Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, whole genome shotgun sequence
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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 69 of 125
Found at i:13667151 original size:18 final size:17
Alignment explanation
Indices: 13667066--13667154 Score: 60
Period size: 18 Copynumber: 5.1 Consensus size: 17
13667056 ATTTGAGTCT
*
13667066 TATTTTTCTCTCTTTT-
1 TATTTTTTTCTCTTTTC
* *
13667082 TCATTTTTTTAT-TTTTT
1 T-ATTTTTTTCTCTTTTC
13667099 TATTTTTTTTTCTCTTTT-
1 TA--TTTTTTTCTCTTTTC
*
13667117 TATTTTTTTCCTTTTTTC
1 TATTTTTTT-CTCTTTTC
13667135 T-TCTTTTTTCATCTTTTC
1 TAT-TTTTTTC-TCTTTTC
13667153 TA
1 TA
13667155 ATCCATTAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
16 13 0.22
17 17 0.29
18 24 0.41
19 4 0.07
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.78
Consensus pattern (17 bp):
TATTTTTTTCTCTTTTC
Found at i:13670780 original size:25 final size:25
Alignment explanation
Indices: 13670752--13670802 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
13670742 TTGCACATAG
13670752 AGCCTTCTTTAGAATCACAACATCA
1 AGCCTTCTTTAGAATCACAACATCA
13670777 AGCCTTCTTTAGAATCACAACATCA
1 AGCCTTCTTTAGAATCACAACATCA
13670802 A
1 A
13670803 TCTATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.27, G:0.08, T:0.27
Consensus pattern (25 bp):
AGCCTTCTTTAGAATCACAACATCA
Found at i:13679658 original size:27 final size:26
Alignment explanation
Indices: 13679609--13679682 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 26
13679599 GCTTTTGAGA
*
13679609 GTTTT-TTTTTT--TTACTTTTTTT-
1 GTTTTATTTTTTCCTTATTTTTTTTG
13679631 GTGTTTATTTTTT-CTTGATTTTTGTTTG
1 GT-TTTATTTTTTCCTT-ATTTTT-TTTG
*
13679659 GTTTTGTTTTTTCCTTATTTTTTT
1 GTTTTATTTTTTCCTTATTTTTTT
13679683 GCTTTTTCTT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
22 2 0.05
23 3 0.07
24 6 0.14
25 2 0.05
26 7 0.16
27 18 0.42
28 5 0.12
ACGTcount: A:0.05, C:0.05, G:0.11, T:0.78
Consensus pattern (26 bp):
GTTTTATTTTTTCCTTATTTTTTTTG
Found at i:13680216 original size:23 final size:24
Alignment explanation
Indices: 13680166--13680217 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
13680156 TAGCTATTCT
*
13680166 GGCTTTATAGTGCCAACTAATATG
1 GGCTTTATAGTGCCAACTAATATA
* *
13680190 GGCTTTA-GGTGCCAACTAATTTA
1 GGCTTTATAGTGCCAACTAATATA
13680213 GGCTT
1 GGCTT
13680218 AAAATCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (24 bp):
GGCTTTATAGTGCCAACTAATATA
Found at i:13681076 original size:26 final size:26
Alignment explanation
Indices: 13681019--13681076 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
13681009 ATTTATAGGT
13681019 CAAATGTTTTTCTTATGATGCAAATG
1 CAAATGTTTTTCTTATGATGCAAATG
** * *
13681045 TGAATGTTTTT-TTCATGATGTACATG
1 CAAATGTTTTTCTT-ATGATGCAAATG
13681071 CAAATG
1 CAAATG
13681077 ATGCAAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.43
Consensus pattern (26 bp):
CAAATGTTTTTCTTATGATGCAAATG
Found at i:13681196 original size:10 final size:9
Alignment explanation
Indices: 13681171--13681195 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
13681161 TGCAAATGCA
13681171 TTTTTTTCT
1 TTTTTTTCT
13681180 TTTTTTTCT
1 TTTTTTTCT
13681189 TTTTTTT
1 TTTTTTT
13681196 TTTGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:13682682 original size:142 final size:141
Alignment explanation
Indices: 13682023--13683075 Score: 900
Period size: 143 Copynumber: 7.2 Consensus size: 141
13682013 GCCATGTGTC
* *
13682023 TTTCTTTCTTTCTTTCTTTTTCTTTTTTTCGAAAACATTTGACTTTAACTTTAGCATTCTTCTTT
1 TTTCTTTCTTT-GTTCTTTTT-TTTTTTT-GGAAACATTTGACTTTAACTTTAGCATTCTT-TTT
* * *
13682088 TTTGACTTCTATCT-TCTTGGGATTTTAACTGAAGCCTTATTCACTTTTCACCCTAAACTCTCAT
62 TTTGAATTCTATCTCT-TTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTAGACTCTCAT
* * * *
13682152 CTCTAAAGTGTATGTT
126 CTCTGAGGTGCATGTA
* * * ** * *
13682168 TTTCTTTCTTTGTT-GTTTCTTTTCTTGGAAACATTCAACTTTAAATTTATCATTCTTTTTTCTT
1 TTTCTTTCTTTGTTCTTTTTTTTTTTTGGAAACATTTGACTTTAACTTTAGCATTCTTTTTT-TT
* ** * * *
13682232 GAATTTTATCTCATTTTTTCACTTGGGATTCTATTTGAAGCTTTATTCACTTTTCGCCCTAAACT
65 GAATTCTATCTC------T---TTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTAGACT
* * **
13682297 CTCATCCCTAAGGTGTGTGTA
121 CTCATCTCTGAGGTGCATGTA
* * * * * *
13682318 TTTCTTTCTTTTTTCTTTTTGTCTTTTGTTTGAAACATTTAACTTTAACTTGAACTTTCTTTTTT
1 TTTCTTTCTTTGTTCTTTTT-T-TTTT-TTGGAAACATTTGACTTTAACTTTAGCATTCTTTTTT
* * * * * *
13682383 CTTGAATTCTATTTCCTTGGTATTCTAACTAAAGCCTTATTCACTTTTCA-CCTCGGACTCTCAC
63 -TTGAATTCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCT-AGACTCTCAT
* * *
13682447 CTCTAAAGTG--TGTC
126 CTCTGAGGTGCATGTA
* * *
13682461 TTTGTTTATTTGTTCTTTCTTTTTTTTTTTTGAAAGCATTTGACTTTAACTTTAGCATTCTTCTT
1 TTTCTTTCTTTGTTC--T-TTTTTTTTTTTGGAAA-CATTTGACTTTAACTTTAGCATTCTT-TT
* * * *
13682526 TCTTGAATTTTATCTCTTTGGGATTCTAACTGAATCCTTATTCACTTTTCACCCTAGACTCTAAT
61 TTTTGAATTCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTAGACTCTCAT
*
13682591 CTATGAGGTGCATGTA
126 CTCTGAGGTGCATGTA
*
13682607 TTTCTTTCTTTGTTCTTTTTTTTTTTTGGAAATATTTGACTTTAACTTTAGCATTCTTTTGTTTT
1 TTTCTTTCTTTGTTCTTTTTTTTTTTTGGAAACATTTGACTTTAACTTTAGCATTCTTTT-TTTT
