Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 275 of 373
Found at i:93212955 original size:38 final size:39
Alignment explanation
Indices: 93212872--93212956 Score: 109
Period size: 39 Copynumber: 2.2 Consensus size: 39
93212862 AATAAAATCA
*
93212872 CTAAAAATAAGCATTAGCGGCGCTTTTCGGAAAACGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCG
* * *
93212911 CTAAAAATGAGCATTAGTGGCG-TTTTTAGAAAAGCGCCG
1 CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAA-CGCCG
*
93212950 CAAAAAA
1 CTAAAAA
93212957 ACTAGGCCCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 9 0.22
39 31 0.77
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (39 bp):
CTAAAAATAAGCATTAGCGGCGCTTTTCAGAAAACGCCG
Found at i:93213815 original size:38 final size:38
Alignment explanation
Indices: 93213735--93213816 Score: 119
Period size: 38 Copynumber: 2.2 Consensus size: 38
93213725 GGTTACAAAC
* * * *
93213735 TTTATCTGTTTTTTATATGTTTATCTCACAAATTTTCT
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
*
93213773 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTGG
1 TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
93213811 TTTATC
1 TTTATC
93213817 AATTGTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.56
Consensus pattern (38 bp):
TTTATCTGCTTTTTACATGTTTATCTCACAAAGTTTCG
Found at i:93217826 original size:43 final size:43
Alignment explanation
Indices: 93217779--93217963 Score: 241
Period size: 43 Copynumber: 4.3 Consensus size: 43
93217769 TTTATTTTTT
* *
93217779 AAGCGTCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGGAA
1 AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
* *
93217822 AAGCGTCGCTAAAGGTCA-GAGTCTTTAGCGGCGTTTGTCGGAA
1 AAGCGTCGCTAAAGGTTATG-GTCTTTAGCGGCGTTTGTGGGAA
*
93217865 AAGCGTCGCTAAA-GTTCATCGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGTCGCTAAAGGTT-ATGGTCTTTAGCGGCGTTTGTGGGAA
* * **
93217908 AAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTGGG-A
1 AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
*
93217950 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
93217964 TTAGAGACGC
Statistics
Matches: 126, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
42 18 0.14
43 106 0.84
44 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (43 bp):
AAGCGTCGCTAAAGGTTATGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:93217871 original size:86 final size:86
Alignment explanation
Indices: 93217779--93217963 Score: 268
Period size: 86 Copynumber: 2.2 Consensus size: 86
93217769 TTTATTTTTT
* * * *
93217779 AAGCGTCGCTAAAGGTT-GTGGTCTTTAGCGGCGTTTTTGGGAAAAGCGTCGCTAAAGGTCA-GA
1 AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
93217842 GTCTTTAGCGGCGTTTGTCGGAA
66 -CCTTTAGCGGCGTTTGT-GGAA
93217865 AAGCGTCGCTAAA-GTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
1 AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
*
93217929 CCTTTAGCGGCGTTTGTGGGA
66 CCTTTAGCGGCGTTTGTGGAA
*
93217950 AAGCGCCGCTAAAG
1 AAGCGTCGCTAAAG
93217964 TTAGAGACGC
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
85 18 0.20
86 69 0.78
87 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.26
Consensus pattern (86 bp):
AAGCGTCGCTAAAGGTTCATCGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGA
CCTTTAGCGGCGTTTGTGGAA
Found at i:93219596 original size:5 final size:5
Alignment explanation
Indices: 93219586--93219678 Score: 75
Period size: 5 Copynumber: 17.6 Consensus size: 5
93219576 ATTGATATCC
*
93219586 AAATA AAATA AAATA AAATAA TAAATA ATAA-A TAATA AAATA AAATA
1 AAATA AAATA AAATA AAAT-A -AAATA A-AATA AAATA AAATA AAATA
*
93219633 AAATA ATAA-A TAATGA ATAATA AAATAA AAATA AAGA-A AAATA AAA
1 AAATA A-AATA AAAT-A A-AATA AAAT-A AAATA AA-ATA AAATA AAA
93219679 ATTGGGTTGC
Statistics
Matches: 73, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
4 5 0.07
5 46 0.63
6 15 0.21
7 7 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:93219613 original size:7 final size:7
Alignment explanation
Indices: 93219601--93219666 Score: 71
Period size: 7 Copynumber: 8.9 Consensus size: 7
93219591 AAATAAAATA
93219601 AAATAAT
1 AAATAAT
93219608 AAATAAT
1 AAATAAT
93219615 AAATAAT
1 AAATAAT
93219622 AAAATAAAAT
1 -AAAT--AAT
93219632 AAAATAAT
1 -AAATAAT
93219640 AAATAAT
1 AAATAAT
*
93219647 GAATAAT
1 AAATAAT
93219654 AAAATAA-
1 -AAATAAT
93219661 AAATAA
1 AAATAA
93219667 AGAAAAATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
6 6 0.11
7 27 0.51
8 12 0.23
10 8 0.15
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:93219624 original size:32 final size:32
Alignment explanation
Indices: 93219587--93219667 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
93219577 TTGATATCCA
93219587 AATAAAATAAAATAAAATAATAAATAATAAAT
1 AATAAAATAAAATAAAATAATAAATAATAAAT
*
93219619 AATAAAATAAAATAAAATAATAAATAATGAAT
1 AATAAAATAAAATAAAATAATAAATAATAAAT
93219651 AATAAAATAAAAATAAA
1 AATAAAAT-AAAATAAA
93219668 GAAAAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 39 0.83
33 8 0.17
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (32 bp):
AATAAAATAAAATAAAATAATAAATAATAAAT
Found at i:93219680 original size:22 final size:20
Alignment explanation
Indices: 93219586--93219678 Score: 82
Period size: 22 Copynumber: 4.4 Consensus size: 20
93219576 ATTGATATCC
93219586 AAATAAAAT-AAAATAAAATA
1 AAATAAAATAAAAATAAAA-A
*
93219606 ATAA-ATAATAAATAATAAAATA
1 A-AATAAAATAAA-AATAAAA-A
*
93219628 AAATAAAATAATAAATAATGAA
1 AAATAAAATAA-AAATAA-AAA
*
93219650 TAATAAAATAAAAATAAAGAA
1 AAATAAAATAAAAATAAA-AA
93219671 AAATAAAA
1 AAATAAAA
93219679 ATTGGGTTGC
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
20 5 0.08
21 21 0.35
22 32 0.53
23 2 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (20 bp):
AAATAAAATAAAAATAAAAA
Found at i:93223298 original size:10 final size:10
Alignment explanation
Indices: 93223271--93223319 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
93223261 TTAAATTCTA
93223271 AAAGATAAAT
1 AAAGATAAAT
93223281 ATAA-ATAAAT
1 A-AAGATAAAT
*
93223291 AAAGATAATT
1 AAAGATAAAT
93223301 AAAGATAAAT
1 AAAGATAAAT
*
93223311 GAAGATAAA
1 AAAGATAAA
93223320 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 30 0.88
11 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:93243151 original size:21 final size:22
Alignment explanation
Indices: 93243120--93243161 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
93243110 TTCAATAACA
93243120 CTTAACATGGTC-TAATTATACT
1 CTTAACATGGTCTTAA-TATACT
93243142 CTTAA-ATGGTCTTAATATAC
1 CTTAACATGGTCTTAATATAC
93243162 CTCATTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (22 bp):
CTTAACATGGTCTTAATATACT
Found at i:93247760 original size:39 final size:39
Alignment explanation
Indices: 93247704--93247866 Score: 195
Period size: 39 Copynumber: 4.2 Consensus size: 39
93247694 GTATGAGATT
* * *
93247704 GAAAATATATCCAGACATGAGGTCTGCAGGCTATATGCTG
1 GAAAA-ATATCCGGACATGAGGTCCGCAGGCTATATGCTA
93247744 GAAAAATATCCGGACATGA--TCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * *
93247781 GAAATATATCTGGACATGAGATCCGCAGGCTATATGCTA
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
* * * ** *
93247820 GAAATATATCCGGACTTGAGGTTCGCAGGCTACGTGCTG
1 GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
93247859 GAAAAATA
1 GAAAAATA
93247867 CTTGGGTTAA
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
37 33 0.31
39 70 0.65
40 5 0.05
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (39 bp):
GAAAAATATCCGGACATGAGGTCCGCAGGCTATATGCTA
Found at i:93248089 original size:2 final size:2
Alignment explanation
Indices: 93248084--93248141 Score: 107
Period size: 2 Copynumber: 29.0 Consensus size: 2
93248074 ACGATATATA
*
93248084 TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
93248126 TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG
93248142 AATGAATTCG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:93251231 original size:28 final size:26
Alignment explanation
Indices: 93251191--93251249 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
93251181 GTAAGCATTT
*
93251191 AATTTATAGATTTTATACTTTTTAAATA
1 AATTTATAGATTTT-TAATTTTTAAA-A
93251219 AATTTA-ATGATTTTTAATTTTTAAAA
1 AATTTATA-GATTTTTAATTTTTAAAA
93251245 AATTT
1 AATTT
93251250 TATATATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 11 0.38
28 12 0.41
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (26 bp):
AATTTATAGATTTTTAATTTTTAAAA
Found at i:93251260 original size:29 final size:28
Alignment explanation
Indices: 93251195--93251274 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 28
93251185 GCATTTAATT
*
93251195 TATAGATTTTATACTTTTTAAATAAATTTA
1 TATAGATTTT-TAATTTTTAAA-AAATTTA
93251225 -AT-GATTTTTAATTTTTAAAAAATTTTA
1 TATAGATTTTTAATTTTTAAAAAA-TTTA
* *
93251252 TATATATTTTTAAAATTTTAAAA
1 TATAGATTTTT-AATTTTTAAAA
93251275 TTTTAAAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
26 3 0.07
27 14 0.33
28 8 0.19
29 8 0.19
30 10 0.23
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (28 bp):
TATAGATTTTTAATTTTTAAAAAATTTA
Found at i:93251272 original size:8 final size:8
Alignment explanation
Indices: 93251259--93251288 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
93251249 TTATATATAT
93251259 TTTTAAAA
1 TTTTAAAA
93251267 TTTTAAAA
1 TTTTAAAA
93251275 TTTTAAAA
1 TTTTAAAA
93251283 TTTTAA
1 TTTTAA
93251289 TTAAATATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:93253045 original size:15 final size:14
