84615007 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
84615063 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
84615119 ATGGGCAA
1 ATGGGCAA
84615127 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:84616387 original size:79 final size:81
Alignment explanation
Indices: 84616251--84616433 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
84616241 TCGAATGATG
* *
84616251 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
84616315 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
84616330 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
84616392 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
84616410 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
84616434 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:84616449 original size:40 final size:40
Alignment explanation
Indices: 84616252--84616435 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
84616242 CGAATGATGT
* * * *
84616252 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
84616292 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
84616332 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84616370 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84616411 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
84616436 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:84616457 original size:79 final size:79
Alignment explanation
Indices: 84616304--84616468 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
84616294 GGACTAAGAT
* **
84616304 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
84616369 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
84616383 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
84616446 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
84616462 CCGAAGG
1 CCGAAGG
84616469 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:84622985 original size:56 final size:56
Alignment explanation
Indices: 84622899--84623018 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
84622889 ACAAGGGATG
84622899 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
84622955 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
84623011 ATGGGCAA
1 ATGGGCAA
84623019 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:84624281 original size:79 final size:81
Alignment explanation
Indices: 84624145--84624327 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
84624135 TCGAATGATG
* *
84624145 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
84624209 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
84624224 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
84624286 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
84624304 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
84624328 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:84624343 original size:40 final size:40
Alignment explanation
Indices: 84624146--84624329 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
84624136 CGAATGATGT
* * * *
84624146 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
84624186 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
84624226 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84624264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
84624305 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
84624330 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:84624351 original size:79 final size:79
Alignment explanation
Indices: 84624198--84624362 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
84624188 GGACTAAGAT
* **
84624198 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
84624263 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
84624277 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
84624340 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
84624356 CCGAAGG
1 CCGAAGG
84624363 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:84627140 original size:27 final size:28
Alignment explanation