* * * *
13682672 GAATTCTATCTCTTTGGGATTCTAGCTAAAACTTTATTCACTTTTCA-CCTCAGACTCTCATCTC
65 GAATTCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCT-AGACTCTCATCTC
* *
13682736 TGAGGTGTATGTC
129 TGAGGTGCATGTA
* * * *
13682749 TTTCTTTTTTTGTTCTTTCTTTTGTTTTT-GAAGCATTTGACTTCAACTTTAGCATTTTTTCTTT
1 TTTCTTTCTTTGTTCTTT-TTTT-TTTTTGGAAACATTTGACTTTAACTTTAGCATTCTTT-TTT
*
13682813 CTTGAA-TCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTGGACTCTCATC
63 -TTGAATTCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTAGACTCTCATC
* *
13682877 TCTGAGGTACATATCA
127 TCTGAGGTGCATGT-A
* ** * *
13682893 -TTCTTTCTTTGTTCATTTTTTTTTGTGTTTTAGAAACATTCAAGTTCAACTTTAGCATTCTTCT
1 TTTCTTTCTTTGTTC---TTTTTTT-T-TTTTGGAAACATTTGACTTTAACTTTAGCATTCTT-T
* * * * *
13682957 TTCTTGAATTTTATCTCCCTCTTTTACTTGGGATTCTAACTAAAACCTTATTCACTTTTCACCTT
60 TTTTTGAATTCTA--T--CTC---T--TTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCT
* * * *
13683022 GGACTCTCATCTTTGAGGTGCATCTC
116 AGACTCTCATCTCTGAGGTGCATGTA
* *
13683048 TTTCTTTTTTTGTTTTTTTTTTCTTTTT
1 TTTCTTTCTTTGTTCTTTTTTT-TTTTT
13683076 TTTTTTGAAA
Statistics
Matches: 748, Mismatches: 112, Indels: 89
0.79 0.12 0.09
Matches are distributed among these distances:
140 4 0.01
141 42 0.06
142 115 0.15
143 146 0.20
144 103 0.14
145 68 0.09
146 32 0.04
147 30 0.04
148 2 0.00
149 1 0.00
150 69 0.09
151 6 0.01
152 5 0.01
153 11 0.01
154 45 0.06
156 69 0.09
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (141 bp):
TTTCTTTCTTTGTTCTTTTTTTTTTTTGGAAACATTTGACTTTAACTTTAGCATTCTTTTTTTTG
AATTCTATCTCTTTGGGATTCTAACTGAAGCCTTATTCACTTTTCACCCTAGACTCTCATCTCTG
AGGTGCATGTA
Found at i:13682904 original size:439 final size:428
Alignment explanation
Indices: 13682032--13683074 Score: 1061
Period size: 439 Copynumber: 2.4 Consensus size: 428
13682022 CTTTCTTTCT
* * *
13682032 TTCTTTCTTTTTCTTTTTTTCGAAAACATTTGACTTTAACTTTAGCATTCTTCTTTTTTGACTTC
1 TTCTTTCTTTTT-TTTTTTT-G-AAACATTTGACTTTAACTTTAGCATTCTTCTTTCTTGAATTT
* * * * * *
13682097 TATCT-TCTTGGGATTTTAACTGAAGCCTTATTCACTTTTCACCCTAAACTCTCATCTCTAAAGT
63 TATCTCTCTTGGGATTCTAACTGAAACCTTATTCACTTTTCACCCTAGACTCTCATCTATGAGGT
* * * * * *
13682161 GTATGTTTTTCTTTCTTTGTTGTTTCTTTTCTTGGAAACATTCAACTTTAAATTTATCATTCTTT
128 GCATGTATTTCTTTCTTTGTTTTTTTTTTTTTTGGAAACATTCAACTTTAAATTTAGCATTCTTT
* ** * * *
13682226 TTTCTTGAATTTTATCTCATTTTTTCACTTGGGATTCTATTTGAAGCTTTATTCACTTTTCGCCC
193 TTTCTTGAATTCTATCTC-----TT--CTTGGGATTCTAGCTAAAACTTTATTCACTTTTCACCC
* *
13682291 TAAACTCTCATCCCTAAGGTGTGTGTATTTCTTTCTTTTTTCTTTTTGTCTTTTGTTTGAAACAT
251 TAAACTCTCATCCCTAAGGTGTATGTATTTCTTTCTTTTTTCTTTTTGTCTGTTGTTTGAAACAT
* * *
13682356 TTAACTTTAACTTGAACTTTCTTTTTTCTTGAATTCTATTTCCTTGGTATTCTAACTAAAGCCTT
316 TTAACTTCAACTTGAACTTTCTTTTTTCTTGAATTCTATCTCCTTGGGATTCTAACTAAAGCCTT
* *
13682421 ATTCACTTTTCACCTCGGACTCTCACCTCTAAAGTGTGTCTTTGTTTA
381 ATTCACTTTTCACCTCGGACTCTCACCTCTAAAGTCTGTCTTTGTTCA
13682469 TTTGTTCTTTCTTTTTTTTTTTTGAAAGCATTTGACTTTAACTTTAGCATTCTTCTTTCTTGAAT
1 ----TTCTTTCTTTTTTTTTTTTGAAA-CATTTGACTTTAACTTTAGCATTCTTCTTTCTTGAAT
* *
13682534 TTTATCTCT-TTGGGATTCTAACTGAATCCTTATTCACTTTTCACCCTAGACTCTAATCTATGAG
61 TTTATCTCTCTTGGGATTCTAACTGAAACCTTATTCACTTTTCACCCTAGACTCTCATCTATGAG
* ** *
13682598 GTGCATGTATTTCTTTCTTTGTTCTTTTTTTTTTTTGGAAATATTTGACTTTAACTTTAGCATTC
126 GTGCATGTATTTCTTTCTTTGTT-TTTTTTTTTTTTGGAAACATTCAACTTTAAATTTAGCATTC
13682663 TTTTGTT-TTGAATTCTATCTC-T-TTGGGATTCTAGCTAAAACTTTATTCACTTTTCA-CCTCA
190 TTTT-TTCTTGAATTCTATCTCTTCTTGGGATTCTAGCTAAAACTTTATTCACTTTTCACCCT-A
* * * * *
13682724 GACTCTCATCTCTGAGGTGTATGTCTTTCTTT-TTTTGTTCTTTCTT-T-TGTT-TTTGAAGCAT
253 AACTCTCATCCCTAAGGTGTATGTATTTCTTTCTTTT-TTCTTT-TTGTCTGTTGTTTGAAACAT
* * * * *
13682785 TTGACTTCAACTTTAGCATTT-TTTCTTTCTTGAA-TCTATCTCTTTGGGATTCTAACTGAAGCC
316 TTAACTTCAACTTGAAC-TTTCTTT-TTTCTTGAATTCTATCTCCTTGGGATTCTAACTAAAGCC
* * * * *
13682848 TTATTCACTTTTCACC-CTGGACTCTCATCTCTGAGGTACATATCATTCT-TTCT
379 TTATTCACTTTTCACCTC-GGACTCTCACCTCTAAAGT-C-TGTC-TT-TGTTCA
* * ** * *
13682901 TTGTTCATTTTTTTTTGTGTTTTAGAAACATTCAAGTTCAACTTTAGCATTCTTCTTTCTTGAAT
1 TTCTT--TCTTTTTTT-T-TTTT-GAAACATTTGACTTTAACTTTAGCATTCTTCTTTCTTGAAT
* * *
13682966 TTTATCTCCCTCTTTTACTTGGGATTCTAACTAAAACCTTATTCACTTTTCACCTTGGACTCTCA
61 TTTA--T--CTC---T-CTTGGGATTCTAACTGAAACCTTATTCACTTTTCACCCTAGACTCTCA
* * * *
13683031 TCTTTGAGGTGCATCTCTTTCTTTTTTTGTTTTTTTTTTCTTTT
118 TCTATGAGGTGCATGTATTTCTTTCTTTGTTTTTTTTTT-TTTT
13683075 TTTTTTTGAA
Statistics
Matches: 510, Mismatches: 63, Indels: 58
0.81 0.10 0.09
Matches are distributed among these distances:
428 5 0.01
429 82 0.16
430 30 0.06
431 68 0.13
432 47 0.09
433 5 0.01
434 2 0.00
436 3 0.01
438 3 0.01
439 112 0.22
440 66 0.13
441 87 0.17
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (428 bp):
TTCTTTCTTTTTTTTTTTTGAAACATTTGACTTTAACTTTAGCATTCTTCTTTCTTGAATTTTAT
CTCTCTTGGGATTCTAACTGAAACCTTATTCACTTTTCACCCTAGACTCTCATCTATGAGGTGCA
TGTATTTCTTTCTTTGTTTTTTTTTTTTTTGGAAACATTCAACTTTAAATTTAGCATTCTTTTTT
CTTGAATTCTATCTCTTCTTGGGATTCTAGCTAAAACTTTATTCACTTTTCACCCTAAACTCTCA
TCCCTAAGGTGTATGTATTTCTTTCTTTTTTCTTTTTGTCTGTTGTTTGAAACATTTAACTTCAA