Alignment explanation
Indices: 93253025--93253067 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
93253015 GAAAATTACG
*
93253025 TATTTAATATATATA
1 TATTTAATAAATA-A
93253040 TATTTAA-AAATAA
1 TATTTAATAAATAA
93253053 TATTTAATAAATAA
1 TATTTAATAAATAA
93253067 T
1 T
93253068 GAAACATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTAATAAATAA
Found at i:93253910 original size:31 final size:29
Alignment explanation
Indices: 93253875--93253943 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
93253865 CATAGTGAGT
* * *
93253875 AAAATATTACAAATTAATAATGTTAGTGACC
1 AAAATATAACAAATTAA-AAT-TGAATGACC
*
93253906 AAAATATAATAAATTAAAATTGAATGACC
1 AAAATATAACAAATTAAAATTGAATGACC
*
93253935 AAAACATAA
1 AAAATATAA
93253944 TTTAAACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 15 0.45
30 3 0.09
31 15 0.45
ACGTcount: A:0.57, C:0.09, G:0.07, T:0.28
Consensus pattern (29 bp):
AAAATATAACAAATTAAAATTGAATGACC
Found at i:93261895 original size:5 final size:5
Alignment explanation
Indices: 93261885--93261919 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
93261875 AATTTGTGAA
93261885 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAA
93261920 GAACACACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:93264774 original size:46 final size:46
Alignment explanation
Indices: 93264724--93264896 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
93264714 TGGTTGAGCA
*
93264724 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
93264770 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
93264817 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
93264863 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93264897 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 6 0.06
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:93264880 original size:93 final size:93
Alignment explanation
Indices: 93264721--93264891 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93264711 GGATGGTTGA
* *
93264721 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
93264786 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
93264814 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCAAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
93264879 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
93264892 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:93271487 original size:13 final size:13
Alignment explanation
Indices: 93271469--93271494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93271459 AATTGTTGCG
93271469 TGCAAATATGCAA
1 TGCAAATATGCAA
93271482 TGCAAATATGCAA
1 TGCAAATATGCAA
93271495 GTGTACACGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
TGCAAATATGCAA
Found at i:93283149 original size:30 final size:30
Alignment explanation
Indices: 93283094--93283155 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
93283084 CACTAAGCAA
93283094 GTTTCATATACATGTATCATCCATTT-CAT
1 GTTTCATATACATGTATCATCCATTTCCAT
93283123 GTTTCAATATATCATGTAAT-AT-CATTTCCAT
1 GTTTC-ATATA-CATGT-ATCATCCATTTCCAT
93283154 GT
1 GT
93283156 ATTTCCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 5 0.17
30 10 0.34
31 12 0.41
32 2 0.07
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (30 bp):
GTTTCATATACATGTATCATCCATTTCCAT
Found at i:93283175 original size:9 final size:10
Alignment explanation
Indices: 93283146--93283178 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
93283136 ATGTAATATC
93283146 ATTTCCATGT
1 ATTTCCATGT
93283156 ATTTCCATGT
1 ATTTCCATGT
93283166 ATTT-CATGT
1 ATTTCCATGT
93283175 ATTT
1 ATTT
93283179 ACCTGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 9 0.39
10 14 0.61
ACGTcount: A:0.21, C:0.15, G:0.09, T:0.55
Consensus pattern (10 bp):
ATTTCCATGT
Found at i:93283403 original size:24 final size:26
Alignment explanation
Indices: 93283367--93283431 Score: 75
Period size: 24 Copynumber: 2.6 Consensus size: 26
93283357 GAATTGGTAA
* *
93283367 AAGCTCATTCGAGCTGA-GAATC-GT
1 AAGCTCATACGAGCTGACAAATCTGT
93283391 AAGCTC-TCACGAGCT-ACAAATCTGT
1 AAGCTCAT-ACGAGCTGACAAATCTGT
93283416 AAGCTCATACGAGCTG
1 AAGCTCATACGAGCTG
93283432 TGGTGTGTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
23 2 0.06
24 16 0.47
25 15 0.44
26 1 0.03
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.23
Consensus pattern (26 bp):
AAGCTCATACGAGCTGACAAATCTGT
Found at i:93287351 original size:4 final size:4
Alignment explanation
Indices: 93287342--93287453 Score: 50
Period size: 4 Copynumber: 28.2 Consensus size: 4
93287332 TTGATTCTGA
* * * **
93287342 TATT TATT TATT CATT TACT TGTT TATT TA-T TCCT TATT CTATT TACTT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT -TATT TA-TT
* * * * * * * * * *
93287391 TATT CATT TATC TGTT CATT TACT CA-T TATT TCTA T-TT TAGT CATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
93287437 TATT TATT TATT TATT T
1 TATT TATT TATT TATT T
93287454 TTGTTTCAAT
Statistics
Matches: 76, Mismatches: 27, Indels: 10
0.67 0.24 0.09
Matches are distributed among these distances:
3 6 0.08
4 62 0.82
5 8 0.11
ACGTcount: A:0.21, C:0.12, G:0.03, T:0.64
Consensus pattern (4 bp):
TATT
Found at i:93287395 original size:41 final size:41
Alignment explanation
Indices: 93287342--93287428 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
93287332 TTGATTCTGA
* * *
93287342 TATTTATTTATTCATTTA-CTTGTTTATTTATTCCTTA-TTC
1 TATTTATTTATTCATTTATC-TGTTCATTTACTCATTATTTC
93287382 TATTTACTTTATTCATTTATCTGTTCATTTACTCATTATTTC
1 TATTTA-TTTATTCATTTATCTGTTCATTTACTCATTATTTC
93287424 TATTT
1 TATTT
93287429 TAGTCATTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
40 6 0.15
41 26 0.63
42 9 0.22
ACGTcount: A:0.21, C:0.14, G:0.02, T:0.63
Consensus pattern (41 bp):
TATTTATTTATTCATTTATCTGTTCATTTACTCATTATTTC
Found at i:93287774 original size:6 final size:6
Alignment explanation
Indices: 93287763--93287796 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
93287753 GGCATCTAGC
93287763 ATTTTT ATTTTT ACTTTTT ATTTTTT ATTTTT AT
1 ATTTTT ATTTTT A-TTTTT A-TTTTT ATTTTT AT
93287797 CACTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 14 0.54
7 12 0.46
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:93287782 original size:13 final size:12
Alignment explanation
Indices: 93287763--93287796 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
93287753 GGCATCTAGC
93287763 ATTTTTATTTTT
1 ATTTTTATTTTT
93287775 ACTTTTTATTTTTT
1 A-TTTTTA-TTTTT
93287789 ATTTTTAT
1 ATTTTTAT
93287797 CACTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.10
13 12 0.60
14 6 0.30
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
ATTTTTATTTTT
Found at i:93289136 original size:7 final size:7
Alignment explanation
Indices: 93289124--93289163 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
93289114 ATATGTGCTC
93289124 TATTTAT
1 TATTTAT
93289131 TATTTAT
1 TATTTAT
93289138 TATTTAT
1 TATTTAT
93289145 TATTTAT
1 TATTTAT
93289152 TATTTAT
1 TATTTAT
93289159 TATTT
1 TATTT
93289164 GCTTCAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TATTTAT
Found at i:93295745 original size:19 final size:19
Alignment explanation
Indices: 93295721--93295757 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
93295711 AAATCAATTG
*
93295721 GGAATATAAATTTGTCAAA
1 GGAATATAAATTTATCAAA
93295740 GGAATATAAATTTATCAA
1 GGAATATAAATTTATCAA
93295758 TTTTGACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.05, G:0.14, T:0.32
Consensus pattern (19 bp):
GGAATATAAATTTATCAAA
Found at i:93302969 original size:43 final size:42
Alignment explanation
Indices: 93302892--93303010 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 42
93302882 CACATAGTAC
* * * *
93302892 CATACCAATGCCATATCCTAGATATGGTCGTACAT-AGGATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACATGA-AATCT
* *
93302934 CATATCAATGCCAATAGCCCAGCTATGGTCTTACATGAAATCT
1 CATATCAATGCC-ATATCCCAGATATGGTCTTACATGAAATCT
* *
93302977 CATATCGATGCCATATCTCAGATATGGTCTTACA
1 CATATCAATGCCATATCCCAGATATGGTCTTACA
93303011 CAAAAATAGG
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 30 0.46
43 34 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACATGAAATCT
Found at i:93312316 original size:40 final size:40
Alignment explanation
Indices: 93312238--93312461 Score: 292
Period size: 40 Copynumber: 5.5 Consensus size: 40
93312228 ACCCAAGTAT
* *
93312238 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
93312277 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
93312317 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
93312357 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCTCAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
93312400 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
93312440 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
93312462 CATCCGAATA
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 12 0.07
40 114 0.70
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:93312434 original size:83 final size:80
Alignment explanation
Indices: 93312238--93312461 Score: 301
Period size: 83 Copynumber: 2.8 Consensus size: 80
93312228 ACCCAAGTAT
* * * *
93312238 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
93312302 CACTAGCATGAATGC
66 CACTAGCATAAATGC
* * *
93312317 CTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
93312381 CAACTACTCGC-TCAAATGC
66 C-ACTA---GCAT-AAATGC