Indices: 84627103--84627159 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
84627093 CATAGTAAGC
* *
84627103 ACAATTTGGGCCTAAG-CCTTTTCAGTA
1 ACAATTAGGGCCTAAGCCCATTTCAGTA
*
84627130 ACAATTAGGGCCTTAGCCCATTTCAGTA
1 ACAATTAGGGCCTAAGCCCATTTCAGTA
84627158 AC
1 AC
84627160 GGTAGCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (28 bp):
ACAATTAGGGCCTAAGCCCATTTCAGTA
Found at i:84627182 original size:34 final size:34
Alignment explanation
Indices: 84627137--84627253 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
84627127 GTAACAATTA
* *
84627137 GGGCCTTAGCCCATTTCAGTAACGGTAGCAATCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAATCT
* * * *
84627171 GGGCCTAAGCCCGTTTCAGTAATAGTAACAGTCT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAATCT
* * * *
84627205 GGGCCTGAGCCTATTTCAGTAACAGTAGTAATTT
1 GGGCCTAAGCCCATTTCAGTAACAGTAGCAATCT
*
84627239 GGCCCTAAGCCCATT
1 GGGCCTAAGCCCATT
84627254 AACATATTAG
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (34 bp):
GGGCCTAAGCCCATTTCAGTAACAGTAGCAATCT
Found at i:84627265 original size:68 final size:67
Alignment explanation
Indices: 84627137--84627269 Score: 160
Period size: 68 Copynumber: 2.0 Consensus size: 67
84627127 GTAACAATTA
* * * * *
84627137 GGGCCTTAGCCCATTTCAGTAACGGTAGCAATCTGGGCCTAAGCCCGTTTCAGTAATAGTAACAG
1 GGGCCTGAGCCCATTTCAGTAACAGTAGCAATCTGGCCCTAAGCCCATTACAGTAATAGT-ACAG
84627202 TCT
65 TCT
* * * *
84627205 GGGCCTGAGCCTATTTCAGTAACAGTAGTAATTTGGCCCTAAGCCCATTAACA-TATTAGTACAG
1 GGGCCTGAGCCCATTTCAGTAACAGTAGCAATCTGGCCCTAAGCCCATT-ACAGTAATAGTACAG
84627269 T
65 T
84627270 ATGCAAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
67 5 0.09
68 48 0.87
69 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (67 bp):
GGGCCTGAGCCCATTTCAGTAACAGTAGCAATCTGGCCCTAAGCCCATTACAGTAATAGTACAGT
CT
Found at i:84634921 original size:19 final size:19
Alignment explanation
Indices: 84634890--84634945 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
84634880 CATCTATCAG
84634890 GGAAGCTTCATCAATGATT
1 GGAAGCTTCATCAATGATT
84634909 GGAA-CTTCTATC-A-G---
1 GGAAGCTTC-ATCAATGATT
84634923 GGAAGCTTCATCAATGATT
1 GGAAGCTTCATCAATGATT
84634942 GGAA
1 GGAA
84634946 CATCTATCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 14
0.68 0.00 0.32
Matches are distributed among these distances:
14 7 0.23
15 5 0.17
16 1 0.03
17 1 0.03
18 5 0.17
19 11 0.37
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (19 bp):
GGAAGCTTCATCAATGATT
Found at i:84634976 original size:99 final size:99
Alignment explanation
Indices: 84634816--84635201 Score: 576
Period size: 99 Copynumber: 3.9 Consensus size: 99
84634806 GATTCAAACA
* **
84634816 TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATTGGGGCAGTTTCATCATTGATTGGAAC
1 TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCATTGATTGGAAC
* *
84634881 ATCTATCAGGGAAGCTTCATCAATGATTGGAACT
66 ATCTATCAGGGCAGCTTCATCATTGATTGGAACT
*
84634915 TCTATCAGGGAAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCATTGATTGGAAC
1 TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCATTGATTGGAAC
*
84634980 ATCTATCAGGGCAGTTTCATCATTGATTGGAACT
66 ATCTATCAGGGCAGCTTCATCATTGATTGGAACT
* * * * * *
84635014 TCTATCAGGGCAGCTTCGTCAATGGTTGGAACATCTATTC-GGGTAGCTTCATCAATGATTAGAA
1 TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTA-TCGGGGCAACTTCATCATTGATTGGAA
* * *
84635078 CATCTATCGGGGCAGTTTCATCATTGATTGGAACA
65 CATCTATCAGGGCAGCTTCATCATTGATTGGAACT
* * *
84635113 TCTATCAGGGCATCTTCATCAATGATTGGAACATCTATCGGGACAACTTCATCATTAATTGGAAC
1 TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCATTGATTGGAAC
*
84635178 ATCTATCAGGGTAGCTTCATCATT
66 ATCTATCAGGGCAGCTTCATCATT
84635202 TTGTTTGACT
Statistics
Matches: 257, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
98 2 0.01
99 253 0.98
100 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (99 bp):
TCTATCAGGGCAGCTTCATCAATGATTGGAACATCTATCGGGGCAACTTCATCATTGATTGGAAC
ATCTATCAGGGCAGCTTCATCATTGATTGGAACT
Found at i:84635201 original size:33 final size:33