CTTGAACTTTCTTTTTTCTTGAATTCTATCTCCTTGGGATTCTAACTAAAGCCTTATTCACTTTT
CACCTCGGACTCTCACCTCTAAAGTCTGTCTTTGTTCA
Found at i:13683068 original size:11 final size:11
Alignment explanation
Indices: 13683046--13683080 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
13683036 GAGGTGCATC
13683046 TCTTTCTTTTTT
1 TCTTT-TTTTTT
*
13683058 TGTTTTTTTTT
1 TCTTTTTTTTT
13683069 TCTTTTTTTTT
1 TCTTTTTTTTT
13683080 T
1 T
13683081 TGAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.00, C:0.09, G:0.03, T:0.89
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:13683254 original size:21 final size:20
Alignment explanation
Indices: 13683215--13683258 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
13683205 GATGCATGTA
13683215 TTTCTTTCTTTGTTCTTTTT
1 TTTCTTTCTTTGTTCTTTTT
13683235 TTTCATTT-TTTGTCTCTTTTT
1 TTTC-TTTCTTTGT-TCTTTTT
13683256 TTT
1 TTT
13683259 AAATAAAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTCTTTCTTTGTTCTTTTT
Found at i:13683913 original size:23 final size:23
Alignment explanation
Indices: 13683880--13683942 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
13683870 CTTTTGAGAG
13683880 TTCTTTT-TTTTACTTTTTTAT-A
1 TTCTTTTGTTTTA-TTTTTTATCA
*
13683902 TTCTTTTGTTTTTATTTTTTTTCA
1 TTCTTTTG-TTTTATTTTTTATCA
13683926 TT-TTTTGTTTTATTTTT
1 TTCTTTTGTTTTATTTTT
13683943 GTTGTTTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 17 0.46
23 12 0.32
24 8 0.22
ACGTcount: A:0.10, C:0.06, G:0.03, T:0.81
Consensus pattern (23 bp):
TTCTTTTGTTTTATTTTTTATCA
Found at i:13683913 original size:24 final size:23
Alignment explanation
Indices: 13683886--13683942 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
13683876 AGAGTTCTTT
13683886 TTTTTACTTTTTTAT-ATTCTTTTG
1 TTTTTA-TTTTTTATCATT-TTTTG
*
13683910 TTTTTATTTTTTTTCATTTTTTG
1 TTTTTATTTTTTATCATTTTTTG
13683933 -TTTTATTTTT
1 TTTTTATTTTT
13683943 GTTGTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 10 0.32
23 12 0.39
24 9 0.29
ACGTcount: A:0.11, C:0.05, G:0.04, T:0.81
Consensus pattern (23 bp):
TTTTTATTTTTTATCATTTTTTG
Found at i:13683921 original size:33 final size:33
Alignment explanation
Indices: 13683883--13683962 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 33
13683873 TTGAGAGTTC
13683883 TTTTTTTTACTTTTTTATATT-CTTTTGTT-TT
1 TTTTTTTTACTTTTTTATATTACTTTTGTTGTT
* * * *
13683914 TATTTTTTTTCATTTTTTGTTTTATTTTTGTTGTT
1 T-TTTTTTTAC-TTTTTTATATTACTTTTGTTGTT
*
13683949 TTTTCTTTACTTTT
1 TTTTTTTTACTTTT
13683963 GTTGTTTTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
31 1 0.03
32 8 0.21
33 13 0.33
34 14 0.36
35 3 0.08
ACGTcount: A:0.09, C:0.06, G:0.05, T:0.80
Consensus pattern (33 bp):
TTTTTTTTACTTTTTTATATTACTTTTGTTGTT
Found at i:13683931 original size:12 final size:12
Alignment explanation
Indices: 13683900--13684000 Score: 56
Period size: 12 Copynumber: 8.7 Consensus size: 12
13683890 TACTTTTTTA
13683900 TATTCTTTTGTTT
1 TATT-TTTTGTTT
13683913 T-TATTTTT-TTT
1 TAT-TTTTTGTTT
*
13683924 CATTTTTTGTTT
1 TATTTTTTGTTT
13683936 TA-TTTTTG--T
1 TATTTTTTGTTT
* *
13683945 TGTTTTTT-CTT
1 TATTTTTTGTTT
13683956 TACTTTTGTTGTTT
1 TA-TTTT-TTGTTT
*
13683970 T-TGTTTTGTTT
1 TATTTTTTGTTT
*
13683981 TGTTTTTT-TCTT
1 TATTTTTTGT-TT
13683993 TATTTTTT
1 TATTTTTT
13684001 TTACTTTACA
Statistics
Matches: 69, Mismatches: 8, Indels: 23
0.69 0.08 0.23
Matches are distributed among these distances:
9 2 0.03
10 5 0.07
11 24 0.35
12 31 0.45
13 4 0.06
14 3 0.04
ACGTcount: A:0.06, C:0.05, G:0.09, T:0.80
Consensus pattern (12 bp):
TATTTTTTGTTT
Found at i:13683950 original size:20 final size:19
Alignment explanation
Indices: 13683893--13683999 Score: 80
Period size: 18 Copynumber: 5.7 Consensus size: 19
13683883 TTTTTTTTAC
* *
13683893 TTTTTTATATTCTT-TTGT
1 TTTTTTTTATTTTTGTTGT
**
13683911 TTTTATTTT-TTTTCATT-T
1 TTTT-TTTTATTTTTGTTGT
*
13683929 TTTGTTTTATTTTTGTTGT
1 TTTTTTTTATTTTTGTTGT
*
13683948 TTTTTCTTTACTTTTGTTGT
1 TTTTT-TTTATTTTTGTTGT
*
13683968 TTTTGTTTT-GTTTTGTT-T
1 TTTT-TTTTATTTTTGTTGT
*
13683986 TTTTCTTTATTTTT
1 TTTTTTTTATTTTT
13684000 TTTACTTTAC
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
17 7 0.10
18 26 0.37
19 17 0.24
20 20 0.28
21 1 0.01
ACGTcount: A:0.07, C:0.05, G:0.08, T:0.80
Consensus pattern (19 bp):
TTTTTTTTATTTTTGTTGT
Found at i:13683951 original size:22 final size:21
Alignment explanation
Indices: 13683905--13683989 Score: 79
Period size: 19 Copynumber: 4.1 Consensus size: 21
13683895 TTTTATATTC
* *
13683905 TTTTGTTTTTATTTTTTTTCATT
1 TTTTG-TTTTATTTTTGTT-GTT
13683928 TTTTGTTTTATTTTTGTTGTT
1 TTTTGTTTTATTTTTGTTGTT
* *
13683949 TTTT-CTTTACTTTTGTTG-T
1 TTTTGTTTTATTTTTGTTGTT
*
13683968 TTTTGTTTT-GTTTTGTT-TT
1 TTTTGTTTTATTTTTGTTGTT
13683987 TTT
1 TTT
13683990 CTTTATTTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
19 16 0.30
20 15 0.28
21 6 0.11
22 12 0.22
23 5 0.09
ACGTcount: A:0.05, C:0.04, G:0.11, T:0.81
Consensus pattern (21 bp):
TTTTGTTTTATTTTTGTTGTT
Found at i:13684870 original size:18 final size:18
Alignment explanation
Indices: 13684849--13684923 Score: 60
Period size: 18 Copynumber: 3.9 Consensus size: 18
13684839 ATGCGAATAG
13684849 AAATGTTGATGCAAATGC
