Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 37 of 378
Found at i:9223191 original size:54 final size:55
Alignment explanation
Indices: 9223101--9223318 Score: 280
Period size: 56 Copynumber: 3.9 Consensus size: 55
9223091 TCAGCTTTTT
* * * *
9223101 AATTCCTACTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTT
1 AATTCCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
*
9223157 AATTCCTGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
1 AATTCCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
** *
9223211 AATTTATATTTTTCAAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTC
1 AATTCCTATTTTTCAAA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
* * *
9223267 AACTT-TTGTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCT
1 AA-TTCCT-ATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9223319 CAAGCCACTC
Statistics
Matches: 145, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
54 48 0.33
55 35 0.24
56 54 0.37
57 8 0.06
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (55 bp):
AATTCCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTC
Found at i:9223251 original size:56 final size:53
Alignment explanation
Indices: 9223117--9223318 Score: 278
Period size: 54 Copynumber: 3.7 Consensus size: 53
9223107 TACTTTTCAA
* * * * *
9223117 AAAAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATT-TTATTTTTC
9223171 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTT-TATTTTTC
* *
9223225 AAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTTTGTTTTTTC
1 -AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAA-TTTT-ATTTTTC
*
9223282 AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9223319 CAAGCCACTC
Statistics
Matches: 134, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
54 48 0.36
55 35 0.26
56 42 0.31
57 9 0.07
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (53 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTTATTTTTC
Found at i:9223583 original size:44 final size:44
Alignment explanation
Indices: 9223512--9223618 Score: 189
Period size: 44 Copynumber: 2.5 Consensus size: 44
9223502 GATTTGGATA
9223512 CCCTGAAG-TGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGATCT
1 CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGATCT
* *
9223555 CCCTAAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
1 CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGATCT
9223599 CCCTGAAGTTGCAGTGAAGC
1 CCCTGAAGTTGCAGTGAAGC
9223619 TGATCGAGGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
43 7 0.12
44 53 0.88
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGATCT
Found at i:9224087 original size:33 final size:30
Alignment explanation
Indices: 9224049--9224115 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 30
9224039 TCAATACACT
9224049 AAAACCCCTACCCAAACCTTAGCCCAACTACCC
1 AAAA-CCC-ACCC-AACCTTAGCCCAACTACCC
9224082 -AAA---ACCCAACCTTAGCCCAACTACCC
1 AAAACCCACCCAACCTTAGCCCAACTACCC
9224108 AAAACCCA
1 AAAACCCA
9224116 ACACTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
26 19 0.63
27 7 0.23
30 1 0.03
32 3 0.10
ACGTcount: A:0.40, C:0.46, G:0.03, T:0.10
Consensus pattern (30 bp):
AAAACCCACCCAACCTTAGCCCAACTACCC
Found at i:9224092 original size:26 final size:26
Alignment explanation
Indices: 9224058--9224117 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
9224048 TAAAACCCCT
9224058 ACCCAAACCTTAGCCCAACTACCCAAA
1 ACCC-AACCTTAGCCCAACTACCCAAA
9224085 ACCCAACCTTAGCCCAACTACCCAAA
1 ACCCAACCTTAGCCCAACTACCCAAA
9224111 ACCCAAC
1 ACCCAAC
9224118 ACTTGACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.47, G:0.03, T:0.10
Consensus pattern (26 bp):
ACCCAACCTTAGCCCAACTACCCAAA
Found at i:9225268 original size:3 final size:3
Alignment explanation
Indices: 9225260--9225329 Score: 131
Period size: 3 Copynumber: 23.0 Consensus size: 3
9225250 ATATCCATGT
9225260 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9225308 TTA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA
9225330 GTTTACGTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 63 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9228978 original size:26 final size:26
Alignment explanation
Indices: 9228948--9229021 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
9228938 AGATTAAAAT
9228948 TTTAGAAATTTAAAAAAATAAAAAGA
1 TTTAGAAATTTAAAAAAATAAAAAGA
9228974 TTTAGAAATTTAAAAAAATAAAAAGA
1 TTTAGAAATTTAAAAAAATAAAAAGA
** *
9229000 ACTA-AAA-TTAATAAAATAAAAA
1 TTTAGAAATTTAAAAAAATAAAAA
9229022 TACAAAGACT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 14 0.31
25 3 0.07
26 28 0.62
ACGTcount: A:0.68, C:0.01, G:0.05, T:0.26
Consensus pattern (26 bp):
TTTAGAAATTTAAAAAAATAAAAAGA
Found at i:9230841 original size:21 final size:21
Alignment explanation
Indices: 9230811--9230854 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
9230801 TCTCTGGTTA
*
9230811 AATTCGAAGTTGACTTAGACC
1 AATTCAAAGTTGACTTAGACC
*
9230832 AATTCAAAGTTTACTTAGACC
1 AATTCAAAGTTGACTTAGACC
9230853 AA
1 AA
9230855 ATGCTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (21 bp):
AATTCAAAGTTGACTTAGACC
Found at i:9235896 original size:44 final size:44
Alignment explanation
Indices: 9235819--9236026 Score: 218
Period size: 42 Copynumber: 4.8 Consensus size: 44
9235809 AGCGCGCTGA
* * *
9235819 TTTTAGTGGCGTTTTTTTCA-AACAAACACCGCTAAAG-ACTAGGAC
1 TTTTAGCGGCGCTTTTTT-AGAA-AAACGCCGCTAAAGAAC-AGGAC
*
9235864 TTTTAGCGGCGCTTTCTTTA-AAAAACGCCGCTAAAG-ACGAAGAC
1 TTTTAGCGGCGCTTT-TTTAGAAAAACGCCGCTAAAGAAC-AGGAC
*
9235908 TTTTAACGGCGC--TTTTAGAAAAACGCCGCTAAAGAACAGGAC
1 TTTTAGCGGCGCTTTTTTAGAAAAACGCCGCTAAAGAACAGGAC
* *
9235950 TTTTAGCGGCGC--TTTTAGAAAAATGCCGTTAAAGAACAGGA-
1 TTTTAGCGGCGCTTTTTTAGAAAAACGCCGCTAAAGAACAGGAC
*
9235991 TCTTTAGCGGCGCTTGTTTTATAAAAACGCCGCTAA
1 T-TTTAGCGGCGCTT-TTTTAGAAAAACGCCGCTAA
9236027 TTTGCCCAGT
Statistics
Matches: 143, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
41 5 0.03
42 70 0.49
43 2 0.01
44 30 0.21
45 33 0.23
46 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TTTTAGCGGCGCTTTTTTAGAAAAACGCCGCTAAAGAACAGGAC
Found at i:9241978 original size:53 final size:49
Alignment explanation
Indices: 9241903--9242007 Score: 129
Period size: 53 Copynumber: 2.1 Consensus size: 49
9241893 GTGAGTTATG
* ** *
9241903 TAATTTATTTAAGTAATGATCAATATTAATACTATTTTGATAAAAATTAGTTA
1 TAATATATTTAAACAATGATCAATATT-AT--TATATTGAT-AAAATTAGTTA
*
9241956 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTATTTA
1 TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
9242005 TAA
1 TAA
9242008 GTGGCCCTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
49 13 0.28
50 8 0.17
52 2 0.04
53 24 0.51
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (49 bp):
TAATATATTTAAACAATGATCAATATTATTATATTGATAAAATTAGTTA
Found at i:9242691 original size:15 final size:15
Alignment explanation
Indices: 9242671--9242699 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9242661 ACAATTTTGA
9242671 AATAAAACGTACCTT
1 AATAAAACGTACCTT
9242686 AATAAAACGTACCT
1 AATAAAACGTACCT
9242700 GGTCTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAAAACGTACCTT
Found at i:9245552 original size:35 final size:35
Alignment explanation
Indices: 9245506--9245573 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
9245496 GTGACTGATT
*
9245506 GAGTCACGTACATGATGCACAGAATTCACATAATA
1 GAGTCACGTACATGATACACAGAATTCACATAATA
*
9245541 GAGTCACGTACATGATACATAGAATTCACATAA
1 GAGTCACGTACATGATACACAGAATTCACATAA
9245574 CAAGCAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (35 bp):
GAGTCACGTACATGATACACAGAATTCACATAATA
Found at i:9247238 original size:46 final size:46
Alignment explanation
Indices: 9247188--9247363 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
9247178 TGGTTGAGCA
9247188 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9247234 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
9247279 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
9247327 CCCGAACTCGTTGAGTTGAGTTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
9247364 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9247344 original size:93 final size:93
Alignment explanation
Indices: 9247185--9247356 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
9247175 GGATGGTTGA
* *
9247185 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
9247250 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
9247278 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
9247343 TGAGTTCGAGTTCG
66 TGAGTCCGAGTTCG
9247357 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:9250935 original size:7 final size:7
Alignment explanation
Indices: 9250923--9250969 Score: 87
Period size: 7 Copynumber: 6.9 Consensus size: 7
9250913 TCCCTTAATC
9250923 CTAACCA
1 CTAACCA
9250930 CTAACCA
1 CTAACCA
9250937 CT-ACCA
1 CTAACCA
9250943 CTAACCA
1 CTAACCA
9250950 CTAACCA
1 CTAACCA
9250957 CTAACCA
1 CTAACCA
9250964 CTAACC
1 CTAACC
9250970 CTTCAACCCT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 6 0.15
7 33 0.85
ACGTcount: A:0.40, C:0.45, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAACCA
Found at i:9251061 original size:14 final size:13
Alignment explanation
Indices: 9251011--9251076 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
9251001 ATAAACCTCA
*