Alignment explanation
Indices: 84634812--84635199 Score: 519
Period size: 33 Copynumber: 11.8 Consensus size: 33
84634802 AAGTGATTCA
84634812 AACATCTATCAGGGCAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
** * *
84634845 AACATCTATTGGGGCAGTTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
*
84634878 AACATCTATCAGGGAAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* *
84634911 AACTTCTATCAGGGAAGCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * *
84634944 AACATCTATCGGGGCAACTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* *
84634977 AACATCTATCAGGGCAGTTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * *
84635010 AACTTCTATCAGGGCAGCTTCGTCAATGGTTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* *
84635043 AACATCTATTC-GGGTAGCTTCATCAATGATTAG
1 AACATCTA-TCAGGGCAGCTTCATCAATGATTGG
* * *
84635076 AACATCTATCGGGGCAGTTTCATCATTGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
*
84635109 AACATCTATCAGGGCATCTTCATCAATGATTGG
1 AACATCTATCAGGGCAGCTTCATCAATGATTGG
* * *
84635142 AACATCTATC-GGGACAACTTCATCATTAATTGG
1 AACATCTATCAGGG-CAGCTTCATCAATGATTGG
*
84635175 AACATCTATCAGGGTAGCTTCATCA
1 AACATCTATCAGGGCAGCTTCATCA
84635200 TTTTGTTTGA
Statistics
Matches: 310, Mismatches: 41, Indels: 8
0.86 0.11 0.02
Matches are distributed among these distances:
32 5 0.02
33 300 0.97
34 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (33 bp):
AACATCTATCAGGGCAGCTTCATCAATGATTGG
Found at i:84644194 original size:12 final size:12
Alignment explanation
Indices: 84644177--84644202 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84644167 TAGGTACCTG
84644177 TACCACTCACAA
1 TACCACTCACAA
84644189 TACCACTCACAA
1 TACCACTCACAA
84644201 TA
1 TA
84644203 TGGTTATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.38, G:0.00, T:0.19
Consensus pattern (12 bp):
TACCACTCACAA
Found at i:84644506 original size:95 final size:99
Alignment explanation
Indices: 84644309--84644482 Score: 247
Period size: 98 Copynumber: 1.8 Consensus size: 99
84644299 AATGCTGATG
84644309 CCATGTCCCAGACATGGTCTTACATTGG--CT-CA--TCTATCAAGTCGATGCCATGTCCCAGAC
1 CCATGTCCCAGACATGGTCTTACATTGGCTCTACATCTCTATCAAGTCGATGCCATGTCCCAGAC
*
84644369 ATGGTCTTACACTGACTATCGAAATCGAGGCTGAC
66 ATGGTCTTACACTGACTA-CGAAATCGAGGCCGAC
*
84644404 CCATGTCCCAAACATGGTCTTACATTGGCTCTCACATCTCTAT-AA-T-GATGCCATGTCCCAGA
1 CCATGTCCCAGACATGGTCTTACATTGGCTCT-ACATCTCTATCAAGTCGATGCCATGTCCCAGA
*
84644466 CATGGTCTTACATTGAC
65 CATGGTCTTACACTGAC
84644483 AGATCTCGTA
Statistics
Matches: 71, Mismatches: 2, Indels: 9
0.87 0.02 0.11
Matches are distributed among these distances:
95 27 0.38
97 2 0.03
98 32 0.45
99 3 0.04
100 2 0.03
101 5 0.07
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (99 bp):
CCATGTCCCAGACATGGTCTTACATTGGCTCTACATCTCTATCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTACGAAATCGAGGCCGAC
Found at i:84644551 original size:46 final size:47
Alignment explanation
Indices: 84644493--84644663 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 47
84644483 AGATCTCGTA
*
84644493 GCCGATTCATGT-CCATGACATGTCTTACACTGGCT-TACATCTTGAG
1 GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCT-CATCTTGAG
* * * ** *
84644539 GCCGATGCATGTCCCAT-ACATGTCTTACAGTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCTCATCTTGAG
* * * ** *
84644585 GCCGATGCCACGTCCTA-GACATGGTCTTACATTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCATGACAT-GTCTTACACTGGCTCTCATCTTGAG
84644633 GCCGATGCATGTCCCA-GACATGTCTTACACT
1 GCCGATGCATGTCCCATGACATGTCTTACACT
84644664 AGCACACAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
46 48 0.48
47 28 0.28
48 23 0.23
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.30
Consensus pattern (47 bp):
GCCGATGCATGTCCCATGACATGTCTTACACTGGCTCTCATCTTGAG
Found at i:84662036 original size:17 final size:17
Alignment explanation
Indices: 84662010--84662048 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
84662000 TTTGAAAAGG