1 AAATGTTGATGCAAATGC
** **
13684867 AAATGTCAATGTGAATGC
1 AAATGTTGATGCAAATGC
*
13684885 AAGAATGTGGATGCAAAAATGC
1 -A-AATGTTGATGC--AAATGC
13684907 AAATGCTTGATGCAAAT
1 AAATG-TTGATGCAAAT
13684924 ATATGTGACC
Statistics
Matches: 43, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
18 14 0.33
19 5 0.12
20 12 0.28
21 7 0.16
22 5 0.12
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (18 bp):
AAATGTTGATGCAAATGC
Found at i:13686385 original size:21 final size:21
Alignment explanation
Indices: 13686356--13686398 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
13686346 GGTAATTAAG
* * *
13686356 CCAAGGATGTTATGGCGTATT
1 CCAAAGATGTTATAGCATATT
13686377 CCAAAGATGTTATAGCATATT
1 CCAAAGATGTTATAGCATATT
13686398 C
1 C
13686399 TTTGGATGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (21 bp):
CCAAAGATGTTATAGCATATT
Found at i:13686820 original size:139 final size:136
Alignment explanation
Indices: 13686652--13687022 Score: 372
Period size: 141 Copynumber: 2.7 Consensus size: 136
13686642 TTTTACTTGG
* **
13686652 GATTCTAGCTAAAGCCTTATTCACTTTTCACTTGGGACTCTCATCTTTGAGGTGCACGTCTTTCT
1 GATTCTAACTAAAGCCTTATTCACTTTTCACTT-GGACTCTCATCTTTGAGGTGCGTGTCTTTCT
** * * * *
13686717 TTCTTTGTTCTTTGTCTTTTTTTTTTTTTTACTTCAACTTTAGCATTCTTCTTTCTTGAATTCTA
65 TTCTTTGTTCTTT-TCTTTTTTTTTTTTCGACTTCAACTTTAACATTCTTCTTTATTAAAATCTA
13686782 TCTCCTTGTA
129 TCT-CTT-TA
* * * * *
13686792 -ATTCTAACTAAAGCCTTATTCACTTTTCACCCTAGACTCTCATCTCTGAGGTGTGTGTCTTTTT
1 GATTCTAACTAAAGCCTTATTCACTTTTCA-CTTGGACTCTCATCTTTGAGGTGCGTGTCTTTCT
****
13686856 TTCTTTGTTCTTTAT-TTTTTTAGAAACATTCGACTTCAACTTTAACATTCTTCTTTATTAAAAT
65 TTCTTTGTTCTTT-TCTTTTTT---TTTTTTCGACTTCAACTTTAACATTCTTCTTTATTAAAAT
13686920 CTATCTCTTTA
126 CTATCTCTTTA
* * * * * * * *
13686931 GGATTCTAACTGAAA-CTTTATTCACTTTTTACTTTGAACTCTCATATTCGAGATACGTGTTTTT
1 -GATTCTAACT-AAAGCCTTATTCACTTTTCAC-TTGGACTCTCATCTTTGAGGTGCGTGTCTTT
13686995 CTTTCTTTGTT-TTTTCTTTTTTTTTTTT
63 CTTTCTTTGTTCTTTTCTTTTTTTTTTTT
13687023 GGGAAACATT
Statistics
Matches: 186, Mismatches: 36, Indels: 21
0.77 0.15 0.09
Matches are distributed among these distances:
137 2 0.01
138 6 0.03
139 70 0.38
140 15 0.08
141 90 0.48
142 3 0.02
ACGTcount: A:0.19, C:0.20, G:0.10, T:0.52
Consensus pattern (136 bp):
GATTCTAACTAAAGCCTTATTCACTTTTCACTTGGACTCTCATCTTTGAGGTGCGTGTCTTTCTT
TCTTTGTTCTTTTCTTTTTTTTTTTTCGACTTCAACTTTAACATTCTTCTTTATTAAAATCTATC
TCTTTA
Found at i:13687000 original size:141 final size:144
Alignment explanation
Indices: 13686747--13687058 Score: 336
Period size: 141 Copynumber: 2.2 Consensus size: 144
13686737 TTTTTTTTTT
* * *
13686747 ACTTCAACTTTAGCATTCTTCTTTCTTGAATTCTATCTCCTTGTAATTCTAACTAAAGCCTTATT
1 ACTTCAACTTTAGCATTCTTCTTTATTAAAATCTATCTCCTTGTAATTCTAACTAAAGCCTTATT
* **
13686812 CACTTTTCACCCTAGACTCTCATCTCTGAGGTGTGTGTCTTTTTTTCTTTG-TTC-TTTATTTTT
66 CACTTTTCACCCTAGACTCTCATCTCTGAGATACGTGTCTTTTTTTCTTTGTTTCTTTTATTTTT
13686875 TT-AGAAACATTCG
131 TTGAGAAACATTCG
* *
13686888 ACTTCAACTTTAACATTCTTCTTTATTAAAATCTATCT-CTT-TAGGATTCTAACTGAAA-CTTT
1 ACTTCAACTTTAGCATTCTTCTTTATTAAAATCTATCTCCTTGTA--ATTCTAACT-AAAGCCTT
* * * *
13686950 ATTCACTTTTTA-CTTTGAACTCTCATAT-TCGAGATACGTGT-TTTTCTTTCTTTGTTTTTTCT
63 ATTCACTTTTCACCCTAG-ACTCTCATCTCT-GAGATACGTGTCTTTT-TTTCTTTG---TTTCT
* * *
13687012 TTTTTTTTTTTGGGAAACATTCT
122 TTTATTTTTTTGAGAAACATTCG
*
13687035 ACTTTAACTTTAGCATTCTTCTTT
1 ACTTCAACTTTAGCATTCTTCTTT
13687059 CTTGAATTAT
Statistics
Matches: 142, Mismatches: 17, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
139 2 0.01
140 11 0.08
141 82 0.58
142 3 0.02
145 3 0.02
146 10 0.07
147 31 0.22
ACGTcount: A:0.21, C:0.20, G:0.09, T:0.51
Consensus pattern (144 bp):
ACTTCAACTTTAGCATTCTTCTTTATTAAAATCTATCTCCTTGTAATTCTAACTAAAGCCTTATT
CACTTTTCACCCTAGACTCTCATCTCTGAGATACGTGTCTTTTTTTCTTTGTTTCTTTTATTTTT
TTGAGAAACATTCG
Found at i:13687000 original size:284 final size:277
Alignment explanation
Indices: 13686434--13687074 Score: 621
Period size: 284 Copynumber: 2.2 Consensus size: 277
13686424 CTTTCTTTGC
** *
13686434 TCTTTGTT-TTTTTTTTTTGGAAACATTCAACTTTAACTTTAGCATTCTTCTTTCTT-AACTTCT
1 TCTTTGTTCTTTTTTTTTT--TTACATTCTACTTTAACTTTAGCATTCTTCTTTCTTGAA-TTCT
* * * * **
13686497 ATCTCTTTGGGATTTTAACTAAAGCCTTATTCATTTTTTGCCCCAAACTCTCATCTCCAAGGTGC
63 ATCTCCTTGGAATTCTAACTAAAGCCTTATTCACTTTTCACCCCAAACTCTCATCTCCAAGGTGC
* * * * *
13686562 ATGTCTTTTTTTCATTATTTTTTTTTGGAAACATTTGACTTCAACTTTAGCGTTCTTCTTTCTTA
128 ATGTCTTTTTTTCATTATTTTTTTTTAGAAACATTCGACTTCAACTTTAACATTCTTCTTTATTA
* * * *
13686627 AATTCTATCAACCTTTTTTACTTGGGATTCTAGCTAAAGCCTTATTCACTTTTCACTTGGGACTC
193 AAATCTAT--A-CTTCTTTA--T-GGATTCTAACTAAAGCCTTATTCACTTTTCACTTGGAACTC
* *
13686692 TCATCTTTGAGGTGCACGTCTTTCTT
252 TCATATTCGAGGTGCACGTCTTTCTT
** * *
13686718 TCTTTGTTCTTTGTCTTTTTTTT-TTTTTTACTTCAACTTTAGCATTCTTCTTTCTTGAATTCTA
1 TCTTTGTTCTTT-T-TTTTTTTTACATTCTACTTTAACTTTAGCATTCTTCTTTCTTGAATTCTA
* * * ** **
13686782 TCTCCTTGTAATTCTAACTAAAGCCTTATTCACTTTTCACCCTAGACTCTCATCTCTGAGGTGTG
64 TCTCCTTGGAATTCTAACTAAAGCCTTATTCACTTTTCACCCCAAACTCTCATCTCCAAGGTGCA
* *
13686847 TGTCTTTTTTTCTTTGTTCTTTATTTTTTTAGAAACATTCGACTTCAACTTTAACATTCTTCTTT