9251011 AACCCTCAATCAT
1 AACCCTAAATCAT
* *
9251024 AAAACATAAATCAT
1 -AACCCTAAATCAT
9251038 CAACCCTAAATCAT
1 -AACCCTAAATCAT
*
9251052 AACCCTTAAACCCAT
1 AACCC-TAAA-TCAT
9251067 AACCCCTAAA
1 AA-CCCTAAA
9251077 CCTATAAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
13 5 0.12
14 25 0.60
15 9 0.21
16 3 0.07
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:9251069 original size:15 final size:15
Alignment explanation
Indices: 9251049--9251083 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9251039 AACCCTAAAT
*
9251049 CATAACCCTTAAACC
1 CATAACCCCTAAACC
9251064 CATAACCCCTAAACC
1 CATAACCCCTAAACC
*
9251079 TATAA
1 CATAA
9251084 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:9252040 original size:40 final size:40
Alignment explanation
Indices: 9251996--9252090 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 40
9251986 CATTTTTTCT
* * *
9251996 AAAACGCCGCTAAAGTTTGATCTATTGCGGAG-TTTTTAAA
1 AAAACGCCGCTAAAGGTTGACCTATTACGGAGCTTTTT-AA
* * *
9252036 AAAACGCCGCTAAAGGTTGACCTGTTACGGCGCTTTTTTA
1 AAAACGCCGCTAAAGGTTGACCTATTACGGAGCTTTTTAA
9252076 AAAACGCCGCTAAAG
1 AAAACGCCGCTAAAG
9252091 CTCCATCTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
40 43 0.90
41 5 0.10
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (40 bp):
AAAACGCCGCTAAAGGTTGACCTATTACGGAGCTTTTTAA
Found at i:9252075 original size:156 final size:156
Alignment explanation
Indices: 9251748--9252050 Score: 373
Period size: 156 Copynumber: 2.0 Consensus size: 156
9251738 AAGATTGATA
* * *
9251748 TATTGCGGCGTTTTTAGTAAAGCGCCGCTAATGCCATTGAAGCTAATTTAAAACGACGACGTGCT
1 TATTGTGGCATTTTTAGTAAAGCGCCGCTAATGCCATTGAAGCTAATTTAAAACGACGAAGTGCT
* * *
9251813 GCTTAACCTTTTAGCGGCGTTTTTGTAAAAACGCCGCTAATGGAGTAACCTATAGCGGCATTTTT
66 GCTTAACATTTTAGCGGCATTTTTGTAAAAACGCCGCTAATAGAGTAACCTATAGCGGCATTTTT
* *
9251878 AACAAAAATGCCGCTAAAGTGCGAGC
131 AACAAAAACGCCGCTAAAGTGCGACC
* * * **
9251904 TATTGTGGCATTTTTAGTAAAGCGCCGCTAATGTCATTGAAGTTCATTTAAAACGAC-ATAGTTT
1 TATTGTGGCATTTTTAGTAAAGCGCCGCTAATGCCATTGAAGCTAATTTAAAACGACGA-AGTGC
* ** * * *
9251968 TGCTTAACATTTTAGCGGCATTTTT-TCTAAAACGCCGCTAA-AGTTTGATCTATTGCGG-AGTT
65 TGCTTAACATTTTAGCGGCATTTTTGT-AAAAACGCCGCTAATAGAGTAACCTATAGCGGCA-TT
9252030 TTTAA-AAAAACGCCGCTAAAG
128 TTTAACAAAAACGCCGCTAAAG
9252051 GTTGACCTGT
Statistics
Matches: 126, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
154 16 0.13
155 20 0.16
156 90 0.71
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (156 bp):
TATTGTGGCATTTTTAGTAAAGCGCCGCTAATGCCATTGAAGCTAATTTAAAACGACGAAGTGCT
GCTTAACATTTTAGCGGCATTTTTGTAAAAACGCCGCTAATAGAGTAACCTATAGCGGCATTTTT
AACAAAAACGCCGCTAAAGTGCGACC
Found at i:9252595 original size:16 final size:16
Alignment explanation
Indices: 9252574--9252607 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9252564 CAAAATTTAA
*
9252574 TTGTTAAAAGTACATT
1 TTGTTAAAAATACATT
9252590 TTGTTAAAAATACATT
1 TTGTTAAAAATACATT
9252606 TT
1 TT
9252608 ACAATATATT
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:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (16 bp):
TTGTTAAAAATACATT
Found at i:9256291 original size:9 final size:9
Alignment explanation
Indices: 9256277--9256309 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
9256267 GTTAAACGAA
9256277 TCGAGTTAT
1 TCGAGTTAT
*
9256286 TCGAGTTAA
1 TCGAGTTAT
9256295 TCGAGTTAT
1 TCGAGTTAT
9256304 TCGAGT
1 TCGAGT
9256310 CAACTCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:9256298 original size:18 final size:18
Alignment explanation
Indices: 9256275--9256309 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9256265 GAGTTAAACG
9256275 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
9256293 AATCGAGTTATTCGAGT
1 AATCGAGTTATTCGAGT
9256310 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:9256378 original size:9 final size:9
Alignment explanation
Indices: 9256361--9256397 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
9256351 TGAGTTTTCG
9256361 AATTCGAAT
1 AATTCGAAT
*
9256370 AACTCGAAT
1 AATTCGAAT
9256379 AATTCGAAT
1 AATTCGAAT
9256388 AATTCGAAT
1 AATTCGAAT
9256397 A
1 A
9256398 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:9257431 original size:5 final size:5
Alignment explanation
Indices: 9257421--9257446 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9257411 CTCGAAAATT
9257421 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
9257447 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:9261646 original size:18 final size:18
Alignment explanation
Indices: 9261606--9261692 Score: 95
Period size: 18 Copynumber: 4.8 Consensus size: 18
9261596 TATCAATATC
9261606 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TCAATT
* * *
9261624 GTTCAGTAATAGTCAGTT
1 ATTCAGTAACAGTCAATT
* *
9261642 ATTCAATAACAGTCATTT
1 ATTCAGTAACAGTCAATT
*
9261660 ATTCAGTAACAGTTAATT
1 ATTCAGTAACAGTCAATT
*
9261678 ATTCAGTAGCAGTCA
1 ATTCAGTAACAGTCA
9261693 TGTATTTAGT
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
18 55 0.98
19 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTCAGTAACAGTCAATT
Found at i:9261693 original size:36 final size:36
Alignment explanation
Indices: 9261625--9261703 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 36
9261615 CGATCAATTG
* * *
9261625 TTCAGTAATAGTCAGTTATTCAATAACAGTCATTTA
1 TTCAGTAACAGTCAATTATTCAATAACAGTCATGTA
* * *
9261661 TTCAGTAACAGTTAATTATTCAGTAGCAGTCATGTA
1 TTCAGTAACAGTCAATTATTCAATAACAGTCATGTA
*
9261697 TTTAGTA
1 TTCAGTA
9261704 CCTTTATTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (36 bp):
TTCAGTAACAGTCAATTATTCAATAACAGTCATGTA
Found at i:9261698 original size:18 final size:17
Alignment explanation
Indices: 9261606--9261703 Score: 81
Period size: 18 Copynumber: 5.5 Consensus size: 17
9261596 TATCAATATC
9261606 ATTCAGTAAC-GATCAATT
1 ATTCAGTAACAG-TC-ATT
* *
9261624 GTTCAGTAATAGTCAGTT
1 ATTCAGTAACAGTCA-TT
*
9261642 ATTCAATAACAGTCATTT
1 ATTCAGTAACAGTCA-TT
*
9261660 ATTCAGTAACAGTTAATT
1 ATTCAGTAACAG-TCATT
*
9261678 ATTCAGTAGCAGTCATGT
1 ATTCAGTAACAGTCAT-T
*
9261696 ATTTAGTA
1 ATTCAGTA
9261704 CCTTTATTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
17 4 0.06
18 58 0.89
19 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (17 bp):
ATTCAGTAACAGTCATT
Found at i:9263536 original size:4 final size:4
Alignment explanation
Indices: 9263527--9263560 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
9263517 CACATTTGTC
9263527 TTTA TTTA TTTTA TTTA TTTA TTTA CTTTA TTTA
1 TTTA TTTA -TTTA TTTA TTTA TTTA -TTTA TTTA
9263561 ATTAATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:9263541 original size:9 final size:8
Alignment explanation
Indices: 9263527--9263560 Score: 50
Period size: 9 Copynumber: 4.0 Consensus size: 8
9263517 CACATTTGTC
9263527 TTTATTTA
1 TTTATTTA
9263535 TTTTATTTA
1 -TTTATTTA
9263544 TTTATTTA
1 TTTATTTA
9263552 CTTTATTTA
1 -TTTATTTA
9263561 ATTAATATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:9263545 original size:13 final size:13
Alignment explanation
Indices: 9263526--9263560 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
9263516 ACACATTTGT
9263526 CTTTATTTATTTTA
1 CTTTATTTA-TTTA
9263540 -TTTATTTATTTA
1 CTTTATTTATTTA
9263552 CTTTATTTA
1 CTTTATTTA
9263561 ATTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
CTTTATTTATTTA
Found at i:9267955 original size:19 final size:19
Alignment explanation
Indices: 9267931--9267984 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 19
9267921 TTAGAAAAAA
9267931 ATAAAAATCGTAAAAGAAT
1 ATAAAAATCGTAAAAGAAT
* ***
9267950 ATAAAAAATTGTAAAATTTT
1 AT-AAAAATCGTAAAAGAAT
*
9267970 ATAAAAATCATAAAA
1 ATAAAAATCGTAAAA
9267985 ATATATAGAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.28
Consensus pattern (19 bp):
ATAAAAATCGTAAAAGAAT
Found at i:9267991 original size:19 final size:19
Alignment explanation
Indices: 9267931--9268013 Score: 53
Period size: 19 Copynumber: 4.3 Consensus size: 19
9267921 TTAGAAAAAA
*
9267931 ATAAAAATCGTAAAAGA-AT
1 ATAAAAATCATAAAA-ATAT
** * *
9267950 ATAAAAAATTGTAAAATTTT
1 AT-AAAAATCATAAAAATAT
9267970 ATAAAAATCATAAAAATAT
1 ATAAAAATCATAAAAATAT
* * *
9267989 ATAGATAT-ATAAAAAAATT
1 ATAAAAATCATAAAAATA-T
9268008 ATAAAA
1 ATAAAA
9268014 TTTTATAAAG
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
18 8 0.16
19 26 0.53
20 15 0.31
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (19 bp):
ATAAAAATCATAAAAATAT
Found at i:9268020 original size:29 final size:29
Alignment explanation
Indices: 9267972--9268045 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
9267962 AAAATTTTAT
* *
9267972 AAAAATCATAAAAATATATAGA-TATATAA
1 AAAAATTATAAAAATATATAAAGT-TATAA
* *
9268001 AAAAATTATAAAATTTTATAAAGTTATAA
1 AAAAATTATAAAAATATATAAAGTTATAA
*
9268030 GAAAATTATACAAAAT
1 AAAAATTATA-AAAAT
9268046 GTAAAGAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (29 bp):
AAAAATTATAAAAATATATAAAGTTATAA
Found at i:9268275 original size:37 final size:38
Alignment explanation
Indices: 9268225--9268296 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
9268215 GTCATTAATT
*
9268225 TTTTTATGATTTTTA-T-AAAATTTTATAAATTTTTTAC
1 TTTTTATGATTTTTATTAAAAAATTTAT-AATTTTTTAC
9268262 TTTTTACT-ATTTTTATTAAAAAATTTATAATTTTT
1 TTTTTA-TGATTTTTATTAAAAAATTTATAATTTTT
9268297 AATAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