*
93312400 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
93312462 CATCCGAATA
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
79 12 0.09
80 49 0.39
82 1 0.01
83 65 0.51
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCATAAATGC
Found at i:93315019 original size:13 final size:13
Alignment explanation
Indices: 93315001--93315025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93314991 TAATGGTATA
93315001 TTGAATCCATGAT
1 TTGAATCCATGAT
93315014 TTGAATCCATGA
1 TTGAATCCATGA
93315026 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:93316470 original size:47 final size:47
Alignment explanation
Indices: 93316409--93316843 Score: 659
Period size: 47 Copynumber: 9.4 Consensus size: 47
93316399 CAGCCAAGAC
93316409 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
93316456 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
93316503 AGTG----TA--T-ATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
93316543 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
93316590 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
93316637 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
93316684 AGTGTATATATGTAATAAGGTCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
93316731 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
93316778 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
93316825 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
93316844 TCCCGAAGGG
Statistics
Matches: 356, Mismatches: 25, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
40 37 0.10
41 1 0.00
43 1 0.00
44 2 0.01
46 1 0.00
47 314 0.88
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:93317031 original size:37 final size:37
Alignment explanation
Indices: 93316962--93317040 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
93316952 CCGAGCTCTA
* *
93316962 AAGACCCGATGACTACGTGTGGGAATTTTGTCCG-GAT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGAG-T
*
93316999 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGGA-ATTATGTCCGAGT
93317036 AAGAC
1 AAGAC
93317041 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 3 0.08
37 33 0.89
38 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGAGT
Found at i:93319739 original size:78 final size:78
Alignment explanation
Indices: 93319607--93319761 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 78
93319597 GAATGAACAA
* *
93319607 GGAGGAGAGATGTTAAGTGTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
1 GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
93319672 TTCAAAAGGGTCC
66 TTCAAAAGGGTCC
* * * *
93319685 GGAGGAGAGATGCTACGTCTTGGGGTATCAACAAAGTATTTTGGATCTCTGAAACACATATCAAG
1 GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
93319750 TTCAAAAGGGTC
66 TTCAAAAGGGTC
93319762 TTCGAGAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (78 bp):
GGAGGAGAGATGCTAAGTCTTGCGGCATCAACAAAGTATTTTGGATCTCCGAAACACATATCAAG
TTCAAAAGGGTCC
Found at i:93320498 original size:44 final size:44
Alignment explanation
Indices: 93320435--93321197 Score: 439
Period size: 44 Copynumber: 16.9 Consensus size: 44
93320425 TATAATAGTG
* *
93320435 AATCTTATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** * * * *** *
93320479 AATCTCATATCTCTGAAGTTTTAGTAGAGTAGATTTAATATAACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GCCACT
* * *
93320524 AATCTTAT-TCCCCTAAAGTTGCAGTGG-GACAGGTTGAAGCTATCAT
1 AATCTTATCT-CCCTGAAGTTGCAGTGGAG-CAGATTGAAGCCA-C-T
* *
93320570 GGCAGATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACT
1 ---A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * *
93320618 AATCTCATTTCCCTGAAGTTGCAGT-GAGACAGGTTGAAGCTATCATGGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGC---CA---CT
* * *
93320668 GATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* *
93320712 AA-CATTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACT
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * * **
93320756 AATCTTATCTCCCTAAAGTTGTAATGGAACAGGTTAAAGTTAC-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* **
93320799 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCAAA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** *
93320844 AATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CT
* *
93320889 AATCTTAT-TCTCCTGAAGTTGCAATGG-GACA-AGTTGAAGCTATCAT
1 AATCTTATCTC-CCTGAAGTTGCAGTGGAG-CAGA-TTGAAGCCA-C-T
*
93320935 GGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACT
1 ---A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * * * ** *
93320983 AACCTCATCTCCTTAAAGTTGTAGTGGAGCA-AGTTGAAGTTA-A
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCCACT
* ** *
93321026 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * ** * * ** *
93321071 GAATATTATCTCCCCGAAGTTATAGTGGAGTAGATTAAAGTAACA
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * * ** * *** *
93321116 AATCTTATTTCTCTGAAGTTACAGTGGAATATATTGAAATTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
* * *
93321160 AATCTTATCTCCCTGAAGTTGTAGTGGGGTAGATTGAA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
93321198 ACAACAAATT
Statistics
Matches: 554, Mismatches: 125, Indels: 80
0.73 0.16 0.11
Matches are distributed among these distances:
43 9 0.02
44 331 0.60
45 99 0.18
46 2 0.00
47 4 0.01
48 2 0.00
49 4 0.01
50 94 0.17
51 9 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT
Found at i:93321002 original size:227 final size:227
Alignment explanation
Indices: 93320716--93321135 Score: 619
Period size: 227 Copynumber: 1.9 Consensus size: 227
93320706 GCCACTAACA
* *
93320716 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAATCTTATCTCCCTAAAGTTGTAAT
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
* * *
93320781 GGAACAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-AAA
66 GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
* * * *
93320845 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTA-TTCTCCTGAAGTT
131 ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAG-TAACAAATCTTATTTCT-CTGAAGTT
93320909 GCAATGGGACAAGTTGAAGCTATCATGGCAGATC
194 GCAATGGGACAAGTTGAAGCTATCATGGCAGATC
* * *
93320943 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGCCACTAACCTCATCTCCTTAAAGTTGTAGT
1 TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
* * * * * **
93321008 GGAGCAAGTTGAAGTTAAAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGA
66 GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
* *
93321073 ATATTATCTCCCCGAAGTTATAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTT
131 ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTT
93321136 ACAGTGGAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
227 132 0.78
228 38 0.22
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (227 bp):
TTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAACCTCATCTCCCTAAAGTTGTAAT
GGAACAAGTTAAAGTTAAAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGACAGAAA
ATATTATCTCCCCAAAGTTACAGTGGAGTAGATTAAAGTAACAAATCTTATTTCTCTGAAGTTGC
AATGGGACAAGTTGAAGCTATCATGGCAGATC
Found at i:93321164 original size:271 final size:271
Alignment explanation
Indices: 93320575--93321180 Score: 670
Period size: 271 Copynumber: 2.2 Consensus size: 271
93320565 ATCATGGCAG
* * * * * ** * * *
93320575 ATCTTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCA-CTAATCTCATTTCCCTGAAGTTG
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTG
* * * *
93320639 CAGTGAGACAGGTTGAAGCTATCATGGCGGATCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTG
66 CAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
* * * *
93320704 AAGCCACTAACATTATCTCCCTGAAGTTGCAGTAGAGTAGATTGAAGCCACTAATCTTATCTCCC
131 AAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAGAAGATTGAAGCCACAAATCTTATCTCCC
* * * * *
93320769 TAAAGTTGTAATGGAACAGGTTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAAT
196 TAAAGTTGTAATGGAACAGATTAAAGATACAAGTATTATCTCCCCGAAGTTACAGTGGAGCAAAT
*
93320834 TGAAGCCAAAA
261 TAAAGCCAAAA
* *
93320845 ATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTAT-TCTCCTGAAGTT
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTC-CCTGAAGTT
*
93320909 GCAATGGGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
65 GCAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATT
* * * * **
93320974 GAAGCCACTAACCTCATCTCCTTAAAGTTGTAGTGGAGCAAG-TTGAAGTTA-AAAGTCTTATCT
130 GAAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAG-AAGATTGAAGCCACAAA-TCTTATCT
* * * * * *
93321037 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGTGAA-TATTATCTCCCCGAAGTTATAGTGGAG
193 CCCTAAAGTTGTAATGGAACAGATTAAAGATA--CAAGTATTATCTCCCCGAAGTTACAGTGGAG
* * *
93321101 TAGATTAAAG-TAACAA
256 CAAATTAAAGCCAA-AA
* * * * *
93321117 ATCTTATTTCTCTGAAGTTACAGTGGAATATATTGAAA-TTA-CAAATCTTATCTCCCTGAAGTT
1 ATCTTATCTCCCTAAAGTTACAGTGGAATAGATT-AAAGATAGCAAATCTTATCTCCCTGAAGTT
93321180 G
65 G
93321181 TAGTGGGGTA
Statistics
Matches: 283, Mismatches: 44, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
270 40 0.14
271 172 0.61
272 66 0.23
273 5 0.02
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (271 bp):
ATCTTATCTCCCTAAAGTTACAGTGGAATAGATTAAAGATAGCAAATCTTATCTCCCTGAAGTTG
CAATGAGACAAGTTGAAGCTATCATGGCAGATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG
AAGCCACTAACATCATCTCCCTAAAGTTGCAGTAGAGAAGATTGAAGCCACAAATCTTATCTCCC
TAAAGTTGTAATGGAACAGATTAAAGATACAAGTATTATCTCCCCGAAGTTACAGTGGAGCAAAT