129 TGTCTTTTTTTC---ATT-ATT-TTTTTTTAGAAACATTCGACTTCAACTTTAACATTCTTCTTT
* * *
13686912 ATTAAAATCTAT-C-TCTTTA-GGATTCTAACTGAAA-CTTTATTCACTTTTTACTTTGAACTCT
189 ATTAAAATCTATACTTCTTTATGGATTCTAACT-AAAGCCTTATTCACTTTTCACTTGGAACTCT
* * ** *
13686973 CATATTCGAGATACGTGTTTTTCTT
253 CATATTCGAGGTGCACGTCTTTCTT
13686998 TCTTTGTTTTTTCTTTTTTTTTTTTGGGAAACATTCTACTTTAACTTTAGCATTCTTCTTTCTTG
1 TCTTTG----TTCTTTTTTTTTTTT-----ACATTCTACTTTAACTTTAGCATTCTTCTTTCTTG
*
13687063 AATTATATCTCC
57 AATTCTATCTCC
13687075 CTCTTTCACT
Statistics
Matches: 291, Mismatches: 46, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
280 57 0.20
281 3 0.01
282 8 0.03
283 1 0.00
284 116 0.40
285 6 0.02
286 1 0.00
287 8 0.03
288 43 0.15
289 48 0.16
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.51
Consensus pattern (277 bp):
TCTTTGTTCTTTTTTTTTTTTACATTCTACTTTAACTTTAGCATTCTTCTTTCTTGAATTCTATC
TCCTTGGAATTCTAACTAAAGCCTTATTCACTTTTCACCCCAAACTCTCATCTCCAAGGTGCATG
TCTTTTTTTCATTATTTTTTTTTAGAAACATTCGACTTCAACTTTAACATTCTTCTTTATTAAAA
TCTATACTTCTTTATGGATTCTAACTAAAGCCTTATTCACTTTTCACTTGGAACTCTCATATTCG
AGGTGCACGTCTTTCTT
Found at i:13688646 original size:17 final size:16
Alignment explanation
Indices: 13688624--13688665 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
13688614 TAAGGGGTTT
13688624 TTTTTATTTTTAATTAA
1 TTTTTATTTTTAATT-A
* *
13688641 TTTTTATATTTCATTA
1 TTTTTATTTTTAATTA
13688657 TTTTT-TTTT
1 TTTTTATTTT
13688666 AAATATCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 3 0.14
16 6 0.27
17 13 0.59
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTTAATTA
Found at i:13691546 original size:3 final size:3
Alignment explanation
Indices: 13691538--13691594 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
13691528 CATTTCCTTT
* * *
13691538 TTA TTA TTA TTG TTG TTA TTG TTA TTA TTA TTA -TA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
13691583 TTA TTA TTA TTA
1 TTA TTA TTA TTA
13691595 GAAAGAAAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.92
4 2 0.04
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13696753 original size:19 final size:18
Alignment explanation
Indices: 13696721--13696756 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
13696711 ACTTAAATTT
*
13696721 TTTTTATAAAAATATATA
1 TTTTTAAAAAAATATATA
13696739 TTTTTAAAAATAATATAT
1 TTTTTAAAAA-AATATAT
13696757 GAATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTAAAAAAATATATA
Found at i:13696754 original size:17 final size:17
Alignment explanation
Indices: 13696722--13696756 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13696712 CTTAAATTTT
13696722 TTTTATAAAAATATATA
1 TTTTATAAAAATATATA
13696739 TTTT-TAAAAATAATATA
1 TTTTATAAAAAT-ATATA
13696756 T
1 T
13696757 GAATAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTATAAAAATATATA
Found at i:13698602 original size:67 final size:66
Alignment explanation
Indices: 13698483--13698622 Score: 165
Period size: 67 Copynumber: 2.1 Consensus size: 66
13698473 CCTAGATTAG
* * * * *
13698483 GATTAAACCACAAGTCAAAAAACTAAAATGATCTAGATCGAGCTAAGGTTGAAAATGAGTGACCG
1 GATTGAACCACAAGTCAAAAAACTAAAATGACCTAGATCGAGCCAAGATTGAAAATGAATGACCG
13698548 A
66 A
* * * *
13698549 GATTGAACCACAATTCAAAAAAATTAAAATGACCTGGA-CTGAGCCAAGATTGAAAATGAATGAT
1 GATTGAACCACAAGTC-AAAAAACTAAAATGACCTAGATC-GAGCCAAGATTGAAAATGAATGAC
*
13698613 CGG
64 CGA
13698616 GATTGAA
1 GATTGAA
13698623 ATGATCTAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 15 0.24
67 47 0.76
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (66 bp):
GATTGAACCACAAGTCAAAAAACTAAAATGACCTAGATCGAGCCAAGATTGAAAATGAATGACCG
A
Found at i:13706560 original size:18 final size:18
Alignment explanation
Indices: 13706539--13706594 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
13706529 AAACATTTTT
13706539 ATTTTCTATGTTATTTAA
1 ATTTTCTATGTTATTTAA
* * *
13706557 ATTTGC--TGTAATTTTA
1 ATTTTCTATGTTATTTAA
13706573 ATTTT-TCATGTTATTTAA
1 ATTTTCT-ATGTTATTTAA
13706591 ATTT
1 ATTT
13706595 ATGCAATTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
16 12 0.41
18 17 0.59
ACGTcount: A:0.27, C:0.05, G:0.07, T:0.61
Consensus pattern (18 bp):
ATTTTCTATGTTATTTAA
Found at i:13706657 original size:16 final size:16
Alignment explanation
Indices: 13706585--13706706 Score: 67
Period size: 15 Copynumber: 7.6 Consensus size: 16
13706575 TTTTCATGTT
13706585 ATTTAAA-TTTATGCA
1 ATTTAAATTTTATGCA
*
13706600 ATTT-AATTTTACGTC-
1 ATTTAAATTTTATG-CA
*
13706615 -TTTAAATTTTCTTGCA
1 ATTTAAATTTT-ATGCA
**
13706631 ATTTATTTTTTATGCA
1 ATTTAAATTTTATGCA
* *
13706647 GTTTAAATTTTCATGTA
1 ATTTAAATTTT-ATGCA
*
13706664 ATTTAATATTTTAATGTA
1 ATTTAA-ATTTT-ATGCA
* *
13706682 CTTT-AATTATT-TTCA
1 ATTTAAATT-TTATGCA
13706697 ATTTAAATTT
1 ATTTAAATTT
13706707 ACTGTTTTAT
Statistics
Matches: 81, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
14 5 0.06
15 22 0.27
16 21 0.26
17 20 0.25
18 13 0.16
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.56
Consensus pattern (16 bp):
ATTTAAATTTTATGCA
Found at i:13706674 original size:18 final size:17
Alignment explanation
Indices: 13706539--13706687 Score: 87