37 13 0.42
38 9 0.29
39 9 0.29
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.62
Consensus pattern (38 bp):
TTTTTATGATTTTTATTAAAAAATTTATAATTTTTTAC
Found at i:9268343 original size:9 final size:9
Alignment explanation
Indices: 9268225--9268343 Score: 53
Period size: 9 Copynumber: 12.6 Consensus size: 9
9268215 GTCATTAATT
*
9268225 TTTTTATGA
1 TTTTTATAA
9268234 TTTTTATAAA
1 TTTTTAT-AA
*
9268244 ATTTTATAAA
1 TTTTTAT-AA
*
9268254 TTTTT-TAC
1 TTTTTATAA
9268262 TTTTTACT-A
1 TTTTTA-TAA
9268271 TTTTTATTAAAA
1 TTTTTA-T--AA
**
9268283 AATTTATAA
1 TTTTTATAA
9268292 TTTTTAATAAA
1 TTTTT-AT-AA
*
9268303 TTTTAATAA
1 TTTTTATAA
* *
9268312 ATTTTCTAA
1 TTTTTATAA
** *
9268321 AATTTATTA
1 TTTTTATAA
9268330 TTTTTATAA
1 TTTTTATAA
9268339 TTTTT
1 TTTTT
9268344 TTCTAATTTT
Statistics
Matches: 82, Mismatches: 20, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
8 6 0.07
9 45 0.55
10 19 0.23
11 7 0.09
12 5 0.06
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.61
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9268469 original size:89 final size:87
Alignment explanation
Indices: 9268366--9268582 Score: 238
Period size: 89 Copynumber: 2.4 Consensus size: 87
9268356 ATAAGAGTAA
* *
9268366 GGCTTAATTATTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
1 GGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
*
9268431 AATTGAGTAGAAAAA-ATAAGCAGG
66 AATTGAGTAGAAAAAGA-AA--AAG
* * * * * * * * *
9268455 GGCTTAATTGTTTTTTTTAAGAAGTTTGAGAGCCTTTTTTTATGTATTTTGAAAGTTCAAGTGCT
1 GGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTC-TTTTTGATGCATTTTGAAAGCTCAAGTACT
9268520 CAATTGAGTAGAAAAAGAAAAAG
65 CAATTGAGTAGAAAAAGAAAAAG
* * * *
9268543 AGTTTAATTGCTTTTCTTGAAAAAATTTGAGGGTTTTTTT
1 GGCTTAATTG-TTTTTTTGAAAAAATTTGAGGGTCTTTTT
9268583 ACACCAAGCT
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
88 15 0.14
89 45 0.43
90 44 0.42
91 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (87 bp):
GGCTTAATTGTTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
AATTGAGTAGAAAAAGAAAAAG
Found at i:9268509 original size:90 final size:89
Alignment explanation
Indices: 9268366--9268535 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
9268356 ATAAGAGTAA
* * *
9268366 GGCTTAATTATTTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
1 GGCTTAATTATTTTTTTGAAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
9268431 AATTGAGTAGAAAAAATAAGCAGG
66 AATTGAGTAGAAAAAATAAGCAGG
* * * * * * *
9268455 GGCTTAATTGTTTTTTTTAAGAAGTTTGAGAGCCTTTTTTTATGTATTTTGAAAGTTCAAGTGCT
1 GGCTTAATTATTTTTTTGAAAAAGTTTGAGAGCC-TTTTTGATGCATTTTGAAAGCTCAAGTACT
9268520 CAATTGAGTAGAAAAA
65 CAATTGAGTAGAAAAA
9268536 GAAAAAGAGT
Statistics
Matches: 70, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
89 28 0.40
90 42 0.60
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (89 bp):
GGCTTAATTATTTTTTTGAAAAAGTTTGAGAGCCTTTTTGATGCATTTTGAAAGCTCAAGTACTC
AATTGAGTAGAAAAAATAAGCAGG
Found at i:9269030 original size:18 final size:17
Alignment explanation
Indices: 9269009--9269042 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9268999 ATTATTATAT
9269009 ATTTAAATAAAATATTAA
1 ATTTAAA-AAAATATTAA
*
9269027 ATTTAAAAAATTATTA
1 ATTTAAAAAAATATTA
9269043 TTAGTATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAAAAATATTAA
Found at i:9269394 original size:25 final size:27
Alignment explanation
Indices: 9269341--9269403 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
9269331 GAAAAATTAC
9269341 AATTTAATTTTCTTTAAAAATAATAAAA
1 AATTTAA-TTTCTTTAAAAATAATAAAA
*
9269369 AATTTAATTT-TTTAAAAATTAT-AAA
1 AATTTAATTTCTTTAAAAATAATAAAA
*
9269394 AATATAATTT
1 AATTTAATTT
9269404 ATCATTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 12 0.36
26 11 0.33
27 3 0.09
28 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTAATTTCTTTAAAAATAATAAAA
Found at i:9270802 original size:2 final size:2
Alignment explanation
Indices: 9270795--9270830 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9270785 ATTCACTTAC
9270795 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9270831 CTTTCCTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9270998 original size:28 final size:23
Alignment explanation
Indices: 9270966--9271021 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 23
9270956 AGTTTTTTTT
9270966 TTTTTAAATTGTGGATTTAATTTTTATA
1 TTTTTAAA-TGT-GA-TTAA-TTTTA-A
9270994 TTTTT-AATGTGATTAATTTTAA
1 TTTTTAAATGTGATTAATTTTAA
9271016 TTTTTA
1 TTTTTA
9271022 TATAGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
22 6 0.22
23 5 0.19
24 4 0.15
25 2 0.07
26 3 0.11
27 2 0.07
28 5 0.19
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (23 bp):
TTTTTAAATGTGATTAATTTTAA
Found at i:9275508 original size:2 final size:2
Alignment explanation
Indices: 9275501--9275550 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
9275491 TAAATAATTT
* * *
9275501 TA TA TA TA CA TA TA TA TA TA TA TA TA TC TT TA -A 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
*
9275542 TA TG TA TA T
1 TA TA TA TA T
9275551 GTTTATGCAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9275539 original size:23 final size:23
Alignment explanation
Indices: 9275510--9275555 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9275500 TTATATATAC
9275510 ATATATATATATATATATCTTTA
1 ATATATATATATATATATCTTTA
* *
9275533 ATATATATATATGTATATGTTTA
1 ATATATATATATATATATCTTTA
9275556 TGCAATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
ATATATATATATATATATCTTTA
Found at i:9279444 original size:16 final size:16
Alignment explanation
Indices: 9279423--9279458 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9279413 ATTCATTTGA
9279423 CATTTATGCATTCATT
1 CATTTATGCATTCATT
*
9279439 CATTTATTCATTCATT
1 CATTTATGCATTCATT
9279455 CATT
1 CATT
9279459 GCATATCCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (16 bp):
CATTTATGCATTCATT
Found at i:9285543 original size:7 final size:7
Alignment explanation
Indices: 9285531--9285611 Score: 53
Period size: 7 Copynumber: 11.0 Consensus size: 7
9285521 TACATAAAAA
9285531 TATATAT
1 TATATAT
9285538 TATATAT
1 TATATAT
9285545 TATATTAACT
1 TATA-T-A-T
9285555 TA-ATAT
1 TATATAT
9285561 T-TAAGTAT
1 TAT-A-TAT
9285569 TA-ATAT
1 TATATAT
9285575 ATATATAT
1 -TATATAT
9285583 TATATAT
1 TATATAT
9285590 TAT-TAT
1 TATATAT
9285596 ATATAATAT
1 -TAT-ATAT
*
9285605 AATATAT
1 TATATAT
9285612 AAAACATGAG
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
6 8 0.13
7 33 0.54
8 12 0.20
9 5 0.08
10 3 0.05
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (7 bp):
TATATAT
Found at i:9285595 original size:10 final size:10
Alignment explanation
Indices: 9285566--9285599 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
9285556 AATATTTAAG
*
9285566 TATTAATATA
1 TATTATTATA
9285576 TATATATTATA
1 TAT-TATTATA
9285587 TATTATTATA
1 TATTATTATA
9285597 TAT
1 TAT
9285600 AATATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTATTATA
Found at i:9286775 original size:29 final size:30
Alignment explanation
Indices: 9286743--9286799 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
9286733 GCGCTCTCTG
9286743 ATTATTAGCACATT-AGTGCTCTCTGTTCT
1 ATTATTAGCACATTAAGTGCTCTCTGTTCT
*
9286772 ATTATTAGCACGTTAAGTGCTCTCTGTT
1 ATTATTAGCACATTAAGTGCTCTCTGTT
9286800 TAGCACATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (30 bp):
ATTATTAGCACATTAAGTGCTCTCTGTTCT
Found at i:9286816 original size:22 final size:22
Alignment explanation
Indices: 9286787--9286843 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
9286777 TAGCACGTTA
9286787 AGTGCTCTCTGTTTAGCACATCT
1 AGTGCTCTCTGTTTAGCAC-TCT
* *
9286810 -GTGCTCTCTGTATAGCACTTT
1 AGTGCTCTCTGTTTAGCACTCT
9286831 AGTGCTCTCTGTT
1 AGTGCTCTCTGTT
9286844 CGTTTGTGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 2 0.07
22 28 0.93
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (22 bp):
AGTGCTCTCTGTTTAGCACTCT
Found at i:9290498 original size:54 final size:54
Alignment explanation
Indices: 9290411--9290520 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
9290401 CGCTAAGGTA
9290411 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
* **
9290465 CTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGC
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
9290519 CT
1 CT
9290521 CAATACACGC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.39
Consensus pattern (54 bp):
CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGC
Found at i:9290569 original size:127 final size:127
Alignment explanation
Indices: 9290352--9290593 Score: 421
Period size: 127 Copynumber: 1.9 Consensus size: 127
9290342 CAATTTATAC
*
9290352 TTTTCCAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAATACACGCTAAGGTACTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAATACACGCTAAGGTACTTTCA
*
9290417 ATTTCTGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
66 ATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
* ** * *
9290479 TTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAATACACGCTGAGGTACTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAATACACGCTAAGGTACTTTCA
9290544 ATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCT
66 ATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCT
9290594 CGGGGCACGC
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