84662010 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
* *
84662027 AAAACGAATGAGTCTTA
1 AAAACAAATGAATCTTA
84662044 AAAAC
1 AAAAC
84662049 TTAATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:84674621 original size:44 final size:42
Alignment explanation
Indices: 84674571--84674691 Score: 143
Period size: 43 Copynumber: 2.8 Consensus size: 42
84674561 ATAGGATTTA
*
84674571 CGATATGTGATTGCGTGTAAGACCATGTCTGGGACATTGGCAT
1 CGATATGTGATT-CGTGTAAGACCATGTCTGGGACAGTGGCAT
* * * *
84674614 CATATATGTGATTCGTGTAAGACCCTATCTGGAACAGTGGCAT
1 C-GATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCAT
* * *
84674657 CGATATGTAATTACATGTAAGACCACGTCTGGGAC
1 CGATATGTGATT-CGTGTAAGACCATGTCTGGGAC
84674692 GTTAGCATTG
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 9 0.14
43 45 0.70
44 10 0.16
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
CGATATGTGATTCGTGTAAGACCATGTCTGGGACAGTGGCAT
Found at i:84679862 original size:142 final size:140
Alignment explanation
Indices: 84679607--84679878 Score: 336
Period size: 142 Copynumber: 1.9 Consensus size: 140
84679597 CATTGGGTGA
* * *
84679607 TATGTGTGCTAGTGTAAAACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGA
1 TATGTGTGCTAGTGTAAAACATGTCTGGGACATGCATCAACCACATGATGAAAGCCAGTGTAAGA
* * * * * *
84679672 CATGTCTGGGACACGCATCGGCCTCGAAATATACAAGCTCGTGTAAGACCTGTCTGTGATATGGC
66 CATGTCTGGGACACACATCGGCCTCGAAATATACAAACTAGTGTAAGACCTATCTGGGACATGGC
84679737 GTTAGCTTGT
131 GTTAGCTTGT
* *
84679747 TATGTGT-C-AGTGTAAGACTTGTCTGGGACATGGCATCGACACCA-ATAGATGAAAGCCAGTGT
1 TATGTGTGCTAGTGTAAAACATGTCTGGGACAT-GCATC-A-ACCACAT-GATGAAAGCCAGTGT
* * *
84679809 AAGACCTGTCTGGGACACTACATCGGCCTCGATATATA-AAATTAAGTGTAAGACCTATCTGGGA
62 AAGACATGTCTGGGACAC-ACATCGGCCTCGAAATATACAAACT-AGTGTAAGACCTATCTGGGA
84679873 CATGGC
125 CATGGC
84679879 ATTGACTTTG
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
138 21 0.19
139 6 0.05
140 10 0.09
141 36 0.32
142 39 0.35
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (140 bp):
TATGTGTGCTAGTGTAAAACATGTCTGGGACATGCATCAACCACATGATGAAAGCCAGTGTAAGA
CATGTCTGGGACACACATCGGCCTCGAAATATACAAACTAGTGTAAGACCTATCTGGGACATGGC
GTTAGCTTGT
Found at i:84682447 original size:16 final size:16
Alignment explanation
Indices: 84682426--84682470 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
84682416 ATGAATCGGC
*
84682426 AAAAGCTGAAATGTCG
1 AAAAGCTGAAAAGTCG
84682442 AAAAGCTGAAAAGTCG
1 AAAAGCTGAAAAGTCG
*
84682458 AAATGCTGAAAAG
1 AAAAGCTGAAAAG
84682471 CTGAACGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.24, T:0.16
Consensus pattern (16 bp):
AAAAGCTGAAAAGTCG
Found at i:84682452 original size:8 final size:8
Alignment explanation
Indices: 84682426--84682475 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
84682416 ATGAATCGGC
84682426 AAAAGCTG
1 AAAAGCTG
*
84682434 AAATG-TCG
1 AAAAGCT-G
84682442 AAAAGCTG
1 AAAAGCTG
84682450 AAAAG-TCG
1 AAAAGCT-G
*
84682458 AAATGCTG
1 AAAAGCTG
84682466 AAAAGCTG
1 AAAAGCTG
84682474 AA
1 AA
84682476 CGTTGGGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
7 2 0.06
8 30 0.88
9 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (8 bp):
AAAAGCTG
Found at i:84682745 original size:29 final size:27
Alignment explanation
Indices: 84682703--84682806 Score: 84
Period size: 29 Copynumber: 3.7 Consensus size: 27
84682693 ATATGATTTA
*
84682703 GGCCTAATGGGCCATATGAAGGTGAATTG
1 GGCCTAGTGGGCCATATGAA--TGAATTG
** *
84682732 GGCCTAGTGGGCCATAAAAACATGAACTG
1 GGCCTAGTGGGCCAT-ATGA-ATGAATTG
* *
84682761 GGCC-AGATGGGCCATTTGAATAAGATTG
1 GGCCTAG-TGGGCCATATGAATGA-ATTG
*
84682789 GGCCTAGTGGGCTATATG
1 GGCCTAGTGGGCCATATG
84682807 CCTGTATGTA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
27 3 0.05
28 19 0.32
29 34 0.58
30 2 0.03
31 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.23
Consensus pattern (27 bp):
GGCCTAGTGGGCCATATGAATGAATTG
Found at i:84686782 original size:16 final size:16
Alignment explanation
Indices: 84686752--84686811 Score: 77