TAAAGCCAAAA
Found at i:93323910 original size:23 final size:23
Alignment explanation
Indices: 93323880--93323968 Score: 103
Period size: 23 Copynumber: 3.9 Consensus size: 23
93323870 AGCTTACTAT
*
93323880 TTTTAGCTC-ATTGGAGCTTACCG
1 TTTTAGCTCGA-TAGAGCTTACCG
*
93323903 TTTTAGCTCGATAGAGCTTACTG
1 TTTTAGCTCGATAGAGCTTACCG
*
93323926 -TTTAGCTCGATAGAGCTTACCA
1 TTTTAGCTCGATAGAGCTTACCG
*
93323948 TTTCAGCTC-ATTAGAGCTTAC
1 TTTTAGCTCGA-TAGAGCTTAC
93323969 TGTTCATCAG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
22 21 0.36
23 36 0.62
24 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.37
Consensus pattern (23 bp):
TTTTAGCTCGATAGAGCTTACCG
Found at i:93323932 original size:22 final size:22
Alignment explanation
Indices: 93323893--93323968 Score: 100
Period size: 22 Copynumber: 3.4 Consensus size: 22
93323883 TAGCTCATTG
93323893 GAGCTTACCGTTTTAGCTCGATA
1 GAGCTTACCG-TTTAGCTCGATA
*
93323916 GAGCTTACTGTTTAGCTCGATA
1 GAGCTTACCGTTTAGCTCGATA
*
93323938 GAGCTTACCATTTCAGCTC-ATTA
1 GAGCTTACCGTTT-AGCTCGA-TA
93323961 GAGCTTAC
1 GAGCTTAC
93323969 TGTTCATCAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
22 24 0.50
23 24 0.50
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (22 bp):
GAGCTTACCGTTTAGCTCGATA
Found at i:93331277 original size:40 final size:40
Alignment explanation
Indices: 93331229--93331496 Score: 457
Period size: 40 Copynumber: 6.7 Consensus size: 40
93331219 GCTACTGGCT
93331229 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
93331269 CAATTGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
93331309 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
93331349 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
93331389 CAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
93331429 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
93331469 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
93331497 CAATCCGAAT
Statistics
Matches: 214, Mismatches: 14, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
39 12 0.06
40 202 0.94
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:93331332 original size:80 final size:80
Alignment explanation
Indices: 93331196--93331496 Score: 473
Period size: 80 Copynumber: 3.8 Consensus size: 80
93331186 AAACCAAGTA
** * *
93331196 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTGGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
*
93331259 GTAACTCGCACAATTG
65 GTAACTCGCACAAATG
* * * *
93331275 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
93331340 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
93331355 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
93331420 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
93331435 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
93331497 CAATCCGAAT
Statistics
Matches: 206, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
79 26 0.13
80 180 0.87
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:93331428 original size:120 final size:120
Alignment explanation
Indices: 93331196--93331492 Score: 456
Period size: 120 Copynumber: 2.5 Consensus size: 120
93331186 AAACCAAGTA
** * * *
93331196 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTGGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
93331259 GTAACTCGCACAATTGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAATTG
65 GTAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
* *
93331315 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
93331380 TAACTCGCACAAATGCCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
66 TAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
*
93331435 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
93331493 TTATCAATCC
Statistics
Matches: 162, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 22 0.14
120 140 0.86
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (120 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TAACTCGCACAAATGCCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
Found at i:93339413 original size:40 final size:40
Alignment explanation
Indices: 93339332--93339632 Score: 437
Period size: 40 Copynumber: 7.6 Consensus size: 40
93339322 AAACCAAGTA
** * *
93339332 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
93339371 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
93339411 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
93339451 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * * *
93339491 CCTTCGAGACATGGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
93339531 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
93339571 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
93339611 CCTTCGGGA-TTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
93339633 CAATCCGAAT
Statistics
Matches: 240, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 24 0.10
40 216 0.90
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:93342322 original size:16 final size:18
Alignment explanation
Indices: 93342291--93342323 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
93342281 AACTCGTCAC
93342291 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
93342309 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
93342324 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:93349857 original size:16 final size:18
Alignment explanation
Indices: 93349826--93349858 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
93349816 AACTCGTCAC
93349826 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
93349844 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
93349859 AATTTGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:93358049 original size:12 final size:12
Alignment explanation
Indices: 93357911--93358053 Score: 58
Period size: 12 Copynumber: 11.3 Consensus size: 12
93357901 TAATTCTGTT
93357911 ATTTATTTATTC
1 ATTTATTTATTC
* * * *
93357923 ATCTACTTGTTT
1 ATTTATTTATTC
93357935 ATTTATTCCTTATTCC
1 ATTTA-T--TTATT-C
93357951 ATTTACTTTATTC
1 ATTTA-TTTATTC
* *
93357964 ATTTATCTGTTC
1 ATTTATTTATTC
* * *
93357976 ATTTACTCATTT
1 ATTTATTTATTC
93357988 ATTTATAAATTATTC
1 ATTTAT---TTATTC
*
93358003 ATTTATTTATTT
1 ATTTATTTATTC
93358015 ATTT-TTGT-TTC
1 ATTTATT-TATTC
* **
93358026 AATCCTTGTATTC
1 ATTTATT-TATTC
93358039 ATTTATTTATT-
1 ATTTATTTATTC
93358050 ATTT
1 ATTT
93358054 CGACATTTTT
Statistics
Matches: 95, Mismatches: 26, Indels: 21
0.67 0.18 0.15
Matches are distributed among these distances:
11 10 0.11
12 47 0.49
13 13 0.14
14 5 0.05
15 14 0.15
16 6 0.06
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.62
Consensus pattern (12 bp):
ATTTATTTATTC
Found at i:93358355 original size:15 final size:16
Alignment explanation
Indices: 93358335--93358377 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
93358325 GCATCTAGCA
93358335 TTTTTATTTTTCA-TT
1 TTTTTATTTTTCATTT
*
93358350 TTTTTATTTTTTATTT
1 TTTTTATTTTTCATTT
93358366 TTATTTATTTTT
1 TT-TTTATTTTT
93358378 ATTACTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 12 0.48
16 4 0.16
17 9 0.36
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTCATTT
Found at i:93358362 original size:22 final size:22
Alignment explanation
Indices: 93358335--93358394 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
93358325 GCATCTAGCA
93358335 TTTTTATTTTTCATTT-TTTTAT
1 TTTTTATTTTT-ATTTATTTTAT
93358357 TTTTTATTTTTATTTATTTTTAT
1 TTTTTATTTTTATTTA-TTTTAT
* *
93358380 TACTTTATTTATATT
1 T-TTTTATTTTTATT
93358395 ATACCATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 4 0.12
22 11 0.33
23 7 0.21
24 11 0.33
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (22 bp):
TTTTTATTTTTATTTATTTTAT
Found at i:93358378 original size:10 final size:10
Alignment explanation
Indices: 93358337--93358380 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
93358327 ATCTAGCATT
93358337 TTTATTTTTCA
1 TTTATTTTT-A
* *
93358348 TTTTTTTATTT
1 TTTATTT-TTA
93358359 TTTATTTTTA
1 TTTATTTTTA
93358369 TTTATTTTTA
1 TTTATTTTTA
93358379 TT
1 TT
93358381 ACTTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
10 14 0.50
11 12 0.43
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:93358386 original size:14 final size:13
Alignment explanation
Indices: 93358334--93358396 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
93358324 GGCATCTAGC
93358334 ATTTTTATT-TTT
1 ATTTTTATTATTT
93358346 CATTTTT-TTATTT
1 -ATTTTTATTATTT
*
93358359 -TTTATTTTTATTT
1 ATTT-TTATTATTT
93358372 ATTTTTATTACTTT
1 ATTTTTATTA-TTT
*
93358386 ATTTATATTAT
1 ATTTTTATTAT
93358397 ACCATGGATT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
11 3 0.07
12 4 0.09
13 21 0.49
14 15 0.35
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTTTATTATTT
Found at i:93358386 original size:18 final size:16
Alignment explanation
Indices: 93358337--93358391 Score: 60
Period size: 16 Copynumber: 3.3 Consensus size: 16
93358327 ATCTAGCATT
93358337 TTTATTTTTCA-TTTT-
1 TTTATTTTT-ATTTTTA
93358352 TTTATTTTTTATTTTTA
1 TTTA-TTTTTATTTTTA
93358369 TTTATTTTTATTACTTTA
1 TTTATTTTTATT--TTTA
93358387 TTTAT
1 TTTAT
93358392 ATTATACCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 5 0.14
16 17 0.49
17 4 0.11
18 9 0.26
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:93360488 original size:20 final size:20
Alignment explanation
Indices: 93360465--93360503 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