127 108 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (127 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAATAAGTTGAGCCTCAATACACGCTAAGGTACTTTCA
ATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTTTTAATTTCTGT
Found at i:9290589 original size:73 final size:73
Alignment explanation
Indices: 9290465--9290627 Score: 245
Period size: 73 Copynumber: 2.2 Consensus size: 73
9290455 TGAGTTGAGC
* *** *
9290465 CTTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAATACACG
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTCAAGACACG
9290530 CTGAGGTA
66 CTGAGGTA
** *
9290538 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTCGGGGCACG
1 CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTCAAGACACG
9290603 CTGAGGTA
66 CTGAGGTA
*
9290611 TTTTCAATTTCTGTTTT
1 CTTTCAATTTCTGTTTT
9290628 CAGTTTCTGT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 81 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (73 bp):
CTTTCAATTTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTA
Found at i:9290629 original size:13 final size:13
Alignment explanation
Indices: 9290611--9290640 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
9290601 CGCTGAGGTA
9290611 TTTTCAATTTCTG
1 TTTTCAATTTCTG
*
9290624 TTTTCAGTTTCTG
1 TTTTCAATTTCTG
9290637 TTTT
1 TTTT
9290641 TTCAAAAAAT
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:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:9290751 original size:83 final size:86
Alignment explanation
Indices: 9290546--9290784 Score: 288
Period size: 83 Copynumber: 2.8 Consensus size: 86
9290536 TACTTTCAAT
** * * *
9290546 TTCTGTTTTTCAAAAATCAACTCATATAACGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTA
1 TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACGATAAGGTA
* *
9290611 TTTTCAATTTCTGTTTTCAGT
66 TTTCCAATTTCTGTTTTCAGA
* *
9290632 TTCTGTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCCATGATAAGG
1 TTCTG-TTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACGATAAGG
9290696 TATTTCCAATTTCTGTTTT-A-A
64 TATTTCCAATTTCTGTTTTCAGA
* * * * * *
9290717 TTCATG-TTTTCAAAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGT
1 TTC-TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACGATAAGGT
9290781 ATTT
65 ATTT
9290785 TCAAAATCTG
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
83 35 0.26
84 19 0.14
85 3 0.02
86 8 0.06
87 33 0.25
88 35 0.26
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (86 bp):
TTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGCCACGATAAGGTA
TTTCCAATTTCTGTTTTCAGA
Found at i:9291037 original size:56 final size:54
Alignment explanation
Indices: 9290888--9291174 Score: 438
Period size: 56 Copynumber: 5.3 Consensus size: 54
9290878 CAAATTCTGT
**
9290888 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
9290942 TTTT--TTT-TGTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
9290993 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCT
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* *
9291049 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCC
1 TTTTAATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
*
9291105 TTTTAATTTCTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
1 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
9291158 TTTTAATTTCTGTTTTT
1 TTTTAATTTCTGTTTTT
9291175 ACGAGAGGTG
Statistics
Matches: 214, Mismatches: 14, Indels: 11
0.90 0.06 0.05
Matches are distributed among these distances:
51 45 0.21
52 3 0.01
53 52 0.24
54 12 0.06
56 102 0.48
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (54 bp):
TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
Found at i:9291108 original size:112 final size:108
Alignment explanation
Indices: 9290888--9291174 Score: 465
Period size: 109 Copynumber: 2.7 Consensus size: 108
9290878 CAAATTCTGT
*
9290888 TTTTAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTT--TTT-T
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
*
9290950 GTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCC
66 GTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCC
* * *
9290993 TTTTAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCTTTTTAATTT
1 TTTTAATTTCTATTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTT
9291058 CTGTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCC
64 CTGTTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGCTGAGCC
9291105 TTTTAATTTCTATTTTTC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
9291169 GTTTTT
66 GTTTTT
9291175 ACGAGAGGTG
Statistics
Matches: 167, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
105 16 0.10
107 38 0.23
109 53 0.32
110 8 0.05
112 52 0.31
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.41
Consensus pattern (108 bp):
TTTTAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
GTTTTTCAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCC
Found at i:9291187 original size:36 final size:36
Alignment explanation
Indices: 9291140--9291210 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
9291130 ACTCATATTG
*
9291140 CGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTA
1 CGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTA
9291176 CGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTT
1 CGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTT
9291211 CAAAAACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.45
Consensus pattern (36 bp):
CGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTA
Found at i:9291256 original size:90 final size:89
Alignment explanation
Indices: 9291084--9291264 Score: 308
Period size: 90 Copynumber: 2.0 Consensus size: 89
9291074 TCAACTCATA
* *
9291084 TTACGAGAGGTGAGCTGAGCCTTTTAATTTCTATTTTTCAAAATCAACTCATATTGCGAGAGGTG
1 TTACGAGAGGTGAGCTAAGCCTTTTAATTTCTATTTTTCAAAACCAACTCATATTGCGAGAGGTG
*
9291149 AGTTGAGCCTTTTAATTTCTGTTT
66 AGTTGAGCCTTTTAATTTCTATTT
* *
9291173 TTACGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAACCAACTCATATTGCGAGAGGT
1 TTACGAGAGGTGAGCTAAGCCTTTTAATTTCTATTTTTC-AAAACCAACTCATATTGCGAGAGGT
9291238 GAGTTGAGCCTTTTAATTTCTATTT
65 GAGTTGAGCCTTTTAATTTCTATTT
9291263 TT
1 TT
9291265 CAAAAATCAA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 36 0.42
90 50 0.58
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.41
Consensus pattern (89 bp):
TTACGAGAGGTGAGCTAAGCCTTTTAATTTCTATTTTTCAAAACCAACTCATATTGCGAGAGGTG
AGTTGAGCCTTTTAATTTCTATTT
Found at i:9291258 original size:54 final size:54
Alignment explanation
Indices: 9291176--9291302 Score: 227
Period size: 54 Copynumber: 2.4 Consensus size: 54
9291166 TCTGTTTTTA
* *
9291176 CGAGAGGTGAGTTAAGCCTTTTAATTTCTGTTTTTCAAAAACCAACTCATATTG
1 CGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTG
*
9291230 CGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAATCAACTCATATTG
1 CGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTG
9291284 CGAGAGGTGAGTTGAGCCT
1 CGAGAGGTGAGTTGAGCCT
9291303 CGGGTCACAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.35
Consensus pattern (54 bp):
CGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAAACCAACTCATATTG
Found at i:9291352 original size:143 final size:141
Alignment explanation
Indices: 9291060--9291445 Score: 462
Period size: 143 Copynumber: 2.7 Consensus size: 141
9291050 TTTAATTTCT
* * *
9291060 GTTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGCTGAGCCTTTTAATTTCTATTTTTC-A
1 GTTTTTC--AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAA
* * * * *
9291124 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTACGAGAGGTGAGTT
64 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGTCAATGTCGGTTTTTACGAGA---GAGAT
* **
9291189 AAGCCTTTTAATTTCT
126 AAGCCTTTTAAGTTAA
9291205 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAA
1 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAA
9291270 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTATTTT-C-A-A-A-
66 ATCAACTCATATTGCGAGAGGTGAGTTGAGCCT---GTCA-ATGTC--GGT-TTTTACGAGAGAG
*
9291330 ATATG-CTTTTCAAGTTAA
124 ATAAGCCTTTT-AAGTTAA
*
9291348 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAA
1 GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTC--AA
*
9291413 AAATCAACTCATATTGCCAGAGGTGAGTTGAGC
64 AAATCAACTCATATTGCGAGAGGTGAGTTGAGC
9291446 TTTTTAATTT
Statistics
Matches: 216, Mismatches: 14, Indels: 22
0.86 0.06 0.09
Matches are distributed among these distances:
142 5 0.02
143 118 0.55
144 37 0.17
145 41 0.19
147 2 0.01
148 5 0.02
149 1 0.00
150 3 0.01
151 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (141 bp):
GTTTTTCAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTATTTTTCAAAA
ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGTCAATGTCGGTTTTTACGAGAGAGATAAGCC
TTTTAAGTTAA
Found at i:9291613 original size:59 final size:56
Alignment explanation
Indices: 9291348--9291750 Score: 630
Period size: 56 Copynumber: 7.1 Consensus size: 56
9291338 TTCAAGTTAA
*
9291348 GTTTTTC--AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
* *
9291402 GTTTTTCAAAAAAATCAACTCATATTGCCAGAGGTGAGTTGAGCTTTTTAATTTCT
1 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
* * *
9291458 GTTTTTCAAAAAAATCAACTCATATTTCCAGAGGTGAGTTGAGCTTTTTAATTTCT
1 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
*