Period size: 16 Copynumber: 3.8 Consensus size: 16
84686742 AATGAATCAG
84686752 CGAAAA-TCGAAATGC
1 CGAAAAGTCGAAATGC
*
84686767 CGAAAAGTCGATATGC
1 CGAAAAGTCGAAATGC
* *
84686783 CGAAAAGCCGAAATCC
1 CGAAAAGTCGAAATGC
*
84686799 CAAAAAGTCGAAA
1 CGAAAAGTCGAAA
84686812 GTTGGGCTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
15 6 0.16
16 32 0.84
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.12
Consensus pattern (16 bp):
CGAAAAGTCGAAATGC
Found at i:84687092 original size:29 final size:29
Alignment explanation
Indices: 84687030--84687110 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 29
84687020 TGAGTATAAT
* ** *
84687030 ATGATTTGGGCCTAATGGGCCATATGAAG
1 ATGAATTGGGCCTAATGGGCCATAAAAAC
* *
84687059 GTGAATTGGGCCTAGTGGGCCATAAAAAC
1 ATGAATTGGGCCTAATGGGCCATAAAAAC
* *
84687088 ATGAACTGGGCCAAATGGGCCAT
1 ATGAATTGGGCCTAATGGGCCAT
84687111 TTGAATAAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.31, T:0.22
Consensus pattern (29 bp):
ATGAATTGGGCCTAATGGGCCATAAAAAC
Found at i:84695773 original size:44 final size:43
Alignment explanation
Indices: 84695724--84695829 Score: 104
Period size: 43 Copynumber: 2.4 Consensus size: 43
84695714 GAACTTGGAT
* *
84695724 CAACTCAACGAGTTCAGATGCTCGCATCCATAATGAACCCAGAC
1 CAACTCAACGAGTTCAGATGC-CGCATACATAACGAACCCAGAC
* ** * * * * *
84695768 TAACTCAATAAGTTCGGATGCCTCATATATCACGAACCCGGAC
1 CAACTCAACGAGTTCAGATGCCGCATACATAACGAACCCAGAC
*
84695811 CAACTCAACGAGTTTAGAT
1 CAACTCAACGAGTTCAGAT
84695830 TTCATTATAA
Statistics
Matches: 47, Mismatches: 15, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
43 30 0.64
44 17 0.36
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (43 bp):
CAACTCAACGAGTTCAGATGCCGCATACATAACGAACCCAGAC
Found at i:84702803 original size:22 final size:22
Alignment explanation
Indices: 84702775--84702817 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
84702765 GAAGATTCAA
84702775 CCTAACTATGATGTGGTGAGAG
1 CCTAACTATGATGTGGTGAGAG
84702797 CCTAACTATGATGTGGTGAGA
1 CCTAACTATGATGTGGTGAGA
84702818 TTGTGCATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (22 bp):
CCTAACTATGATGTGGTGAGAG
Found at i:84703579 original size:35 final size:35
Alignment explanation
Indices: 84703515--84703667 Score: 164
Period size: 35 Copynumber: 4.3 Consensus size: 35
84703505 TAGATGAACC
* * *
84703515 TTGTATAATCGATCATATGTGATGGTATATTGAAT
1 TTGTATATTCGACCATATGTGATGATATATTGAAT
*
84703550 TTGAATATTCGACCATATGTGATGATATATTGAAT
1 TTGTATATTCGACCATATGTGATGATATATTGAAT
*** * * *
84703585 TTGTATATTCGGTTATATGTGAGGATAAATTAAATT
1 TTGTATATTCGACCATATGTGATGATATATTGAA-T
* *
84703621 TTGTATAATC-AGCCATATGTGATGATATATTGAACC
1 TTGTATATTCGA-CCATATGTGATGATATATTGAA-T
84703657 TTGTATATTCG
1 TTGTATATTCG
84703668 GTCTTATAGG
Statistics
Matches: 94, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
35 58 0.62
36 36 0.38
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (35 bp):
TTGTATATTCGACCATATGTGATGATATATTGAAT
Found at i:84717421 original size:15 final size:15
Alignment explanation
Indices: 84717401--84717464 Score: 83
Period size: 15 Copynumber: 4.3 Consensus size: 15
84717391 GACATAAAAA
* *
84717401 CCAAGATAGAGAAGT
1 CCAAGATAAAGAAAT
*
84717416 CCAAGACAAAGAAAT
1 CCAAGATAAAGAAAT
*
84717431 CCATGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
84717446 CCAAGATACAGAAAT
1 CCAAGATAAAGAAAT
84717461 CCAA
1 CCAA
84717465 AATATAATAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 42 1.00
ACGTcount: A:0.53, C:0.19, G:0.16, T:0.12
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:84718056 original size:15 final size:15
Alignment explanation
Indices: 84718038--84718070 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
84718028 CATCACACCT
*
84718038 TACAACTTCTGTATG
1 TACAACTTCTATATG
84718053 TACAACTTCTATATG
1 TACAACTTCTATATG
84718068 TAC
1 TAC
84718071 TTATCAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (15 bp):
TACAACTTCTATATG
Found at i:84721143 original size:52 final size:52
Alignment explanation