93360455 TGAAGGAAGA
93360465 TTATAGAAGAATCATGATTT
1 TTATAGAAGAATCATGATTT
93360485 TTATAGAAGAATCATGATT
1 TTATAGAAGAATCATGATT
93360504 AAAGTTTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
TTATAGAAGAATCATGATTT
Found at i:93362657 original size:18 final size:18
Alignment explanation
Indices: 93362634--93362669 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
93362624 AGAAAGTATG
93362634 ATTGAGTTATGGAAGAGT
1 ATTGAGTTATGGAAGAGT
93362652 ATTGAGTTATGGAAGAGT
1 ATTGAGTTATGGAAGAGT
93362670 GTCTACTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (18 bp):
ATTGAGTTATGGAAGAGT
Found at i:93367899 original size:13 final size:13
Alignment explanation
Indices: 93367874--93367899 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93367864 GAAATTGTTT
93367874 TTTGAAAATTTTG
1 TTTGAAAATTTTG
93367887 TTTGAAAATTTTG
1 TTTGAAAATTTTG
93367900 ACGTTTGGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTTGAAAATTTTG
Found at i:93369622 original size:13 final size:12
Alignment explanation
Indices: 93369601--93369635 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
93369591 GTCTTTTATC
93369601 TTTATTTATTTTA
1 TTTA-TTATTTTA
93369614 TTTACTTATTTTA
1 TTTA-TTATTTTA
93369627 TTTATTATT
1 TTTATTATT
93369636 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:93369675 original size:44 final size:44
Alignment explanation
Indices: 93369644--93369754 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 44
93369634 TTAATTTTAA
93369644 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
1 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
**
93369688 TTAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTTTT
1 AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATA--TTTT
* *
93369734 AAAAATTTTAAATATATATTT
1 AAAAA-TTGAAATGTATATTT
93369755 CTGAAATTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
44 38 0.66
46 7 0.12
47 13 0.22
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (44 bp):
AAAAATTGAAATGTATATTTGAAATGTTTTATAATATATATTTT
Found at i:93369683 original size:23 final size:23
Alignment explanation
Indices: 93369657--93369730 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
93369647 AATTGAAATG
93369657 TATATTTGAAATGTTTTATAATA
1 TATATTTGAAATGTTTTATAATA
* * *
93369680 TATATTTTTTAAA---TTGA-AATG
1 TATA--TTTGAAATGTTTTATAATA
93369701 TATATTTGAAATGTTTTATAATA
1 TATATTTGAAATGTTTTATAATA
93369724 TATATTT
1 TATATTT
93369731 TTTAAAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 6 0.15
21 7 0.18
22 6 0.15
23 14 0.36
25 6 0.15
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (23 bp):
TATATTTGAAATGTTTTATAATA
Found at i:93369776 original size:22 final size:20
Alignment explanation
Indices: 93369758--93369831 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 20
93369748 TATATTTCTG
93369758 AAAT-TATTTTTCTAAATTTT
1 AAATATATTTTT-TAAATTTT
* *
93369778 AAATGTTATTTTTTAAACTTT
1 AAAT-ATATTTTTTAAATTTT
93369799 AAATATCATTTTTTAAATTTT
1 AAATAT-ATTTTTTAAATTTT
93369820 AAATATATTTTT
1 AAATATATTTTT
93369832 AATAATATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.23
21 30 0.62
22 7 0.15
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.58
Consensus pattern (20 bp):
AAATATATTTTTTAAATTTT
Found at i:93369974 original size:24 final size:24
Alignment explanation
Indices: 93369939--93369994 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
93369929 TTTTAATTTC
*
93369939 TTTTATAATATTTTAAA-TTATGAT
1 TTTTA-AATATTTAAAATTTATGAT
*
93369963 TTTTAAATTATTTAAAATTTATTAT
1 TTTTAAA-TATTTAAAATTTATGAT
93369988 TTTTAAA
1 TTTTAAA
93369995 GATATGACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTTTAAATATTTAAAATTTATGAT
Found at i:93370047 original size:13 final size:13
Alignment explanation
Indices: 93370029--93370063 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
93370019 TTATTTTATA
93370029 ATATTTTAAATAT
1 ATATTTTAAATAT
93370042 ATATTTTAAATAT
1 ATATTTTAAATAT
93370055 -T-TTTTAAAT
1 ATATTTTAAAT
93370064 TTTAAATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 8 0.36
12 1 0.05
13 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:93370067 original size:134 final size:133
Alignment explanation
Indices: 93369784--93370091 Score: 365
Period size: 134 Copynumber: 2.3 Consensus size: 133
93369774 TTTTAAATGT
* *
93369784 TATTTTTTAAACTTTAAATATCATTTTTTAAATTTTAAATATATTTTTAATAATATAAAACATTT
1 TATTTTTTAAA-TTTTAATATCATTTTATAAATTTTAAATATATTTTTAATAATATAAAACATTT
*
93369849 AAATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATGTATATTT
65 AAATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATATATATTT
93369914 TAAA
130 TAAA
*** ** * * *
93369918 TATTAAATATTTTTTAATTTC-TTTTATAATATTTTAAATTATGATTTTTAA-ATTATTTAAA-A
1 TATTTTTTAAATTTTAATATCATTTTATAA-ATTTTAAA-TAT-ATTTTTAATAATA-TAAAACA
* *
93369980 TTT-ATTATTTTTAAAGATATGACCTTTCAAATTTATTATTTA-TTTTATAATATTTTAAATATA
62 TTTAAATA-TTTTAAAGATATGACCTTTCAAATCTATTA-TTAGTTTTATAATATTTTAAATATA
93370043 TATTTTAAA
125 TATTTTAAA
*
93370052 TATTTTTTAAATTTTAAATATAATTTTTATAAATTATTAA
1 TATTTTTTAAATTTT-AATATCA-TTTTATAAATT-TTAA
93370092 TTTTAAAATT
Statistics
Matches: 144, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
132 7 0.05
133 19 0.13
134 84 0.58
135 19 0.13
136 3 0.02
137 12 0.08
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (133 bp):
TATTTTTTAAATTTTAATATCATTTTATAAATTTTAAATATATTTTTAATAATATAAAACATTTA
AATATTTTAAAGATATGACCTTTCAAATCTATTATTAGTTTTATAATATTTTAAATATATATTTT
AAA
Found at i:93370093 original size:29 final size:31
Alignment explanation
Indices: 93370023--93370110 Score: 89
Period size: 31 Copynumber: 2.9 Consensus size: 31
93370013 TATTATTTAT
93370023 TTTA-TAATATTTTAAATATATATTTTAAATA
1 TTTATTAA-ATTTTAAATATATATTTTAAATA
*
93370054 TTTTTTAAATTTTAAATATA-ATTTTTATAA-A
1 TTTATTAAATTTTAAATATATA-TTTTA-AATA
*
93370085 -TTATT-AATTTTAAA-ATTTATTTTAAA
1 TTTATTAAATTTTAAATATATATTTTAAA
93370111 GATATTCAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
27 2 0.04
28 7 0.14
29 10 0.20
30 5 0.10
31 21 0.42
32 5 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTATTAAATTTTAAATATATATTTTAAATA
Found at i:93370202 original size:24 final size:23
Alignment explanation
Indices: 93370175--93370219 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
93370165 TTTGTGGAGA
* *
93370175 AATTTAGAATTAATATTATAAAAC
1 AATTTAAAAATAATATT-TAAAAC
93370199 AATTTAAAAATAATATTTAAA
1 AATTTAAAAATAATATTTAAA
93370220 TTTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (23 bp):
AATTTAAAAATAATATTTAAAAC
Found at i:93370226 original size:20 final size:21
Alignment explanation
Indices: 93370201--93370272 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 21
93370191 TATAAAACAA
93370201 TTTAAAAATAAT-ATTTAAAT
1 TTTAAAAATAATAATTTAAAT
*
93370221 TTTAAAAAAAATAATTTAAA-
1 TTTAAAAATAATAATTTAAAT
*
93370241 TTTAAGAA-AATAATTTAAAT
1 TTTAAAAATAATAATTTAAAT
*
93370261 TTAAAAAATAAT
1 TTTAAAAATAAT
93370273 TTAAAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
19 11 0.24
20 24 0.53
21 10 0.22
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
TTTAAAAATAATAATTTAAAT
Found at i:93370227 original size:19 final size:18
Alignment explanation
Indices: 93370199--93370308 Score: 104
Period size: 19 Copynumber: 5.9 Consensus size: 18
93370189 ATTATAAAAC
93370199 AATTT-AAAAATAATATTTA
1 AATTTAAAAAAT-A-ATTTA
93370218 AATTTTAAAAAAAATAATTTA
1 AA-TTT--AAAAAATAATTTA
93370239 AATTTAAGAAAATAATTTA
1 AATTTAA-AAAATAATTTA
93370258 AATTTAAAAAATAATTTA
1 AATTTAAAAAATAATTTA
*
93370276 AA---AAATAAT-ATTTAA
1 AATTTAAAAAATAATTT-A
93370291 AATTTTAAAAAATAATTT
1 AA-TTTAAAAAATAATTT
93370309 CAAAAATATA
Statistics
Matches: 78, Mismatches: 2, Indels: 21
0.77 0.02 0.21
Matches are distributed among these distances:
14 4 0.05
15 9 0.12
18 15 0.19
19 26 0.33
20 10 0.13
21 7 0.09
22 1 0.01
23 6 0.08
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
AATTTAAAAAATAATTTA
Found at i:93370237 original size:34 final size:34
Alignment explanation
Indices: 93370194--93370339 Score: 165
Period size: 34 Copynumber: 4.2 Consensus size: 34
93370184 TTAATATTAT
*
93370194 AAAACAATTT-AAAAATAATATTT-AAATTTTAAAA
1 AAAATAATTTAAAAAATAATATTTAAAATTTT--AA
*
93370228 AAAATAATTTAAATTTAAGAAAATAATTT-AAA-TTTAA
1 AAAATAATTTAAA---AA-ATAAT-ATTTAAAATTTTAA
93370265 AAAATAATTTAAAAAATAATATTTAAAATTTTAA
1 AAAATAATTTAAAAAATAATATTTAAAATTTTAA
*
93370299 AAAATAATTTCAAAAATATATATTTAAAATTTTAA
1 AAAATAATTTAAAAAATA-ATATTTAAAATTTTAA
93370334 AAAATA
1 AAAATA
93370340 TATATTATAA
Statistics
Matches: 99, Mismatches: 4, Indels: 17
0.82 0.03 0.14
Matches are distributed among these distances:
32 4 0.04
33 7 0.07
34 33 0.33
35 24 0.24
37 15 0.15
38 2 0.02
39 7 0.07
40 7 0.07
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (34 bp):
AAAATAATTTAAAAAATAATATTTAAAATTTTAA
Found at i:93370313 original size:21 final size:22
Alignment explanation
Indices: 93370272--93370313 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
93370262 TAAAAAATAA
*
93370272 TTTAAAAAATAATATTTAAAAT
1 TTTAAAAAATAATATTCAAAAT
93370294 TTTAAAAAATAAT-TTCAAAA
1 TTTAAAAAATAATATTCAAAA
93370314 ATATATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTAAAAAATAATATTCAAAAT
Found at i:93370327 original size:14 final size:12
Alignment explanation
Indices: 93370258--93370327 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