9291514 GTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
* *
9291570 GTTTTTCAAAAAAAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCT
1 GTTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
*
9291629 ATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
1 GTTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
*
9291686 GTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTCT
1 GTTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
9291745 GTTTTT
1 GTTTTT
9291751 AATGTTTAGT
Statistics
Matches: 326, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
54 7 0.02
56 157 0.48
57 54 0.17
59 108 0.33
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.38
Consensus pattern (56 bp):
GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCT
Found at i:9291677 original size:116 final size:115
Alignment explanation
Indices: 9291355--9291750 Score: 663
Period size: 116 Copynumber: 3.5 Consensus size: 115
9291345 TAAGTTTTTC
9291355 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAATCAA
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAATCAA
* *
9291420 CTCATATTGCCAGAGGTGAGTTGAGCTTTTTAATTTCTGTTTTTC---AA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
* * * * *
9291467 AAAAATCAACTCATATTTCCAGAGGTGAGTTGAGCTTTTTAATTTCTGTCTTTCAAAAAAATCAA
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAATCAA
9291532 CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
66 CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
* *
9291582 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTAATTTCTATTTTTCAAAAAAAATCA
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC-AAAAAAATCA
9291647 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
65 ACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
* *
9291698 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTCTGTTTTT
1 AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTT
9291751 AATGTTTAGT
Statistics
Matches: 264, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
112 103 0.39
115 51 0.19
116 110 0.42
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.37
Consensus pattern (115 bp):
AAAAACCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAAAATCAA
CTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTCAAAAA
Found at i:9293985 original size:20 final size:18
Alignment explanation
Indices: 9293945--9294006 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
9293935 ATAATTATCC
9293945 TTTTAAT-ATTATCAT-TA
1 TTTTAATCATTAT-ATATA
9293962 TTTTAATACATGTATATATA
1 TTTTAAT-CAT-TATATATA
*
9293982 TTTT-ATCATTATATTTA
1 TTTTAATCATTATATATA
9293999 TTATTAAT
1 TT-TTAAT
9294007 GTTATTAATG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 16 0.42
18 5 0.13
19 8 0.21
20 9 0.24
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTAATCATTATATATA
Found at i:9294147 original size:15 final size:15
Alignment explanation
Indices: 9294127--9294156 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9294117 ATATATATAT
9294127 ATATATATATCTTTA
1 ATATATATATCTTTA
*
9294142 ATATATATATGTTTA
1 ATATATATATCTTTA
9294157 TGCAATATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATATATATCTTTA
Found at i:9296036 original size:11 final size:11
Alignment explanation
Indices: 9296020--9296049 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9296010 ACTGAGTTTA
*
9296020 TATTAAAATAT
1 TATTAAAAAAT
9296031 TATTAAAAAAT
1 TATTAAAAAAT
9296042 TATTAAAA
1 TATTAAAA
9296050 GACTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATTAAAAAAT
Found at i:9298249 original size:20 final size:21
Alignment explanation
Indices: 9298215--9298259 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
9298205 AACTTAGAAT
9298215 AAATAATAAAAG-AAACTTTA
1 AAATAATAAAAGAAAACTTTA
* * *
9298235 AAATAATATATGAAAATTTTA
1 AAATAATAAAAGAAAACTTTA
9298256 AAAT
1 AAAT
9298260 GAATTACATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (21 bp):
AAATAATAAAAGAAAACTTTA
Found at i:9300211 original size:18 final size:18
Alignment explanation
Indices: 9300188--9300251 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
9300178 CCTTCGTGAT
9300188 CTGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
** * *
9300206 CTGAAGCACATAAGTGCTAAA
1 CTGAAGC-CCGAAGT--TTAG
*
9300227 CGGAAGCCCGAAGTTTAG
1 CTGAAGCCCGAAGTTTAG
9300245 CTGAAGC
1 CTGAAGC
9300252 ACATAAGTGC
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 15 0.45
19 5 0.15
20 5 0.15
21 8 0.24
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.19
Consensus pattern (18 bp):
CTGAAGCCCGAAGTTTAG
Found at i:9300244 original size:39 final size:39
Alignment explanation
Indices: 9300190--9300368 Score: 232
Period size: 39 Copynumber: 4.6 Consensus size: 39
9300180 TTCGTGATCT
** * * *
9300190 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACCGAAGCACACAAGTGCTAAACG
** * * *
9300229 GAAGCCCGAAGTTTAGCTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACCGAAGCACACAAGTGCTAAACG
*
9300268 GAAGCCCGGAGGCTAACCGAAGCACACAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACCGAAGCACACAAGTGCTAAACG
* *
9300307 GAAGCCCGGAGGCTAACCGAAGCACACAAGTGCTAAATG
1 GAAGCCCGAAGGCTAACCGAAGCACACAAGTGCTAAACG
*
9300346 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACCGAAGC
9300369 TCACCAGAGC
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.36, C:0.24, G:0.27, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACCGAAGCACACAAGTGCTAAACG
Found at i:9302203 original size:53 final size:53
Alignment explanation
Indices: 9302047--9302212 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
9302037 GACGAAAAAT
* **
9302047 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
9302099 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
9302152 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
9302206 TATGTGA
1 -ATGTGA
9302213 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:9309699 original size:53 final size:53
Alignment explanation
Indices: 9309563--9309708 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
9309553 TGTGCCAGTT
**
9309563 TAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
*
9309616 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATTCCGTA
1 TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
* *
9309669 TAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 TAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
9309709 ACCGTGTAAG
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (53 bp):
TAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACTCCGTA
Found at i:9314111 original size:5 final size:5
Alignment explanation
Indices: 9314101--9314131 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
9314091 AATAACAAAA
*
9314101 TATTT TATTT TATTT TATTT TATGT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
9314132 TGTTTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:9316347 original size:35 final size:35
Alignment explanation
Indices: 9316303--9316469 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
9316293 TCCTCATTGA
** *
9316303 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
9316338 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
9316378 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
9316413 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
9316448 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
9316470 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:9316386 original size:75 final size:73
Alignment explanation
Indices: 9316298--9316469 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
9316288 GGTTTTCCTC
** * * **
9316298 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
9316362 TCAGTATGG
65 TCAGTATGG
*
9316371 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
9316436 CTCAGTATGG
64 CTCAGTATGG
9316446 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
9316470 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:9330406 original size:74 final size:71
Alignment explanation
Indices: 9330203--9330553 Score: 363
Period size: 74 Copynumber: 4.9 Consensus size: 71
9330193 TTTGGGTACT
* * *
9330203 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTTATG-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
9330268 GGTCACACG
65 GGT--CACG
* ** * **
9330277 CTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAATTTATGTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTC
9330342 AGGTCACG
64 AGGTCACG
*
9330350 CTGAGGTATTTTTAATTCCCGT-TGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCC
1 CTGAGGTATTTTTAATT----TATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCC
*
9330414 TCAAG--ACG
62 TCAGGTCACG
* * * * *
9330422 TTGAGGTAATTTTAATTTATG-TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
1 CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
*
9330486 GGCACG
66 GTCACG
* ** * *
9330492 CTGAGGTATTTTTAGTTTATGTTT-AGAAAATTGACTCATCTTGCGA-AAGGTGAGTTAAGCCT
1 CTGAGGTATTTTTAATTTATGTTTCA-AAAATCAACTCATATTGCGAGAA-GTGAGTTGAGCCT
9330554 TTTAATTTCT
Statistics
Matches: 232, Mismatches: 33, Indels: 27
0.79 0.11 0.09
Matches are distributed among these distances:
68 40 0.17
69 2 0.01
70 22 0.09
71 31 0.13
72 18 0.08
73 24 0.10
74 52 0.22
75 36 0.16
76 6 0.03
77 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (71 bp):
CTGAGGTATTTTTAATTTATGTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAG
GTCACG
Found at i:9330495 original size:142 final size:143
Alignment explanation
Indices: 9330203--9330505 Score: 387
Period size: 142 Copynumber: 2.1 Consensus size: 143
9330193 TTTGGGTACT
* *
9330203 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAATTCACGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
* * **
9330268 GGTCACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAAAATTGACTCATATTGCGAGAGGTGAG
66 -G--ACACGCTGAGGTAATTTTAATTTATGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAG
*
9330333 TCAAGCCTCAGGTCACG
127 TCAAGCCTCAGGGCACG
* * *
9330350 CTGAGGTATTTTTAATTCCCGTTGTTTCAAAAATCAGCTCATATTGCGAGAAGTGAGTTGAGCCT
1 CTGAGGTATTTTTAATTCACG-T-TTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
* * * *
9330415 CA-AGACGTTGAGGTAATTTTAATTTATG-TTC-CAAAATCAACTCATATTGCGAGAGGTGAGTT
64 CAGACACGCTGAGGTAATTTTAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTC
* *
9330477 GAGCCTCGGGGCACG
129 AAGCCTCAGGGCACG
9330492 CTGAGGTATTTTTA
1 CTGAGGTATTTTTA
9330506 GTTTATGTTT
Statistics
Matches: 138, Mismatches: 16, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
142 53 0.38
144 3 0.02
145 22 0.16
147 18 0.13
148 1 0.01
149 41 0.30
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (143 bp):
CTGAGGTATTTTTAATTCACGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA
GACACGCTGAGGTAATTTTAATTTATGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTCAA
GCCTCAGGGCACG
Found at i:9330796 original size:56 final size:54
Alignment explanation
Indices: 9330662--9330864 Score: 262
Period size: 56 Copynumber: 3.7 Consensus size: 54
9330652 TACTTTTCAA
* * * * ** *
9330662 AAAAATAAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTGTTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
*
9330716 AAAAATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
* * *
9330770 AAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTTTTTTTTTTTC
1 -AA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAA--TTTATATTTTTC
*
9330828 AAAAATCAACTCATATTGCGAGAGGTGAGTCGAGCCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
9330865 CAAGCCACAC
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
54 46 0.35
55 2 0.02
56 71 0.54
57 2 0.02
58 10 0.08
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (54 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
Found at i:9330863 original size:112 final size:110
Alignment explanation
Indices: 9330655--9330864 Score: 303
Period size: 112 Copynumber: 1.9 Consensus size: 110
9330645 TAATTCCTAC
* * *
9330655 TTTTCAAAAAAATAAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTCCTGTTTTTCAAAA
1 TTTTCAAAAAAATAAACCCATATTGCGAGAGGTGAGTTGAACCTTTCAATTCCTGTTTTTCAAAA
* *
9330720 ATCAACTCATATTGGGAGAGGTGAGTTGAGCCTTTCAATTTATAT
66 ATCAACTCATATTGCGAGAGGTGAGTCGAGCCTTTCAATTTATAT
* * * ** *
9330765 TTTTCAAATAAATCAACCCATATTGCGAGAGGTGAGTTGAGCCTTTCAACTTTTTTTTTTTTCAA
1 TTTTCAAAAAAATAAACCCATATTGCGAGAGGTGAGTTGAACCTTTCAA--TTCCTGTTTTTCAA
9330830 AAATCAACTCATATTGCGAGAGGTGAGTCGAGCCT
64 AAATCAACTCATATTGCGAGAGGTGAGTCGAGCCT
9330865 CAAGCCACAC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
110 43 0.49
112 44 0.51
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (110 bp):
TTTTCAAAAAAATAAACCCATATTGCGAGAGGTGAGTTGAACCTTTCAATTCCTGTTTTTCAAAA
ATCAACTCATATTGCGAGAGGTGAGTCGAGCCTTTCAATTTATAT
Found at i:9331120 original size:44 final size:44
Alignment explanation
Indices: 9331058--9331164 Score: 207
Period size: 44 Copynumber: 2.5 Consensus size: 44
9331048 GATTTGGATA
9331058 CCCTGAAG-TGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
1 CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
9331101 CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
1 CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
9331145 CCCTGAAGTTGCAGTGAAGC
1 CCCTGAAGTTGCAGTGAAGC
9331165 TGATCGAGGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 8 0.13
44 55 0.87
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.21
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGAAGCAGGTCAAAGCTGCAAGTCTGGTCT
Found at i:9331633 original size:33 final size:30
Alignment explanation
Indices: 9331595--9331661 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 30
9331585 TCAATACACT
9331595 AAAACCCCTACCCAAACCTTAGCCCAACTACCC
1 AAAA-CCC-ACCC-AACCTTAGCCCAACTACCC
9331628 -AAA---ACCCAACCTTAGCCCAACTACCC
1 AAAACCCACCCAACCTTAGCCCAACTACCC
9331654 AAAACCCA
1 AAAACCCA
9331662 ACACTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 11
0.73 0.00 0.27
Matches are distributed among these distances:
26 19 0.63
27 7 0.23
30 1 0.03
32 3 0.10
ACGTcount: A:0.40, C:0.46, G:0.03, T:0.10
Consensus pattern (30 bp):
AAAACCCACCCAACCTTAGCCCAACTACCC
Found at i:9331638 original size:26 final size:26
Alignment explanation
Indices: 9331604--9331663 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
9331594 TAAAACCCCT
9331604 ACCCAAACCTTAGCCCAACTACCCAAA
1 ACCC-AACCTTAGCCCAACTACCCAAA
9331631 ACCCAACCTTAGCCCAACTACCCAAA
1 ACCCAACCTTAGCCCAACTACCCAAA
9331657 ACCCAAC
1 ACCCAAC
9331664 ACTTGACCCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 29 0.88
27 4 0.12
ACGTcount: A:0.40, C:0.47, G:0.03, T:0.10
Consensus pattern (26 bp):
ACCCAACCTTAGCCCAACTACCCAAA
Found at i:9332793 original size:3 final size:3
Alignment explanation
Indices: 9332785--9332863 Score: 149
Period size: 3 Copynumber: 26.0 Consensus size: 3
9332775 ATATCCATGT
9332785 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9332833 TTA TTA TTA TTA TTA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
9332864 GTTTACGTTT
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9335266 original size:14 final size:14
Alignment explanation
Indices: 9335247--9335275 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
9335237 TAACAACCAC
9335247 AGCCAACTAAATAT
1 AGCCAACTAAATAT
9335261 AGCCAACTAAATAT
1 AGCCAACTAAATAT
9335275 A
1 A
9335276 TGCAATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AGCCAACTAAATAT
Found at i:9336533 original size:16 final size:16
Alignment explanation
Indices: 9336500--9336546 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9336490 AATATATATA
*
9336500 TATATATTTCA-AAATT
1 TATATATTT-AGAATTT
9336516 TATATATTTAGAATTT
1 TATATATTTAGAATTT
*
9336532 TATAATTTTTAGAAT
1 TAT-ATATTTAGAAT
9336547 ACCATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 16 0.59
17 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (16 bp):
TATATATTTAGAATTT
Found at i:9337725 original size:3 final size:3
Alignment explanation
Indices: 9337717--9337899 Score: 215
Period size: 3 Copynumber: 59.7 Consensus size: 3
9337707 ATATACTATA
* * * *
9337717 AAT AAT AAT AAT AGAA AAT AAT AAT AGT ACT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
9337763 GAT GAT AAT AAT ATAT AAT ATAT AAA AAA AAT AAA AAT AAT GAT ATT
1 AAT AAT AAT AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
9337810 AAT ACAT AA- ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9337856 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9337900 AAGTTTTAAA
Statistics
Matches: 157, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
2 1 0.01
3 144 0.92
4 12 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:9338011 original size:15 final size:14
Alignment explanation
Indices: 9337996--9338098 Score: 68
Period size: 15 Copynumber: 7.1 Consensus size: 14
9337986 AACATATATA
9337996 AGAAAAATAATAAT
1 AGAAAAATAATAAT
*
9338010 --AAAAATAATATT
1 AGAAAAATAATAAT
9338022 AGTATATAAATAGA-AAT
1 AG-A-A-AAATA-ATAAT
*
9338039 AGAAATATAATAAT
1 AGAAAAATAATAAT
* *
9338053 AGTAGAAATAAAAAT
1 AG-AAAAATAATAAT
* *
9338068 AGATAAATAAAAATT
1 AGAAAAATAATAA-T
*
9338083 AGATAAATAATAAT
1 AGAAAAATAATAAT
9338097 AG
1 AG
9338099 TATTAGAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 18
0.73 0.08 0.18
Matches are distributed among these distances:
12 11 0.15
13 1 0.01
14 22 0.31
15 26 0.36
16 2 0.03
17 9 0.12
18 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (14 bp):
AGAAAAATAATAAT
Found at i:9338090 original size:29 final size:29
Alignment explanation
Indices: 9338026--9338098 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 29
9338016 AATATTAGTA
* *
9338026 TATAAATAGAAATAGAAATATAATAATAG
1 TATAAATAAAAATAGAAATATAAAAATAG
*
9338055 TAGAAATAAAAATAGATAA-ATAAAAATTAG
1 TATAAATAAAAATAGA-AATATAAAAA-TAG
*
9338085 -ATAAATAATAATAG
1 TATAAATAAAAATAG
9338099 TATTAGAATA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 32 0.86
30 5 0.14
ACGTcount: A:0.64, C:0.00, G:0.10, T:0.26
Consensus pattern (29 bp):
TATAAATAAAAATAGAAATATAAAAATAG
Found at i:9338091 original size:46 final size:42
Alignment explanation
Indices: 9338027--9338144 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 42
9338017 ATATTAGTAT
*
9338027 ATAAATAGAAATAG-AAAT-ATAATAATAGTAGAAATAAAAATA
1 ATAAATAAAAATAGAAAATAATAATAATAGTAG-AATAAAAA-A
* * *
9338069 GATAAATAAAAATTAGATAAATAATAATAGTATTAGAATAACAAA
1 -ATAAATAAAAA-TAGA-AAATAATAATAATAGTAGAATAAAAAA
*
9338114 ATAAATATAAATAGAAACATAATAATAATAG
1 ATAAATAAAAATAGAAA-ATAATAATAATAG
9338145 CAATAATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.03
43 25 0.40
44 13 0.21
45 1 0.02
46 11 0.17
47 11 0.17