Indices: 84721071--84721174 Score: 138
Period size: 52 Copynumber: 2.0 Consensus size: 52
84721061 AGAACTCAAT
* *
84721071 CACATGTATCCCATCCATTATGAACTCGGACCAACTCAACGAGCTT-GGATGC
1 CACATGTATCCCATCCATTATGAACTCAGACCAACCCAACGAG-TTCGGATGC
* * * *
84721123 CACATGTATCGCATCTATTATGAACTTAGACCATCCCAACGAGTTCGGATGC
1 CACATGTATCCCATCCATTATGAACTCAGACCAACCCAACGAGTTCGGATGC
84721175 TCGCATCCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (52 bp):
CACATGTATCCCATCCATTATGAACTCAGACCAACCCAACGAGTTCGGATGC
Found at i:84721254 original size:43 final size:44
Alignment explanation
Indices: 84721150--84721255 Score: 106
Period size: 43 Copynumber: 2.4 Consensus size: 44
84721140 TTATGAACTT
* * * *
84721150 AGACCATCCCAACGAGTTCGGATGCTCGCATCCATAATGAACCC
1 AGACCAACTCAACGAGTTCGGATGCTCGCATACATAACGAACCC
** * * * *
84721194 AGACCAACTCAGTGAGTTTGGATGC-CTCATACATCACGAACTC
1 AGACCAACTCAACGAGTTCGGATGCTCGCATACATAACGAACCC
*
84721237 GGACCAACTCAACGAGTTC
1 AGACCAACTCAACGAGTTC
84721256 AGATTTCATA
Statistics
Matches: 48, Mismatches: 14, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
43 28 0.58
44 20 0.42
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (44 bp):
AGACCAACTCAACGAGTTCGGATGCTCGCATACATAACGAACCC
Found at i:84725849 original size:29 final size:29
Alignment explanation
Indices: 84725768--84725874 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
84725758 TACATACATG
* *
84725768 CATATAGCCCACTAGGCCCAATCTTA--TT
1 CATATGGCCCACTAGGCCCAAT-TCACCTT
* * **
84725796 CAAATGGCCCATCTA-GCCCAGTTCATGTT
1 CATATGGCCCA-CTAGGCCCAATTCACCTT
* *
84725825 CTTATGGCCCACTAGGCCTAATTCACCTT
1 CATATGGCCCACTAGGCCCAATTCACCTT
*
84725854 CATATGGCCCATTAGGCCCAA
1 CATATGGCCCACTAGGCCCAA
84725875 ATCATATTAT
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
27 2 0.03
28 18 0.29
29 42 0.68
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CATATGGCCCACTAGGCCCAATTCACCTT
Found at i:84726113 original size:16 final size:16
Alignment explanation
Indices: 84726092--84726125 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
84726082 CCAACTTTCA
84726092 GCTTTTCAGCATTTTG
1 GCTTTTCAGCATTTTG
*
84726108 GCTTTTCGGCATTTTG
1 GCTTTTCAGCATTTTG
84726124 GC
1 GC
84726126 ATTTGCCGAT
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:0.09, C:0.21, G:0.24, T:0.47
Consensus pattern (16 bp):
GCTTTTCAGCATTTTG
Found at i:84731303 original size:39 final size:40
Alignment explanation
Indices: 84731189--84731373 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
84731179 GCTACTCGTT
* *
84731189 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
84731229 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84731269 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
84731308 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
*
84731349 CAAA-GCCTTCGAGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84731374 CATCATTCGA
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 76 0.62
41 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84731357 original size:79 final size:80
Alignment explanation
Indices: 84731217--84731373 Score: 194
Period size: 79 Copynumber: 2.0 Consensus size: 80
84731207 AGCCCAGTTA
* * * *
84731217 TAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCG-
1 TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
*
84731281 GGCTTAGCCCGGAAT
66 GACTTAGCCCGGAAT
** * *
84731296 TAGTAACTCGCACAAATGCC-TTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTC
1 TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCCGGATATAGTAAC-TAGCACCAAAGCCTTC
84731359 GAGACTTAGCCCGGA
64 GAGACTTAGCCCGGA
84731374 CATCATTCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
78 5 0.08
79 45 0.68
80 16 0.24
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGGATATAGTAACTAGCACCAAAGCCTTCGA
GACTTAGCCCGGAAT
Found at i:84731977 original size:22 final size:22
Alignment explanation
Indices: 84731952--84731993 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
84731942 ACAAATGGCA