93370248 AAATAATTTA
93370258 AATTTAAAAAAT
1 AATTTAAAAAAT
93370270 AATTTAAAAAAT
1 AATTTAAAAAAT
*
93370282 AATATT-TAAAAT
1 AAT-TTAAAAAAT
93370294 --TTTAAAAAAT
1 AATTTAAAAAAT
93370304 AATTTCAAAAATAT
1 AATTT-AAAAA-AT
93370318 ATATTTAAAA
1 A-ATTTAAAA
93370328 TTTTAAAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 2 0.04
10 6 0.12
12 23 0.47
13 7 0.14
14 7 0.14
15 4 0.08
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (12 bp):
AATTTAAAAAAT
Found at i:93370340 original size:21 final size:19
Alignment explanation
Indices: 93370199--93370342 Score: 96
Period size: 21 Copynumber: 7.8 Consensus size: 19
93370189 ATTATAAAAC
93370199 AATTT-AAAAATAATATTTA
1 AATTTAAAAAAT-ATATTTA
*
93370218 AATTTTAAAAAAAATAATTTA
1 AA-TTTAAAAAATAT-ATTTA
93370239 AATTTAAGAAAATA-ATTTA
1 AATTTAA-AAAATATATTTA
93370258 AATTTAAAAAATA-ATTTA
1 AATTTAAAAAATATATTTA
* *
93370276 AA---AAATAATAT-TTAA
1 AATTTAAAAAATATATTTA
93370291 AATTTTAAAAAATA-ATTT-
1 AA-TTTAAAAAATATATTTA
* *
93370309 CA---AAAATATATATTTAA
1 AATTTAAAAAATATATTT-A
93370326 AATTTTAAAAAATATAT
1 AA-TTTAAAAAATATAT
93370343 ATTATAAAAC
Statistics
Matches: 98, Mismatches: 10, Indels: 32
0.70 0.07 0.23
Matches are distributed among these distances:
14 7 0.07
15 16 0.16
17 1 0.01
18 14 0.14
19 23 0.23
20 10 0.10
21 27 0.28
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (19 bp):
AATTTAAAAAATATATTTA
Found at i:93375865 original size:11 final size:10
Alignment explanation
Indices: 93375830--93375908 Score: 59
Period size: 11 Copynumber: 7.4 Consensus size: 10
93375820 GGTATTTTTT
93375830 TAAAGAAATTA
1 TAAA-AAATTA
*
93375841 TAATAAAATAA
1 TAA-AAAATTA
93375852 TAAAAAATTCA
1 TAAAAAATT-A
* *
93375863 TAAAACATTG
1 TAAAAAATTA
*
93375873 TAAAAATTTA
1 TAAAAAATTA
*
93375883 TTTAAAAATATA
1 -TAAAAAAT-TA
*
93375895 TAGAAAATTA
1 TAAAAAATTA
93375905 TAAA
1 TAAA
93375909 CATTAATAAA
Statistics
Matches: 52, Mismatches: 12, Indels: 9
0.71 0.16 0.12
Matches are distributed among these distances:
10 17 0.33
11 32 0.62
12 3 0.06
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.32
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:93375867 original size:10 final size:9
Alignment explanation
Indices: 93375835--93376016 Score: 59
Period size: 9 Copynumber: 19.2 Consensus size: 9
93375825 TTTTTTAAAG
93375835 AAATTATAATA
1 AAATTAT-A-A
*
93375846 AAATAATAAA
1 AAATTAT-AA
93375856 AAATTCATAA
1 AAATT-ATAA
*
93375866 AACATTGTAA
1 AA-ATTATAA
93375876 AAATTTATTTAA
1 AAA-TTA--TAA
93375888 AAATATATAGA
1 AAAT-TATA-A
93375899 AAATTATAA
1 AAATTATAA
*
93375908 ACATTAATAA
1 AAATT-ATAA
* *
93375918 AAATGACAA
1 AAATTATAA
*
93375927 ATCATTATAA
1 A-AATTATAA
*
93375937 AAA-TACAA
1 AAATTATAA
* *
93375945 AAGA-AAGAA
1 AA-ATTATAA
*
93375954 AAA-TATTA
1 AAATTATAA
93375962 AAA--ATAA
1 AAATTATAA
*
93375969 AAACTATAA
1 AAATTATAA
*
93375978 AAATTATTA
1 AAATTATAA
* *
93375987 GAATTATTTA
1 AAATTA-TAA
*
93375997 AAATTAAAA
1 AAATTATAA
*
93376006 AAATAATAA
1 AAATTATAA
93376015 AA
1 AA
93376017 CAAATTAAAA
Statistics
Matches: 131, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
7 6 0.05
8 12 0.09
9 43 0.33
10 43 0.33
11 19 0.15
12 8 0.06
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATTATAA
Found at i:93375944 original size:18 final size:20
Alignment explanation
Indices: 93375909--93375945 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
93375899 AAATTATAAA
93375909 CATTAATAAAAATGACAAAT
1 CATTAATAAAAATGACAAAT
93375929 CATT-ATAAAAAT-ACAAA
1 CATTAATAAAAATGACAAA
93375946 AGAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.24
Consensus pattern (20 bp):
CATTAATAAAAATGACAAAT
Found at i:93376392 original size:29 final size:28
Alignment explanation
Indices: 93376348--93376449 Score: 91
Period size: 29 Copynumber: 3.6 Consensus size: 28
93376338 AATTGAAAAT
93376348 ATTTTTATAATTTTTTTGTAATCTTATATA
1 ATTTTTATAA-TTTTTT-TAATCTTATATA
** * *
93376378 ATTTTTATAATTTTTTATTTTTTTAAATA
1 ATTTTTATAATTTTTT-TAATCTTATATA
* * *
93376407 ATATTTATAATTTTTTTCA-CTT-TTTA
1 ATTTTTATAATTTTTTTAATCTTATATA
93376433 TATTTTTATAATTTTTT
1 -ATTTTTATAATTTTTT
93376450 AATAATTGCA
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
26 2 0.03
27 17 0.29
28 1 0.02
29 29 0.49
30 10 0.17
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (28 bp):
ATTTTTATAATTTTTTTAATCTTATATA
Found at i:93376438 original size:8 final size:9
Alignment explanation
Indices: 93376348--93376505 Score: 79
Period size: 10 Copynumber: 16.6 Consensus size: 9
93376338 AATTGAAAAT
93376348 ATTTTTATA
1 ATTTTTATA
*
93376357 ATTTTTTTGTA
1 A--TTTTTATA
*
93376368 ATCTTATATA
1 AT-TTTTATA
93376378 ATTTTTATA
1 ATTTTTATA
93376387 ATTTTT-TA
1 ATTTTTATA
*
93376395 TTTTTTTAAATA
1 -ATTTTT--ATA
*
93376407 ATATTTATA
1 ATTTTTATA
*
93376416 ATTTTTTTCA
1 ATTTTTAT-A
*
93376426 CTTTTTAT-
1 ATTTTTATA
93376434 ATTTTTATA
1 ATTTTTATA
93376443 ATTTTTTAATA
1 A-TTTTT-ATA
***
93376454 ATTGCAAT-
1 ATTTTTATA
* *
93376462 GTTTTTTTA
1 ATTTTTATA
93376471 ATCTTTTATGA
1 AT-TTTTAT-A
*
93376482 AATTTTATAA
1 ATTTTTAT-A
93376492 ATTTTTATA
1 ATTTTTATA
93376501 ATTTT
1 ATTTT
93376506 GTAATGATAT
Statistics
Matches: 110, Mismatches: 25, Indels: 28
0.67 0.15 0.17
Matches are distributed among these distances:
8 12 0.11
9 38 0.35
10 40 0.36
11 18 0.16
12 2 0.02
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (9 bp):
ATTTTTATA
Found at i:93378187 original size:29 final size:27
Alignment explanation
Indices: 93378126--93378179 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
93378116 TTCGCTATTT
* *
93378126 AAAACTACATTGGTGAATATTGTAAAA
1 AAAACTACAATGGTGAACATTGTAAAA
93378153 AAAACTACAATGGTGAAGCCATTGTAA
1 AAAACTACAATGGTGAA--CATTGTAA
93378180 GAATAACTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.70
29 7 0.30
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (27 bp):
AAAACTACAATGGTGAACATTGTAAAA
Found at i:93384567 original size:19 final size:19
Alignment explanation
Indices: 93384521--93384568 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
93384511 GTATATATTT
93384521 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
93384539 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
93384558 TAAGTTTTATT
1 TAAATTTTATT
93384569 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:93384635 original size:43 final size:43
Alignment explanation
Indices: 93384588--93384672 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
93384578 GAAATTTTTA
93384588 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
* *
93384631 TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTC
93384673 CCAATTAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.15, T:0.49
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAGAATAAGGGAACTATTTTCT
Found at i:93389305 original size:19 final size:19
Alignment explanation
Indices: 93389259--93389306 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
93389249 GTATATATTT
93389259 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
93389277 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
93389296 TAAGTTTTATT
1 TAAATTTTATT
93389307 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:93389373 original size:43 final size:43
Alignment explanation
Indices: 93389326--93389410 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
93389316 GAAATTTTTA
*
93389326 TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAATTATTTTCT
1 TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAACTATTTTCT
* * *
93389369 TTTTATGTTTTAGTAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAACTATTTTC
93389411 CCAATTAGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.51
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTACTAAAATAAGGGAACTATTTTCT
Found at i:93391187 original size:12 final size:13
Alignment explanation
Indices: 93391165--93391196 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
93391155 GCTGTTTGCA
93391165 TTTCTTTTCTTTC
1 TTTCTTTTCTTTC
93391178 TTTC-TTTCTTTC
1 TTTCTTTTCTTTC
93391190 TTT-TTTT
1 TTTCTTTT
93391197 TAAATTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTCTTTTCTTTC
Found at i:93397039 original size:12 final size:11
Alignment explanation
Indices: 93397015--93397044 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
93397005 CATTTTGTTC
93397015 TTTAGTTTCTTT
1 TTTA-TTTCTTT
93397027 TTTATTTCTTT
1 TTTATTTCTTT
93397038 TTTATTT
1 TTTATTT
93397045 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:93400440 original size:17 final size:16
Alignment explanation
Indices: 93400412--93400454 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
93400402 AAAAGTTTAA
* *
93400412 TTTAATTAAATTCATT
1 TTTAATTTAATTCAAT
*
93400428 TTATAATTTAATTTAAT
1 TT-TAATTTAATTCAAT
93400445 TTTAATTTAA
1 TTTAATTTAA
93400455 AAGTATCATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTAATTTAATTCAAT
Found at i:93401762 original size:27 final size:28
Alignment explanation
Indices: 93401732--93401793 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
93401722 AAATAATTTT
*
93401732 TAAAATTCA-AAATATTTATAAAAATTC-
1 TAAAATTCATAAAT-TTTATAAAAAATCA
* *
93401759 TAAAATTTATAAATTTTTTAAAAAATCA
1 TAAAATTCATAAATTTTATAAAAAATCA
93401787 TAAAATT
1 TAAAATT
93401794 TTTAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 19 0.63
28 11 0.37
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (28 bp):