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.25
Consensus pattern (42 bp):
ATAAATAAAAATAGAAAATAATAATAATAGTAGAATAAAAAA
Found at i:9342426 original size:27 final size:26
Alignment explanation
Indices: 9342392--9342477 Score: 63
Period size: 26 Copynumber: 3.3 Consensus size: 26
9342382 TGTTATATGA
9342392 CATTAGCAAGTGGACCTTATGAAATC
1 CATTAGCAAGTGGACCTTATGAAATC
* * * * *
9342418 CATTCAGC-ATTAGA-ATGT-T-ATATGA
1 CATT-AGCAAGTGGACCT-TATGAAAT-C
9342443 CATTAGCAAGTGGACCTTATGAAATC
1 CATTAGCAAGTGGACCTTATGAAATC
9342469 CATTCAGCA
1 CATT-AGCA
9342478 TGATTGGTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 15
0.63 0.15 0.22
Matches are distributed among these distances:
24 6 0.14
25 11 0.26
26 15 0.36
27 10 0.24
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (26 bp):
CATTAGCAAGTGGACCTTATGAAATC
Found at i:9342452 original size:51 final size:51
Alignment explanation
Indices: 9342376--9342478 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
9342366 TGTGATAAAC
9342376 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
9342427 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
1 TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
9342478 T
1 T
9342479 GATTGGTGGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (51 bp):
TTAGAATGTTATATGACATTAGCAAGTGGACCTTATGAAATCCATTCAGCA
Found at i:9348092 original size:3 final size:3
Alignment explanation
Indices: 9348084--9348121 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
9348074 GTAAAAGTAC
* *
9348084 TCT TCT TCT TCT TCT TTT TCT TCC TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
9348122 GACTACTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:9348538 original size:7 final size:7
Alignment explanation
Indices: 9348523--9348582 Score: 57
Period size: 7 Copynumber: 8.6 Consensus size: 7
9348513 GGGGCTCTAT
9348523 TGAAATG
1 TGAAATG
*
9348530 TGAACTG
1 TGAAATG
*
9348537 TGAAAGG
1 TGAAATG
*
9348544 TGAAAGG
1 TGAAATG
*
9348551 TGAAAGG
1 TGAAATG
*
9348558 TGAAAGG
1 TGAAATG
*
9348565 TGAAAGG
1 TGAAATG
*
9348572 TGAAAGG
1 TGAAATG
9348579 TGAA
1 TGAA
9348583 TGGATCATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 50 1.00
ACGTcount: A:0.42, C:0.02, G:0.38, T:0.18
Consensus pattern (7 bp):
TGAAATG
Found at i:9348546 original size:14 final size:14
Alignment explanation
Indices: 9348536--9348582 Score: 94
Period size: 14 Copynumber: 3.4 Consensus size: 14
9348526 AATGTGAACT
9348536 GTGAAAGGTGAAAG
1 GTGAAAGGTGAAAG
9348550 GTGAAAGGTGAAAG
1 GTGAAAGGTGAAAG
9348564 GTGAAAGGTGAAAG
1 GTGAAAGGTGAAAG
9348578 GTGAA
1 GTGAA
9348583 TGGATCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.15
Consensus pattern (14 bp):
GTGAAAGGTGAAAG
Found at i:9348553 original size:21 final size:21
Alignment explanation
Indices: 9348536--9348582 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
9348526 AATGTGAACT
9348536 GTGAAAGGTGAAAGGTGAAAG
1 GTGAAAGGTGAAAGGTGAAAG
9348557 GTGAAAGGTGAAAGGTGAAAG
1 GTGAAAGGTGAAAGGTGAAAG
9348578 GTGAA
1 GTGAA
9348583 TGGATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.15
Consensus pattern (21 bp):
GTGAAAGGTGAAAGGTGAAAG
Found at i:9368389 original size:46 final size:46
Alignment explanation
Indices: 9368333--9368637 Score: 425
Period size: 46 Copynumber: 6.6 Consensus size: 46
9368323 GCTCTCTGAA
** *
9368333 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* ** *
9368379 ATGAAGTGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
9368425 ATAAAAAGAATAAGACCATGGTTGAGAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
**
9368471 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
9368517 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
9368563 ATGAAAAT-AATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
9368609 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
9368638 CATTATGGCA
Statistics
Matches: 236, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
45 6 0.03
46 226 0.96
47 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:9368647 original size:138 final size:138
Alignment explanation
Indices: 9368336--9368637 Score: 478
Period size: 138 Copynumber: 2.2 Consensus size: 138
9368326 CTCTGAAATG
* * * * **
9368336 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAGTGTGTAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGT
*
9368401 TGAAAGATACCATGGCAACGTGACATAAAAAGAATAAGACCATGGTTGAGAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACGTGACATAAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
9368466 ATGACGGG
131 ATGACAGA
* *
9368474 AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGT
1 AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGT
* *
9368539 TGAAAGATACCATGGCAACGTGACATGAAAATAATAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACGTGACATAAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
9368604 ATGACAGA
131 ATGACAGA
*
9368612 AAATGAGTAAGACCATAGTTGAAAGA
1 AAATGAGTAAGACCATGGTTGAAAGA
9368638 CATTATGGCA
Statistics
Matches: 149, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
138 149 1.00
ACGTcount: A:0.42, C:0.14, G:0.25, T:0.19
Consensus pattern (138 bp):
AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAATAAGACCATGGT
TGAAAGATACCATGGCAACGTGACATAAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
ATGACAGA
Found at i:9373785 original size:5 final size:5
Alignment explanation
Indices: 9373775--9373815 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
9373765 TTATGTTTTA
9373775 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
9373816 AAACATAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:9374189 original size:18 final size:19
Alignment explanation
Indices: 9374168--9374206 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9374158 ATATATAGAT
9374168 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
9374186 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
9374205 AT
1 AT
9374207 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:9374567 original size:39 final size:39
Alignment explanation
Indices: 9374446--9374580 Score: 105
Period size: 39 Copynumber: 3.4 Consensus size: 39
9374436 GACCTCGAGT
* * * *
9374446 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATA-GATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTC-GA-ACTATC
** ** * *
9374487 CGATGAGGTACTGGGTACCAACT-TTACTTCG-ACTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGAACTA-TC
*
9374525 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTATC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGAACTATC
*
9374564 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
9374581 CCATATTGGT
Statistics
Matches: 72, Mismatches: 18, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
36 1 0.01
37 1 0.01
38 19 0.26
39 30 0.42
40 5 0.07
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGAACTATC
Found at i:9374724 original size:18 final size:19
Alignment explanation
Indices: 9374703--9374743 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9374693 AATAAAATGA
9374703 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
9374721 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
9374740 GAAA
1 GAAA
9374744 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:9379242 original size:5 final size:5
Alignment explanation
Indices: 9379232--9379272 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
9379222 TTATGTTTTA
9379232 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
9379273 AAACATAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:9379646 original size:18 final size:19
Alignment explanation
Indices: 9379625--9379663 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9379615 ATATATAGAT
9379625 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
9379643 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
9379662 AT
1 AT
9379664 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:9380013 original size:39 final size:39
Alignment explanation
Indices: 9379903--9380037 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
9379893 GACCTCGAGT
* * * *
9379903 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
9379944 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
9379982 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
9380021 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
9380038 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:9380181 original size:18 final size:19
Alignment explanation
Indices: 9380160--9380200 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9380150 AATAAAATGA
9380160 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
9380178 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
9380197 GAAA
1 GAAA
9380201 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:9381387 original size:40 final size:40
Alignment explanation
Indices: 9381343--9381422 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9381333 CTTTTTATGT
9381343 GTTCGGTTTAACGGTGACATAAGCCATACTATACATACAA
1 GTTCGGTTTAACGGTGACATAAGCCATACTATACATACAA
9381383 GTTCGGTTTAACGGTGACATAAGCCATACTATACATACAA
1 GTTCGGTTTAACGGTGACATAAGCCATACTATACATACAA
9381423 TCACAAACTC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (40 bp):
GTTCGGTTTAACGGTGACATAAGCCATACTATACATACAA