Period size: 17 Copynumber: 9.0 Consensus size: 17
13706529 AAACATTTTT
*
13706539 ATTTTCTATGTTATTTAA
1 ATTTTC-ATGTAATTTAA
*
13706557 ATTTGC-TGTAATTTTAA
1 ATTTTCATGTAA-TTTAA
* *
13706574 TTTTTCATGTTATTTAA
1 ATTTTCATGTAATTTAA
*
13706591 A-TTT-ATGCAATTT-A
1 ATTTTCATGTAATTTAA
* *
13706605 ATTTT-ACGT-CTTTAA
1 ATTTTCATGTAATTTAA
* *
13706620 ATTTTCTTGCAATTT-A
1 ATTTTCATGTAATTTAA
* * * *
13706636 TTTTTTATGCAGTTTAA
1 ATTTTCATGTAATTTAA
13706653 ATTTTCATGTAATTTAA
1 ATTTTCATGTAATTTAA
* *
13706670 TATTTTAATGTACTTTAA
1 -ATTTTCATGTAATTTAA
13706688 TTATTTTCAA
Statistics
Matches: 98, Mismatches: 25, Indels: 16
0.71 0.18 0.12
Matches are distributed among these distances:
14 5 0.05
15 18 0.18
16 20 0.20
17 31 0.32
18 24 0.24
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (17 bp):
ATTTTCATGTAATTTAA
Found at i:13706694 original size:19 final size:18
Alignment explanation
Indices: 13706648--13706694 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
13706638 TTTTATGCAG
*
13706648 TTTAA-ATTTTCATGTAA
1 TTTAATATTTTAATGTAA
*
13706665 TTTAATATTTTAATGTAC
1 TTTAATATTTTAATGTAA
13706683 TTTAATTATTTT
1 TTTAA-TATTTT
13706695 CAATTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTAATGTAA
Found at i:13710202 original size:21 final size:20
Alignment explanation
Indices: 13710173--13710214 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
13710163 CATATGCAAG
* *
13710173 TGAATAATAGATATATAAAA
1 TGAATAATAAATAAATAAAA
13710193 TGAATAAATAAATAAATAAAA
1 TGAAT-AATAAATAAATAAAA
13710214 T
1 T
13710215 ACAAGCAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (20 bp):
TGAATAATAAATAAATAAAA
Found at i:13713218 original size:51 final size:51
Alignment explanation
Indices: 13713138--13713241 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
13713128 GTGAAAGAAA
*
13713138 AACATTGAAACTTTAAGAAATCAGTAAGTGCATGAAAATTGCAACATCATT
1 AACATTGAAACTTTAAGAAATCAGCAAGTGCATGAAAATTGCAACATCATT
*
13713189 AACATTGAAAGTTTAAGAAATCAGCAAGTGCATGAAAATTGCAACATCATT
1 AACATTGAAACTTTAAGAAATCAGCAAGTGCATGAAAATTGCAACATCATT
13713240 AA
1 AA
13713242 AATGGAAGTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.26
Consensus pattern (51 bp):
AACATTGAAACTTTAAGAAATCAGCAAGTGCATGAAAATTGCAACATCATT
Found at i:13713682 original size:12 final size:12
Alignment explanation
Indices: 13713643--13713686 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
13713633 TCTACTTAAG
*
13713643 CTAATTGAA-AA
1 CTAAATGAAGAA
*
13713654 CTAATTGAAGAA
1 CTAAATGAAGAA
13713666 CTAAATGAAGAA
1 CTAAATGAAGAA
*
13713678 TTAAATGAA
1 CTAAATGAA
13713687 TAAGTAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
CTAAATGAAGAA
Found at i:13721774 original size:20 final size:21
Alignment explanation
Indices: 13721749--13721797 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
13721739 AAAAATGAGA
13721749 AGAAAAAGCTAG-AAAAAAAT
1 AGAAAAAGCTAGTAAAAAAAT
* *
13721769 AGAAAAAGCTTGTCAAAAAAT
1 AGAAAAAGCTAGTAAAAAAAT
13721790 AGGAAAAA
1 A-GAAAAA
13721798 AATTAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.44
21 8 0.32
22 6 0.24
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.12
Consensus pattern (21 bp):
AGAAAAAGCTAGTAAAAAAAT
Found at i:13725339 original size:18 final size:18
Alignment explanation
Indices: 13725316--13725352 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13725306 AGTTTGGGAA
13725316 CCCTTAGACATATAAATC
1 CCCTTAGACATATAAATC
13725334 CCCTTAGACATATAAATC
1 CCCTTAGACATATAAATC
13725352 C
1 C
13725353 TAATCAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.30, G:0.05, T:0.27
Consensus pattern (18 bp):
CCCTTAGACATATAAATC
Found at i:13735053 original size:21 final size:21
Alignment explanation
Indices: 13735014--13735072 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
13735004 AATATAAAAA
*
13735014 ATAAAAAAATAAATC-AAATT
1 ATAAAAAAAAAAATCAAAATT
13735034 A-AAACAAAAAAAATCAAAATT
1 ATAAA-AAAAAAAATCAAAATT
*
13735055 ATAAAATTAAAAAATCAA
1 ATAAAA-AAAAAAATCAA
13735073 TAAAAAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 3 0.09
20 10 0.30
21 7 0.21
22 13 0.39
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (21 bp):
ATAAAAAAAAAAATCAAAATT
Found at i:13736164 original size:35 final size:35
Alignment explanation
Indices: 13736068--13736625 Score: 251
Period size: 35 Copynumber: 15.9 Consensus size: 35
13736058 TCTTAAATGT
* * ** *
13736068 TGGTGTTGTCTCAGTCATCTTTATCTTCCTAACC-A
1 TGGTGTTGTCTCAATCATATTTAT-TTTTTGACCTA
* * * *
13736103 TGGTGTTATC-CGATCATCTTTATTTTTTGACCTG
1 TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
* * *
13736137 TAGTGTTGTCTCAATCATATTTGTTTTTTCAACC-A
1 TGGTGTTGTCTCAATCATATTTATTTTTT-GACCTA
* * * * *
13736172 TTGGTGCTATGTCGATC--ATTT-TTTTTAGACCTA
1 -TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
*** * *
13736205 AAATGTTGTCAT-AGTCATCTTTATTTTATTGACCTA
1 TGGTGTTGTC-TCAATCATATTTATTTT-TTGACCTA
* * *
13736241 TGGTATTATCTCAATCATCA-TTATTTTTGGACCTA
1 TGGTGTTGTCTCAATCAT-ATTTATTTTTTGACCTA
* * * *
13736276 TAGTGTTATCTCAATCATCTTTATTTTTTGACTTA
1 TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
** * *
13736311 TGGTGTTGTCTTGATCATATTTATTTTTAGACCTG