*
84731952 TACATTTTACTAACT-AATACAT
1 TACATATTA-TAACTCAATACAT
84731974 TACATATTATAACTCAATAC
1 TACATATTATAACTCAATAC
84731994 GCATCCATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (22 bp):
TACATATTATAACTCAATACAT
Found at i:84742858 original size:13 final size:13
Alignment explanation
Indices: 84742840--84742869 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84742830 CTGGCAATCA
*
84742840 TGTCACACAGTCG
1 TGTCACACAGACG
84742853 TGTCACACAGACG
1 TGTCACACAGACG
84742866 TGTC
1 TGTC
84742870 CCTACCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.23
Consensus pattern (13 bp):
TGTCACACAGACG
Found at i:84751223 original size:19 final size:19
Alignment explanation
Indices: 84751201--84751238 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
84751191 GATGGCTACT
84751201 TAGGCCCACGATGGGCCTA
1 TAGGCCCACGATGGGCCTA
84751220 TAGGCCCACGATGGGCCTA
1 TAGGCCCACGATGGGCCTA
84751239 CGGGCCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.16
Consensus pattern (19 bp):
TAGGCCCACGATGGGCCTA
Found at i:84751244 original size:19 final size:19
Alignment explanation
Indices: 84751202--84751244 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
84751192 ATGGCTACTT
*
84751202 AGGCCCACGATGGGCCTAT
1 AGGCCCACGATGGGCCTAC
84751221 AGGCCCACGATGGGCCTAC
1 AGGCCCACGATGGGCCTAC
*
84751240 GGGCC
1 AGGCC
84751245 TAATTGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.19, C:0.35, G:0.35, T:0.12
Consensus pattern (19 bp):
AGGCCCACGATGGGCCTAC
Found at i:84751474 original size:27 final size:26
Alignment explanation
Indices: 84751411--84751488 Score: 104
Period size: 26 Copynumber: 2.9 Consensus size: 26
84751401 AGAATACTTT
*
84751411 AGTTTACTAAAATTACTGAAATACCCCC
1 AGTTTA-TAAAATTAC-CAAATACCCCC
84751439 AGTTT-TAAAATTACCAAAGTACCCCC
1 AGTTTATAAAATTACCAAA-TACCCCC
84751465 AGTTTATAAAATTACCGAAATACC
1 AGTTTATAAAATTACC-AAATACC
84751489 ATCGATCGTA
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
25 3 0.07
26 21 0.46
27 14 0.30
28 8 0.17
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (26 bp):
AGTTTATAAAATTACCAAATACCCCC
Found at i:84751538 original size:27 final size:26
Alignment explanation
Indices: 84751418--84751541 Score: 90
Period size: 26 Copynumber: 4.7 Consensus size: 26
84751408 TTTAGTTTAC
** * *
84751418 TAAAATTACTGAAATACCCCCAGTTT-
1 TAAAATTACCAAAATACCTCGA-TTTG
* * * *
84751444 TAAAATTACCAAAGTACCCCCAGTTTA
1 TAAAATTACCAAAATACCTCGA-TTTG
* *
84751471 TAAAATTACCGAAATACCATCGA-TCG
1 TAAAATTACCAAAATACC-TCGATTTG
**
84751497 TAAAATTACTGAAATAACCTCGATTTG
1 TAAAATTACCAAAAT-ACCTCGATTTG
84751524 TAAAATTACCAAAATACC
1 TAAAATTACCAAAATACC
84751542 CTTGTAGGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
26 45 0.56
27 34 0.42
28 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (26 bp):
TAAAATTACCAAAATACCTCGATTTG
Found at i:84751580 original size:19 final size:21
Alignment explanation
Indices: 84751535--84751581 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
84751525 AAAATTACCA
84751535 AAATACCCTTGTAGGGTTATCG
1 AAATACCCTTGTAGGGTTA-CG
84751557 AAATACCCTTGTAGGG-TA-G
1 AAATACCCTTGTAGGGTTACG
84751576 AAATAC
1 AAATAC
84751582 TGAAATACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.28
21 2 0.08
22 16 0.64
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (21 bp):
AAATACCCTTGTAGGGTTACG
Found at i:84751633 original size:27 final size:27
Alignment explanation
Indices: 84751471--84751636 Score: 105
Period size: 27 Copynumber: 6.4 Consensus size: 27
84751461 CCCCAGTTTA
* * **
84751471 TAAAATTACCGAAATACCATCG-ATCG
1 TAAAATTACCGAAATACCCTTGTAGGG
* * * **
84751497 TAAAATTACTGAAATAACCTCG-ATTTG
1 TAAAATTACCGAAATACCCTTGTA-GGG
*
84751524 TAAAATTACCAAAATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
*
84751551 -----TTATCGAAATACCCTTGTAGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
* * *
84751573 TAGAAA-TACTGAAATACCCCTATAGGG
1 TA-AAATTACCGAAATACCCTTGTAGGG
* * *
84751600 TAGAATTACCGAGATACCCTTGTGGGG