TAAAATTCATAAATTTTATAAAAAATCA
Found at i:93401766 original size:18 final size:19
Alignment explanation
Indices: 93401713--93401771 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
93401703 AATTACAAAA
*
93401713 AAAAAATCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
*
93401732 TAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
93401751 AAAAATTCTAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
93401769 AAA
1 AAA
93401772 TTTTTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 13 0.37
19 22 0.63
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:93401780 original size:18 final size:18
Alignment explanation
Indices: 93401745--93401800 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
93401735 AATTCAAAAT
* *
93401745 ATTTATAAAAATTCTAAA
1 ATTTATAAAATTTTTAAA
*
93401763 ATTTATAAATTTTTTAAAA
1 ATTTATAAAATTTTT-AAA
* *
93401782 AATCATAAAATTTTTAAA
1 ATTTATAAAATTTTTAAA
93401800 A
1 A
93401801 AAAACTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTATAAAATTTTTAAA
Found at i:93401812 original size:20 final size:20
Alignment explanation
Indices: 93401769--93401810 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
93401759 TAAAATTTAT
* *
93401769 AAATTTTTTAAAAAATCATA
1 AAATTTTTAAAAAAAACATA
93401789 AAATTTTTAAAAAAAAC-TA
1 AAATTTTTAAAAAAAACATA
93401808 AAA
1 AAA
93401811 ATATATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
AAATTTTTAAAAAAAACATA
Found at i:93402349 original size:27 final size:26
Alignment explanation
Indices: 93402314--93402371 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
93402304 GTTGATTTTG
*
93402314 TTTTTTAATT-GGCCAAATAGGTCAATT
1 TTTTTTAATTAGGAC-AATAGGTC-ATT
*
93402341 TTTTTTAATTAGGACAATAGGTCGTT
1 TTTTTTAATTAGGACAATAGGTCATT
93402367 TTTTT
1 TTTTT
93402372 AGAGAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 18 0.64
28 3 0.11
ACGTcount: A:0.26, C:0.09, G:0.16, T:0.50
Consensus pattern (26 bp):
TTTTTTAATTAGGACAATAGGTCATT
Found at i:93402756 original size:10 final size:10
Alignment explanation
Indices: 93402743--93402768 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
93402733 GTTTTTTAAA
93402743 ATTTTAATTT
1 ATTTTAATTT
93402753 ATTTTAATTT
1 ATTTTAATTT
93402763 ATTTTA
1 ATTTTA
93402769 TTTTGTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTAATTT
Found at i:93404680 original size:24 final size:24
Alignment explanation
Indices: 93404635--93404681 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
93404625 GAAGGTGATG
* *
93404635 AAGATGAAAACAGAGGTGGAGATA
1 AAGATAAAAACAGAGGTCGAGATA
93404659 AAGATAAAAAC-GATGGTCGAGAT
1 AAGATAAAAACAGA-GGTCGAGAT
93404682 GAATATGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.49, C:0.06, G:0.30, T:0.15
Consensus pattern (24 bp):
AAGATAAAAACAGAGGTCGAGATA
Found at i:93408534 original size:16 final size:17
Alignment explanation
Indices: 93408513--93408550 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
93408503 TTTCTTTCCT
*
93408513 ATTTCTGCATTAA-AAA
1 ATTTCTGCACTAATAAA
*
93408529 ATTTCTTCACTAATAAA
1 ATTTCTGCACTAATAAA
93408546 ATTTC
1 ATTTC
93408551 CAATTTGAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.42
Consensus pattern (17 bp):
ATTTCTGCACTAATAAA
Found at i:93409633 original size:24 final size:25
Alignment explanation
Indices: 93409585--93409633 Score: 75
Period size: 23 Copynumber: 2.0 Consensus size: 25
93409575 TTAAAACTTG
93409585 AAACACTAAACCCTAATTCCTAAAA
1 AAACACTAAACCCTAATTCCTAAAA
*
93409610 AAACCCTAAA-CCTAA-TCCTAAAA
1 AAACACTAAACCCTAATTCCTAAAA
93409633 A
1 A
93409634 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.39
24 5 0.22
25 9 0.39
ACGTcount: A:0.53, C:0.29, G:0.00, T:0.18
Consensus pattern (25 bp):
AAACACTAAACCCTAATTCCTAAAA
Found at i:93409923 original size:15 final size:15
Alignment explanation
Indices: 93409903--93409932 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93409893 ATAGATAAAA
93409903 AATTTAATATATGTT
1 AATTTAATATATGTT
93409918 AATTTAATATATGTT
1 AATTTAATATATGTT
93409933 GATGTCTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
AATTTAATATATGTT
Found at i:93410502 original size:4 final size:4
Alignment explanation
Indices: 93410493--93410517 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
93410483 CATTTCGCTT
93410493 TTGC TTGC TTGC TTGC TTGC TTGC T
1 TTGC TTGC TTGC TTGC TTGC TTGC T
93410518 GGGTGGGCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.24, T:0.52
Consensus pattern (4 bp):
TTGC
Found at i:93416306 original size:16 final size:16
Alignment explanation
Indices: 93416285--93416316 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93416275 GCAATTGAAG
93416285 CATTTTCCTTGAAATT
1 CATTTTCCTTGAAATT
93416301 CATTTTCCTTGAAATT
1 CATTTTCCTTGAAATT
93416317 TTTACTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (16 bp):
CATTTTCCTTGAAATT
Found at i:93417788 original size:85 final size:83
Alignment explanation
Indices: 93417574--93417816 Score: 271
Period size: 85 Copynumber: 2.9 Consensus size: 83
93417564 TAAGTCTTCG
* **
93417574 TTTGGAAATAAATC-AAGATCAAATAATATCTGTTAAACGACGAAAATAAATCCTGAAACAGATT
1 TTTGG-AATAAATCAAAGATGAAATAA-ATCTGTTAAACGACGGGAATAAATCCTGAAACA-ATT
*
93417638 TTATTTAATTTTAATTTCTCA
63 TTATTTAATTTTAATTACTCA
* * * *
93417659 TTTGGCAATAAA--AAA-ATGAAATAAAATTTGTTGAACGGCGGGAATAAATACTGAAACAATTT
1 TTTGG-AATAAATCAAAGATGAAAT-AAATCTGTTAAACGACGGGAATAAATCCTGAAACAATTT
*
93417721 TTTTTAATTTTAA-TACTCA
64 TATTTAATTTTAATTACTCA
*
93417740 TTTGGAGATAAAATCAAAGATGAAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAAT
1 TTTGGA-AT-AAATCAAAGATGAAATAAA-TCTGTTAAACGACGGGAATAAATCCTGAAAC-AAT
*
93417805 TTTATTCAATTT
62 TTTATTTAATTT
93417817 AAAATTTTGT
Statistics
Matches: 132, Mismatches: 17, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
80 1 0.01
81 12 0.09
82 19 0.14
83 33 0.25
84 10 0.08
85 44 0.33
86 13 0.10
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.33
Consensus pattern (83 bp):
TTTGGAATAAATCAAAGATGAAATAAATCTGTTAAACGACGGGAATAAATCCTGAAACAATTTTA
TTTAATTTTAATTACTCA
Found at i:93417818 original size:85 final size:84
Alignment explanation
Indices: 93417512--93417816 Score: 270
Period size: 85 Copynumber: 3.7 Consensus size: 84
93417502 AACAAAATCA
* * * * * * * *
93417512 AAATCAAGTCTGTTGAATGACAGGATTAAATCCCGAAACAAA-ATTATTTGA--TTAAGTCTTCG
1 AAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAAGTC-TCA
*
93417574 TTTGGAAATAAATC-AAGATC
65 TTTGG-AATAAATCAAAGATG
** * * *
93417594 AAATAATA-TCTGTTAAACGACGAAAATAAATCCTGAAACAGATTTTATTTAATTTTAATTTCTC
1 AAATAA-AGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAA-GTCTC
93417658 ATTTGGCAATAAA--AAA-ATG
64 ATTTGG-AATAAATCAAAGATG
* * * * * * *
93417677 AAATAAAATTTGTTGAACGGCGGGAATAAATACTGAAAC-AATTTTTTTTAATTTTAA-TACTCA
1 AAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAAGT-CTCA
93417740 TTTGGAGATAAAATCAAAGATG
65 TTTGGA-AT-AAATCAAAGATG
*
93417762 AAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTCAATTT
1 AAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTT
93417817 AAAATTTTGT
Statistics
Matches: 178, Mismatches: 31, Indels: 24
0.76 0.13 0.10
Matches are distributed among these distances:
80 2 0.01
81 11 0.06
82 51 0.29
83 41 0.23
84 5 0.03
85 53 0.30
86 15 0.08
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.32
Consensus pattern (84 bp):
AAATAAAGTCTGTTAAACGACGGGAATAAATCCCGAAACAAATTTTATTTAATTTTAAGTCTCAT
TTGGAATAAATCAAAGATG
Found at i:93424960 original size:13 final size:15
Alignment explanation
Indices: 93424936--93424970 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
93424926 ATAAATCCAA
93424936 AAATATAAAATTT-G
1 AAATATAAAATTTAG
93424950 AAATA-AAAATTTAG
1 AAATATAAAATTTAG
93424964 AAATATA
1 AAATATA
93424971 TAAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 11 0.58
15 1 0.05
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (15 bp):
AAATATAAAATTTAG
Found at i:93430379 original size:11 final size:11
Alignment explanation
Indices: 93430363--93430388 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
93430353 AAAAACAGAG
93430363 TTAACATTTCA
1 TTAACATTTCA
93430374 TTAACATTTCA
1 TTAACATTTCA
93430385 TTAA
1 TTAA
93430389 GATACTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.46
Consensus pattern (11 bp):
TTAACATTTCA
Found at i:93454215 original size:20 final size:21
Alignment explanation
Indices: 93454190--93454229 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93454180 ACTCTTGAAC
*
93454190 AGGGC-ACACGCCTGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
93454210 AGGGCAACACGCCCGTGTAG
1 AGGGCAACACGCCCGTGTAG
93454230 CCATTAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:93456104 original size:28 final size:27
Alignment explanation
Indices: 93456047--93456198 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
93456037 TAAATTGTGC
*
93456047 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
93456074 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
93456102 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
93456129 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
93456157 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
93456184 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93456199 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:93456111 original size:55 final size:55
Alignment explanation
Indices: 93456047--93456198 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