1 TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
* * * * *
13736346 TGGTGTTGTCCCGATCATATTGT-TTTTTCGACTTG
1 TGGTGTTGTCTCAATCATATT-TATTTTTTGACCTA
** * * * *
13736381 TCATGTTGTCCCAGTCATTTTTATATTTTTTA-CT-
1 TGGTGTTGTCTCAATCATATTTAT-TTTTTGACCTA
* * * * *
13736415 TGCAATGTTATCTCGATCATCTTTATTGTTTTGACTTA
1 TG--GTGTTGTCTCAATCATATTTATT-TTTTGACCTA
* * ****
13736453 TGGTGTTGTC-CTGATCATATTTGTTTCCCAACC-A
1 TGGTGTTGTCTC-AATCATATTTATTTTTTGACCTA
* * **
13736487 TTGGTGTTGTCTCGATCATCTTTATTTTTCAACCTA
1 -TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
* * * * *
13736523 CGGTGTTGTCTCAATCATCTTTATTTTTTAACTTG
1 TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
* * * * *
13736558 TGGTGCTGCCCCAATCATATTTCTTTTTTGACCTG
1 TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
* * *
13736593 TAGTATTGTCTCAATCATCTTTATTTTTATGAC
1 TGGTGTTGTCTCAATCATATTTATTTTT-TGAC
13736626 ATGTTATGTT
Statistics
Matches: 392, Mismatches: 105, Indels: 51
0.72 0.19 0.09
Matches are distributed among these distances:
32 9 0.02
33 13 0.03
34 29 0.07
35 249 0.64
36 89 0.23
37 1 0.00
38 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (35 bp):
TGGTGTTGTCTCAATCATATTTATTTTTTGACCTA
Found at i:13736469 original size:36 final size:35
Alignment explanation
Indices: 13736289--13736731 Score: 164
Period size: 35 Copynumber: 12.5 Consensus size: 35
13736279 TGTTATCTCA
* * *
13736289 ATCATCTTTATTTTTTGACTTATGGTGTTGTCTTG
1 ATCATATTTATTTTTTGACTTGTGGTGTTGTCCTG
* * *
13736324 ATCATATTTATTTTTAGACCTGTGGTGTTGTCCCG
1 ATCATATTTATTTTTTGACTTGTGGTGTTGTCCTG
* ** *
13736359 ATCATATTGT-TTTTTCGACTTGTCATGTTGTCC-C
1 ATCATATT-TATTTTTTGACTTGTGGTGTTGTCCTG
* * *** *
13736393 AGTCATTTTTATATTTTTTACTTGCAATGTTAT-CTCG
1 A-TCATATTTAT-TTTTTGACTTGTGGTGTTGTCCT-G
* *
13736430 ATCATCTTTATTGTTTTGACTTATGGTGTTGTCCTG
1 ATCATATTTATT-TTTTGACTTGTGGTGTTGTCCTG
* **** *
13736466 ATCATATTTGTTTCCCAACCAT-TGGTGTTGT-CTCG
1 ATCATATTTATTTTTTGA-CTTGTGGTGTTGTCCT-G
* ** * ** *
13736501 ATCATCTTTATTTTTCAACCTACGGTGTTGT-CTCA
1 ATCATATTTATTTTTTGACTTGTGGTGTTGTCCT-G
* * * * **
13736536 ATCATCTTTATTTTTTAACTTGTGGTGCTGCCCCA
1 ATCATATTTATTTTTTGACTTGTGGTGTTGTCCTG
* * * * *
13736571 ATCATATTTCTTTTTTGACCTGTAGTATTGT-CTCA
1 ATCATATTTATTTTTTGACTTGTGGTGTTGTCCT-G
* * ** * *
13736606 ATCATCTTTATTTTTATGACATGTTATGTTATCTTG
1 ATCATATTTATTTTT-TGACTTGTGGTGTTGTCCTG
* * * * *
13736642 GTCATCTTTATTCTCT-AATCTGTGGTGTTGTCCTG
1 ATCATATTTATTTTTTGACT-TGTGGTGTTGTCCTG
* * * * * * * *
13736677 GTCATATTTGTTTTCCTAATTTATGGTGTTATCCCG
1 ATCATATTTATTTT-TTGACTTGTGGTGTTGTCCTG
*
13736713 ATCATCTTTATTTTTTGAC
1 ATCATATTTATTTTTTGAC
13736732 CTACAGTGTT
Statistics
Matches: 304, Mismatches: 86, Indels: 36
0.71 0.20 0.08
Matches are distributed among these distances:
34 8 0.03
35 190 0.62
36 100 0.33
37 6 0.02
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (35 bp):
ATCATATTTATTTTTTGACTTGTGGTGTTGTCCTG
Found at i:13736530 original size:142 final size:140
Alignment explanation
Indices: 13736279--13736557 Score: 341
Period size: 142 Copynumber: 2.0 Consensus size: 140
13736269 GGACCTATAG
* **
13736279 TGTTATCTCAATCATCTTTATTTTTTGACTTATGGTGTTGTCTTGATCATATTTATTTTTAGACC
1 TGTTATCTCAATCATCTTTATTTTTTGACTTATGGTGTTGTCCTGATCATATTTATTTCCAGACC
* * * * *
13736344 TGTGGTGTTGTCCCGATCATATTGTTTTTTCGACTTGTCATGTTGTCCCAGTCATTTTTATATTT
66 TGTGGTGTTGTCCCGATCATATTGTTTTTTCAACCTGACATGTTGTCCCAATCATCTTTAT-TTT
*
13736409 TTTACTTGCAA
130 TTAACTTGCAA
* *
13736420 TGTTATCTCGATCATCTTTATTGTTTTGACTTATGGTGTTGTCCTGATCATATTTGTTTCCCA-A
1 TGTTATCTCAATCATCTTTATT-TTTTGACTTATGGTGTTGTCCTGATCATATTTATTT-CCAGA
* * * *
13736484 CCAT-TGGTGTTGTCTCGATCATCTT-TATTTTTCAACCT-ACGGTGTTGTCTCAATCATCTTTA
64 CC-TGTGGTGTTGTCCCGATCATATTGT-TTTTTCAACCTGAC-ATGTTGTCCCAATCATCTTTA
13736546 TTTTTTAACTTG
126 TTTTTTAACTTG
13736558 TGGTGCTGCC
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
141 33 0.28
142 83 0.70
143 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.15, T:0.51
Consensus pattern (140 bp):
TGTTATCTCAATCATCTTTATTTTTTGACTTATGGTGTTGTCCTGATCATATTTATTTCCAGACC
TGTGGTGTTGTCCCGATCATATTGTTTTTTCAACCTGACATGTTGTCCCAATCATCTTTATTTTT
TAACTTGCAA
Found at i:13736530 original size:212 final size:212
Alignment explanation
Indices: 13736278--13736761 Score: 514
Period size: 212 Copynumber: 2.3 Consensus size: 212
13736268 TGGACCTATA
* * * **
13736278 GTGTTATCTCAATCATCTTTATTTTTTGACTTATGGTGTTGTCTTGATCATATTTA-TTTTTAGA
1 GTGTTATCTCGATCATCTTTATTTTTTGACCTACGGTGTTGTCTCAATCATATTTATTTTTTA-A
* * * * * * *
13736342 CCTGTGGTGTTGTCCCGATCATATTGT-TTTTTCGACTTGTCA-TGTTGTCCCAGTCATTTTTAT
65 CCTGTGGTGCTGCCCCAATCATATT-TCTTTTTCGACCTGT-AGTATTGTCCCAATCATCTTTAT
* * * * *
13736405 ATTTT-TTACTTGCAATGTTATCTCGATCATCTTTATTGTTTTGA-CTTATGGTGTTGTCCTGAT
128 -TTTTATGACATGCAATGTTATCTCGATCATCTTTATT-CTCTAATC-TATGGTGTTGTCCTGAT
13736468 CATATTTG-TTTCCCAACCAT-TG
190 CATATTTGTTTTCCCAA-CATATG
* ** *
13736490 GTGTTGTCTCGATCATCTTTATTTTTCAACCTACGGTGTTGTCTCAATCATCTTTATTTTTTAAC
1 GTGTTATCTCGATCATCTTTATTTTTTGACCTACGGTGTTGTCTCAATCATATTTATTTTTTAAC
* * *
13736555 TTGTGGTGCTGCCCCAATCATATTTCTTTTTTGACCTGTAGTATTGTCTCAATCATCTTTATTTT