Found at i:9382296 original size:15 final size:16
Alignment explanation
Indices: 9382275--9382314 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
9382265 AAGAGAATGG
9382275 AAAATAAAGGG-GAAA
1 AAAATAAAGGGAGAAA
*
9382290 GAAATAAGAGGGAGAAA
1 AAAATAA-AGGGAGAAA
9382307 AAAATAAA
1 AAAATAAA
9382315 ATTCTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 5 0.24
17 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.07
Consensus pattern (16 bp):
AAAATAAAGGGAGAAA
Found at i:9382775 original size:11 final size:11
Alignment explanation
Indices: 9382761--9382800 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9382751 ATTTTTTTCC
9382761 CTATTTTGCTA
1 CTATTTTGCTA
*
9382772 CTATTTTACTA
1 CTATTTTGCTA
* *
9382783 TTATGTTGCTA
1 CTATTTTGCTA
9382794 CTATTTT
1 CTATTTT
9382801 ATTGTTGTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:9383003 original size:18 final size:18
Alignment explanation
Indices: 9382982--9383021 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
9382972 GAAATATTTA
*
9382982 TTTTGATGT-TTTTAATAT
1 TTTTGATGTATTAT-ATAT
9383000 TTTTGATGTATTATATAT
1 TTTTGATGTATTATATAT
9383018 TTTT
1 TTTT
9383022 TAAAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.68
Consensus pattern (18 bp):
TTTTGATGTATTATATAT
Found at i:9388762 original size:18 final size:19
Alignment explanation
Indices: 9388739--9388774 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
9388729 CCCAATATTA
9388739 TCTTCTGCTTTTT-TTTTT
1 TCTTCTGCTTTTTGTTTTT
*
9388757 TCTTCTTCTTTTTGTTTT
1 TCTTCTGCTTTTTGTTTT
9388775 GCTCTTTCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.00, C:0.17, G:0.06, T:0.78
Consensus pattern (19 bp):
TCTTCTGCTTTTTGTTTTT
Found at i:9396950 original size:69 final size:69
Alignment explanation
Indices: 9396854--9396991 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 69
9396844 AATAACATTT
*
9396854 TAAGTAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
1 TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
9396919 CATA
66 CATA
* * * * *
9396923 TAAGCAATATTGCTAGAGATTATCAACAAAATTTAACTTATAATCATTTGTATTAATTTTTGTTA
1 TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
9396988 CATA
66 CATA
9396992 ATATAGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (69 bp):
TAAGCAATACTGCAAGAGATTATCAACAAAATTTAACTTATAATCATATGTATTAATTGTTATTA
CATA
Found at i:9408328 original size:6 final size:6
Alignment explanation
Indices: 9408289--9408344 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
9408279 ATTGAGTCCA
* * *
9408289 TTTA-T TTTATTT TATTATT TTCATT TTCATT TTTATT TTTATG TTTATT
1 TTTATT TTTA-TT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
9408338 GTTATT T
1 TTTATT T
9408345 CTTAGACGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
5 4 0.10
6 30 0.71
7 5 0.12
8 3 0.07
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:9412501 original size:42 final size:43
Alignment explanation
Indices: 9412442--9412523 Score: 112
Period size: 42 Copynumber: 1.9 Consensus size: 43
9412432 GAGATTTACA
* *
9412442 TGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATTTTG
1 TGTAAGACCATATCTGGGACAGTGGCATTGATATATGATTTTG
* * *
9412484 TGTAAGACCCTATCTGGGATAGTGGCATTGATATTTGATT
1 TGTAAGACCATATCTGGGACAGTGGCATTGATATATGATT
9412524 ACATGTAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 26 0.76
43 8 0.24
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATTGATATATGATTTTG
Found at i:9412553 original size:43 final size:43
Alignment explanation
Indices: 9412398--9412555 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
9412388 TATGTTGTCG
* *
9412398 TGTAAGACCACGTTTGGGACGTTGGCATTGAT-TTGAGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATT-TGA-TTACA
* * * ***
9412442 TGTAAGACCATGTCTGGGACATTGGCATTG-TATATGATTTTG
1 TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
* *
9412484 TGTAAGACC-CTATCTGGGATAG-TGGCATTGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGA-CGTTGGCATTGATATTTGATTACA
*
9412527 TGTAAGACCACGTCTAGGACGTTGGCATT
1 TGTAAGACCACGTCTGGGACGTTGGCATT
9412556 ATACGATCTT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 27 0.30
43 33 0.37
44 29 0.33
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTGATATTTGATTACA
Found at i:9417112 original size:44 final size:44
Alignment explanation
Indices: 9417049--9417136 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
9417039 CATCAAGACT
9417049 GAAGATCTCCCTTCAAATTCCCTCAAGAGTTTTGGGTTTTCTTA
1 GAAGATCTCCCTTCAAATTCCCTCAAGAGTTTTGGGTTTTCTTA
* *
9417093 GAAGATCTCCCTTCAAATTCCCTTAGGAGTTTTGGGTTTTCTTA
1 GAAGATCTCCCTTCAAATTCCCTCAAGAGTTTTGGGTTTTCTTA
9417137 TGTTTTGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (44 bp):
GAAGATCTCCCTTCAAATTCCCTCAAGAGTTTTGGGTTTTCTTA
Found at i:9418338 original size:20 final size:20
Alignment explanation
Indices: 9418313--9418352 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9418303 CTCGTAGCTG
9418313 ATGCATGTCCCAGACATGTC
1 ATGCATGTCCCAGACATGTC
*
9418333 ATGCATGTCCCAGACCTGTC
1 ATGCATGTCCCAGACATGTC
9418353 TTACACTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.25
Consensus pattern (20 bp):
ATGCATGTCCCAGACATGTC
Found at i:9418459 original size:49 final size:46
Alignment explanation
Indices: 9418333--9418461 Score: 136
Period size: 49 Copynumber: 2.7 Consensus size: 46
9418323 CAGACATGTC
*
9418333 ATGCATGTCCCAGACCTGTCTTACACTAGCTCTCGTCTAATTGCCG
1 ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTAATTGCCG
* * *
9418379 ATGCCATGTCTCGGACACGGTCTTACACTAGCT-TAAC-TCATAATATGGCCG
1 ATG-CATGTCCCAGACA-TGTCTTACACTAGCTCT--CGTC-TAAT-T-GCCG
*
9418430 ATGCATGTCCCAGACATGTCTTATACTAGCTC
1 ATGCATGTCCCAGACATGTCTTACACTAGCTC
9418462 ACAATAGTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
46 3 0.04
47 11 0.16
48 16 0.24
49 18 0.27
50 12 0.18
51 7 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTAATTGCCG
Found at i:9420844 original size:21 final size:22
Alignment explanation
Indices: 9420814--9420856 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
9420804 ATTTTTTAAA
*
9420814 AAAAAGGAAAATTATATATATT
1 AAAAAGGAAAAGTATATATATT
9420836 AAAAA-GAAAAGTATATATATT
1 AAAAAGGAAAAGTATATATATT
9420857 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AAAAAGGAAAAGTATATATATT
Found at i:9421840 original size:15 final size:16
Alignment explanation
Indices: 9421820--9421850 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
9421810 GTAAAGAGAC
9421820 TAAATTCAAAA-AAAT
1 TAAATTCAAAACAAAT
9421835 TAAATTCAAAACAAAT
1 TAAATTCAAAACAAAT
9421851 GAAGAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.65, C:0.10, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAATTCAAAACAAAT
Found at i:9422509 original size:104 final size:105
Alignment explanation
Indices: 9422311--9422572 Score: 305
Period size: 104 Copynumber: 2.4 Consensus size: 105
9422301 TTTTTAACTT
* * *
9422311 TAAATCCAATCAAAATTAAATATGACAAATTTAAAAGAAAAGCAGTTGTAAATGCACCTTTCAAT
1 TAAATCCAATCGAAATTAAATATG----ATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAAC
* * **
9422376 AACTACCATGAAGTTTCTTTTAAATTGTTAAGGGTACTTCACTC
62 AACTACCATGAAGTTTATTTGAAATTGTTAAAAGTACTTCACTC
* * * *
9422420 TAAATCCAATCGAAATTAAATATGA-TTAAAGGAAAATCAATTGTAAATGTACCTTTCAACAGCT
1 TAAATCCAATCGAAATTAAATATGATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAACAACT
*
9422484 ACCATGAAGTTTATTTGAAGA-TGTTAAAAGTACTTCATTC
66 ACCATGAAGTTTATTTGAA-ATTGTTAAAAGTACTTCACTC
*
9422524 TAAAT-CAATCGAAATTAAATATGACGTATTTAAAAGAAAATCAATTGTA
1 TAAATCCAATCGAAATTAAATAT---G-ATTTAAAAGAAAAGCAATTGTA
9422573 TAGTAAATGT
Statistics
Matches: 134, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
103 17 0.13
104 71 0.53
105 2 0.01
106 1 0.01
107 1 0.01
108 19 0.14
109 23 0.17
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (105 bp):
TAAATCCAATCGAAATTAAATATGATTTAAAAGAAAAGCAATTGTAAATGCACCTTTCAACAACT
ACCATGAAGTTTATTTGAAATTGTTAAAAGTACTTCACTC
Found at i:9422751 original size:19 final size:19
Alignment explanation
Indices: 9422714--9422751 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9422704 CTAATTAAGT
*
9422714 TTTAATTAGATGAATTTAG
1 TTTAATTAGATGAAATTAG
9422733 TTTAATTAAGA-GAAATTAG
1 TTTAATT-AGATGAAATTAG
9422752 GAAAAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (19 bp):
TTTAATTAGATGAAATTAG
Found at i:9422915 original size:29 final size:29
Alignment explanation
Indices: 9422892--9422948 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
9422882 TATTATTGTT
*
9422892 ATTATTTTATTATATTAT-AAATTAAATTG
1 ATTATATTATTATATTATGAAATT-AATTG
*
9422921 ATTATATTATTATATTATGAAATAAATT
1 ATTATATTATTATATTATGAAATTAATT
9422949 AAGAAAAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (29 bp):
ATTATATTATTATATTATGAAATTAATTG
Found at i:9423048 original size:33 final size:32
Alignment explanation
Indices: 9423006--9423077 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 32
9422996 AAATGAGTAC
9423006 ATTTGTATTATTTA-TATATAATTAGTAAAGAGAT
1 ATTT-TATTATTTATTAT-TAATTAGTAAA-AGAT
9423040 ATTTTATTATTTATTATTAATTAGTAAAAGAT
1 ATTTTATTATTTATTATTAATTAGTAAAAGAT
9423072 -TTTTAT
1 ATTTTAT
9423078 ATGATAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
31 6 0.16
32 4 0.11
33 20 0.54
34 7 0.19
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (32 bp):
ATTTTATTATTTATTATTAATTAGTAAAAGAT
Done.