1 TAAAATTACCGAAATACCCTTGTAGGG
84751627 TAAAATTACC
1 TAAAATTACC
84751637 ATTTTGCCCC
Statistics
Matches: 108, Mismatches: 23, Indels: 17
0.73 0.16 0.11
Matches are distributed among these distances:
22 20 0.19
26 22 0.20
27 65 0.60
28 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTTGTAGGG
Found at i:84752105 original size:27 final size:27
Alignment explanation
Indices: 84752075--84752141 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
84752065 ACCTGATTAT
*
84752075 GGCTGTGTGCCAAACGTATTTGCCTAA
1 GGCTATGTGCCAAACGTATTTGCCTAA
84752102 GGCTATGTGCCAAACGTATTTGCCTAA
1 GGCTATGTGCCAAACGTATTTGCCTAA
84752129 GGCTATGTGCCAA
1 GGCTATGTGCCAA
84752142 TATATGATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.28
Consensus pattern (27 bp):
GGCTATGTGCCAAACGTATTTGCCTAA
Found at i:84752306 original size:27 final size:26
Alignment explanation
Indices: 84752274--84752381 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 26
84752264 TTCTGTTAAA
* *
84752274 GTGGCTTTGCCACATTATCAGTTTCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
84752301 GTGGCTATGCCACAAATATC-TATTCTG
1 GTGGCTATGCCAC-AATATCGT-TTCTG
* *
84752328 GAGGCTCTGCCACAATATCTGTTTCTG
1 GTGGCTATGCCACAATATC-GTTTCTG
* * *
84752355 GTGACTCTGTCACAATATC-TGTTCTG
1 GTGGCTATGCCACAATATCGT-TTCTG
84752381 G
1 G
84752382 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 49 0.71
28 6 0.09
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCGTTTCTG
Found at i:84752341 original size:54 final size:53
Alignment explanation
Indices: 84752276--84752381 Score: 140
Period size: 54 Copynumber: 2.0 Consensus size: 53
84752266 CTGTTAAAGT
* * *
84752276 GGCTTTGCCACATTATCAGTTTCTGGTGGCTATGCCACAAATATCTATTCTGGA
1 GGCTCTGCCACAATATCAGTTTCTGGTGACTATGCCAC-AATATCTATTCTGGA
* * * *
84752330 GGCTCTGCCACAATATCTGTTTCTGGTGACTCTGTCACAATATCTGTTCTGG
1 GGCTCTGCCACAATATCAGTTTCTGGTGACTATGCCACAATATCTATTCTGG
84752382 CAGCCATGCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
53 13 0.29
54 32 0.71
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GGCTCTGCCACAATATCAGTTTCTGGTGACTATGCCACAATATCTATTCTGGA
Found at i:84752508 original size:6 final size:6
Alignment explanation
Indices: 84752499--84752611 Score: 54
Period size: 6 Copynumber: 18.3 Consensus size: 6
84752489 TTGCATTCAC
* * * *
84752499 ATTCTG ATTCTG ATTCTG -TTACTTG ATACTG ATTCTG ATTTTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG AT--TCTG
* * * * *
84752549 ATTCTG ATTCTG ATTCTG CCA-CCTA ATTCTA ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG --ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
84752598 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
84752612 AATGTTTATT
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 5 0.06
6 65 0.81
7 7 0.09
8 3 0.04
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:84752530 original size:25 final size:25
Alignment explanation
Indices: 84752502--84752590 Score: 106
Period size: 25 Copynumber: 3.6 Consensus size: 25
84752492 CATTCACATT
* * *
84752502 CTGATTCTGATTCTGTTACTTGATA
1 CTGATTCTGATTCTGTCACCTAATA
* *
84752527 CTGATTCTGATTTTGTCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
* *
84752552 CTGATTCTGATTCTGCCACCTAATT
1 CTGATTCTGATTCTGTCACCTAATA
*
84752577 CTAATTCTGATTCT
1 CTGATTCTGATTCT
84752591 CATTTTGATT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.20, C:0.21, G:0.12, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACCTAATA
Found at i:84754618 original size:26 final size:27
Alignment explanation
Indices: 84754588--84754649 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
84754578 TTTAGTTTAC
* *
84754588 TAAAATTACAAAAATACC-CCTAGTTG
1 TAAAATTACAAAAATACCACCGAGTTA
* * *
84754614 TAAAATTACCAAAGTACCACCGATTTA
1 TAAAATTACAAAAATACCACCGAGTTA
84754641 TAAAATTAC
1 TAAAATTAC
84754650 CGAGATACCG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 16 0.53
27 14 0.47
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (27 bp):
TAAAATTACAAAAATACCACCGAGTTA
Done.