93456037 TAAATTGTGC
*
93456047 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
93456102 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
93456157 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
93456199 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:93464044 original size:28 final size:27
Alignment explanation
Indices: 93463987--93464138 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
93463977 TAAATTGTGC
* *
93463987 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
93464014 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
93464042 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
93464069 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
* *
93464097 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
93464124 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
93464139 GACTTAATAA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:93464052 original size:55 final size:55
Alignment explanation
Indices: 93463987--93464138 Score: 241
Period size: 55 Copynumber: 2.8 Consensus size: 55
93463977 TAAATTGTGC
* *
93463987 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
93464042 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* * *
93464097 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
93464139 GACTTAATAA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.28, C:0.13, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:93465995 original size:49 final size:49
Alignment explanation
Indices: 93465727--93466118 Score: 642
Period size: 47 Copynumber: 8.2 Consensus size: 49
93465717 CACTTCGGGA
* * * * *
93465727 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
93465774 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93465821 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93465868 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
93465915 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93465962 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93466011 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93466060 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
93466109 CTTATCACAT
1 CTTATCACAT
93466119 TCATCACATC
Statistics
Matches: 324, Mismatches: 11, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 166 0.51
48 2 0.01
49 149 0.46
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:93466119 original size:31 final size:31
Alignment explanation
Indices: 93466082--93466149 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
93466072 ATATACACTT
93466082 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
93466113 TCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACATTCATCACATCGGCCATTAGGCCTTA
93466144 TCACAT
1 TCACAT
93466150 ATATACACTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.29
Consensus pattern (31 bp):
TCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:93466189 original size:78 final size:79
Alignment explanation
Indices: 93466033--93466196 Score: 312
Period size: 78 Copynumber: 2.1 Consensus size: 79
93466023 ATATACACTT
93466033 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATC
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATC
93466098 GGCCATTAGGCCTTA
65 GGCCATTAGGCCTTA
93466113 TCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCG
93466177 GCCATTAGGCCTTA
66 GCCATTAGGCCTTA
93466191 TCACAT
1 TCACAT
93466197 ATATATACAC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
78 49 0.58
80 35 0.42
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (79 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTA
Found at i:93466195 original size:127 final size:128
Alignment explanation
Indices: 93465984--93466245 Score: 508
Period size: 127 Copynumber: 2.0 Consensus size: 128
93465974 ATATACACTT
93465984 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATC
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATACACTTTCACATTCATCACATC
93466049 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
93466113 TCACATTCATCACATCGGCCATTAGGCCTTATCAC-ATATATACACTTTCACATTCATCACATCG
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCG
93466177 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
66 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
93466240 TCACAT
1 TCACAT
93466246 ATATACACTT
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
127 98 0.74
129 35 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (128 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
Found at i:93466220 original size:49 final size:47
Alignment explanation
Indices: 93466113--93466259 Score: 276
Period size: 47 Copynumber: 3.1 Consensus size: 47
93466103 TTAGGCCTTA
93466113 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
93466160 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTT
93466209 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
1 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
93466256 TCAC
1 TCAC
93466260 GTATACACAC
Statistics
Matches: 98, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
47 51 0.52
49 47 0.48
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTT
Found at i:93478689 original size:7 final size:7
Alignment explanation
Indices: 93478677--93478705 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
93478667 TGAGATTGAG
93478677 AGAAAAA
1 AGAAAAA
93478684 AGAAAAA
1 AGAAAAA
93478691 AG-AAAA
1 AGAAAAA
93478697 AGAAAAA
1 AGAAAAA
93478704 AG
1 AG
93478706 TGTGTGTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:93478698 original size:13 final size:13
Alignment explanation
Indices: 93478680--93478705 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93478670 GATTGAGAGA
93478680 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
93478693 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
93478706 TGTGTGTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:93480194 original size:58 final size:58
Alignment explanation
Indices: 93480100--93480217 Score: 227
Period size: 58 Copynumber: 2.0 Consensus size: 58
93480090 GGAATACAAC
93480100 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACT
1 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACT
*
93480158 TAAGTTTCATCATTACATCCACTTAAAATAACTCACCACCTACTACCACTAACAAACT
1 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACT
93480216 TA
1 TA
93480218 GTTGGAATAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.28
Consensus pattern (58 bp):
TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACT
Found at i:93480277 original size:73 final size:73
Alignment explanation
Indices: 93480158--93480324 Score: 316
Period size: 73 Copynumber: 2.3 Consensus size: 73
93480148 CTAACAAACT
*
93480158 TAAGTTTCATCATTACATCCACTTAAAATAACTCACCACCTACTACCACTAACAAACTTAGTTGG
1 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTAGTTGG
93480223 AATACAAC
66 AATACAAC
93480231 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTAGTTGG
1 TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTAGTTGG
93480296 AATACAAC
66 AATACAAC
*
93480304 TAAGTTACATCATTACATCCA
1 TAAGTTTCATCATTACATCCA
93480325 AATAATAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (73 bp):
TAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTACCACTAACAAACTTAGTTGG
AATACAAC
Found at i:93480333 original size:3 final size:3
Alignment explanation
Indices: 93480325--93480356 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
93480315 ATTACATCCA
93480325 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
93480357 AACATGTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:93484639 original size:73 final size:73
Alignment explanation
Indices: 93484557--93484742 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
93484547 ACAACTTGAC
93484557 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
93484622 CACTAACA
66 CACTAACA
93484630 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
93484695 CACTAACA
66 CACTAACA
*
93484703 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
93484743 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:93484751 original size:3 final size:3
Alignment explanation
Indices: 93484743--93484783 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
93484733 ATTACATCCA
93484743 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 AA
93484784 AACATGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:93486640 original size:20 final size:20
Alignment explanation
Indices: 93486615--93486656 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
93486605 CAAAGCCAAA
93486615 TAGATCCTAAATATAACATT
1 TAGATCCTAAATATAACATT
93486635 TAGATCCTAAATATAACATT
1 TAGATCCTAAATATAACATT
93486655 TA
1 TA
93486657 ACATATTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (20 bp):
TAGATCCTAAATATAACATT
Found at i:93499352 original size:35 final size:31
Alignment explanation
Indices: 93499272--93499353 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
93499262 CTAAACTTTT
*
93499272 AAAAGTGGCAAATCAATCACTAACATTTATG
1 AAAAGTGACAAATCAATCACTAACATTTATG
* *
93499303 AAAAGTGACAAATCAATCACTAACGTTT-TCT
1 AAAAGTGACAAATCAATCACTAACATTTAT-G
*
93499334 AAAAGTGACAAACCAATCAC
1 AAAAGTGACAAATCAATCAC
93499354 CTAAGCCCAT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (31 bp):
AAAAGTGACAAATCAATCACTAACATTTATG
Done.