66 CTGTGGTGCTGCCCCAATCATATTTCTTTTTCGACCTGTAGTATTGTCCCAATCATCTTTATTTT
** * * * *
13736620 TATGACATGTTATGTTATCTTGGTCATCTTTATTCTCTAATCTGTGGTGTTGTCCTGGTCATATT
131 TATGACATGCAATGTTATCTCGATCATCTTTATTCTCTAATCTATGGTGTTGTCCTGATCATATT
* **
13736685 TGTTTTCCTAATTTATG
196 TGTTTTCCCAACATATG
* * * * *
13736702 GTGTTATCCCGATCATCTTTATTTTTTGACCTACAGTGTTATCTCAGTCATCTTTATTTT
1 GTGTTATCTCGATCATCTTTATTTTTTGACCTACGGTGTTGTCTCAATCATATTTATTTT
13736762 CCTAACTTAT
Statistics
Matches: 225, Mismatches: 40, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
211 33 0.15
212 186 0.83
213 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (212 bp):
GTGTTATCTCGATCATCTTTATTTTTTGACCTACGGTGTTGTCTCAATCATATTTATTTTTTAAC
CTGTGGTGCTGCCCCAATCATATTTCTTTTTCGACCTGTAGTATTGTCCCAATCATCTTTATTTT
TATGACATGCAATGTTATCTCGATCATCTTTATTCTCTAATCTATGGTGTTGTCCTGATCATATT
TGTTTTCCCAACATATG
Found at i:13736921 original size:109 final size:107
Alignment explanation
Indices: 13736420--13736944 Score: 287
Period size: 106 Copynumber: 4.9 Consensus size: 107
13736410 TTACTTGCAA
* * * * * * *
13736420 TGTTATCTCGATCATCTTTATTGTT-TTGACTTATGGTGTTGTCC-TGATCATATTTG-TTTCCC
1 TGTTATCCCAATCATCTTTATT-TTCCTAACTTATGGTGTTGTCCAAG-TTATATTTGTTTTCCA
* ** *
13736482 AACCATTGGTGTTGT-CTCGATCATCTTTATTTTTCAACCTACGG
64 AACCATCGGTGTTGTCCT-GATCATCTTTATTTTTTGACCTACAG
* * * * * * * * ***
13736526 TGTTGTCTCAATCATCTTTATTTT-TTAACTTGTGGTGCTGCCCCAA-TCATATTTCTTTT-TTG
1 TGTTATCCCAATCATCTTTATTTTCCTAACTTATGGTGTTG-TCCAAGTTATATTTGTTTTCCAA
* * * **
13736588 ACC-T-GTAGTATTGT-CTCAATCATCTTTATTTTTATGACATGTTA-
65 ACCATCG--GTGTTGTCCT-GATCATCTTTATTTTT-TGACCT-ACAG
**** * * ** *
13736632 TGTTATCTTGGTCATCTTTATTCT-CTAA-TCTGTGGTGTTGTCCTGGTCATATTTGTTTTCCTA
1 TGTTATCCCAATCATCTTTATTTTCCTAACT-TATGGTGTTGTCCAAGTTATATTTGTTTTCC-A
*** * *
13736695 ATTTAT-GGTGTTATCCCGATCATCTTTATTTTTTGACCTACAG
64 AACCATCGGTGTTGTCCTGATCATCTTTATTTTTTGACCTACAG
* * *
13736738 TGTTATCTCAGTCATCTTTATTTTCCTAACTTATGGTGTTGTCCTAGTTATATTTGTTTTCCAAA
1 TGTTATCCCAATCATCTTTATTTTCCTAACTTATGGTGTTGTCCAAGTTATATTTGTTTTCCAAA
*
13736803 CCATTGGTGTTGTCCTGATCATCTTTATTCTTTTGACCTAC-G
66 CCATCGGTGTTGTCCTGATCATCTTTATT-TTTTGACCTACAG
** * *
13736845 ATGTTGA-CCCAATCATCTTTATTTTTTTCAAGTTGA-GGTGTTGTCCAAGTTATATTTGTTTTT
1 -TGTT-ATCCCAATCATCTTTATTTTCCT-AACTT-ATGGTGTTGTCCAAGTTATATTTGTTTTC
***
13736908 TTGA-CATACGGTGTTGTCCT-AGTCATCTTTATTTTTT
62 CAAACCAT-CGGTGTTGTCCTGA-TCATCTTTATTTTTT
13736945 TAACTTGTAG
Statistics
Matches: 330, Mismatches: 65, Indels: 46
0.75 0.15 0.10
Matches are distributed among these distances:
103 1 0.00
104 1 0.00
105 54 0.16
106 101 0.31
107 75 0.23
108 42 0.13
109 55 0.17
110 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (107 bp):
TGTTATCCCAATCATCTTTATTTTCCTAACTTATGGTGTTGTCCAAGTTATATTTGTTTTCCAAA
CCATCGGTGTTGTCCTGATCATCTTTATTTTTTGACCTACAG
Found at i:13737702 original size:145 final size:144
Alignment explanation
Indices: 13737479--13737804 Score: 367
Period size: 145 Copynumber: 2.3 Consensus size: 144
13737469 TAAAAGTACT
* * * *
13737479 AAAATATCCCTTTAGGGGTATTTTCGT-ATATGGCCTTCCTGAGTTCAAATTTTCATGAAAGTTT
1 AAAATA-CCCTTTAGAGGTATTTTCATAATTTGGCCTTCCTGAGTTCAAATTTTCATGAAACTTT
* * * * * ** *
13737543 TTAGACTTTAATTTCATAATATTTCTTGATTTTTGGTATATTTGAAATCATAGTAGTACCCT-GA
65 CTAGACTTTAATTTCAGAATATTTCATGATTATTGGTATATTTGAAATCAAAACAGTA-CCTAAA
* *
13737607 AAGGTGTGATATTACC
129 AAAGTGTGAAATTACC
* *
13737623 AAAATACCCCTTTAGAGGTATTTTTATAATTTGGCCTTCCCT-AGCTT-AGATTTTCATGAAACT
1 AAAATA-CCCTTTAGAGGTATTTTCATAATTTGGCCTT-CCTGAG-TTCAAATTTTCATGAAACT
* * *
13737686 TTCTAGA-TCTTAATTTCAGAATATTTCATGATTATTGGTGTGTTTGAAATCAAAACGGTACCTA
63 TTCTAGACT-TTAATTTCAGAATATTTCATGATTATTGGTATATTTGAAATCAAAACAGTACCTA
13737750 AAAAAGTGTGAAATTACC
127 AAAAAGTGTGAAATTACC
*
13737768 AAAATACCCTTTA-AGGGTATTTTCATAATTTGACCTT
1 AAAATACCCTTTAGA-GGTATTTTCATAATTTGGCCTT
13737805 TTCGAACTTG
Statistics
Matches: 154, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
143 1 0.01
144 54 0.35
145 94 0.61
146 5 0.03
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.40
Consensus pattern (144 bp):
AAAATACCCTTTAGAGGTATTTTCATAATTTGGCCTTCCTGAGTTCAAATTTTCATGAAACTTTC
TAGACTTTAATTTCAGAATATTTCATGATTATTGGTATATTTGAAATCAAAACAGTACCTAAAAA
AGTGTGAAATTACC
Found at i:13740425 original size:3 final size:3
Alignment explanation
Indices: 13740417--13740471 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
13740407 TGTCATAAAC
13740417 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13740465 TAT TAT T
1 TAT TAT T
13740472 GATGCAATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13758564 original size:47 final size:47
Alignment explanation
Indices: 13758496--13758589 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
13758486 TTGACATAAG
*
13758496 AATAAATAAGTATTATGTGTGTTATATCTTCAATTCTAACAGTAGGA
1 AATAAATAAGTATTATGTGTGTTATATCTTCAATTCTAACACTAGGA
13758543 AATAAATAAGTATTATGTGTGTTATATCTTCAATTCTAACACTAGGA
1 AATAAATAAGTATTATGTGTGTTATATCTTCAATTCTAACACTAGGA
13758590 GTTGTGGTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (47 bp):
AATAAATAAGTATTATGTGTGTTATATCTTCAATTCTAACACTAGGA
Found at i:13759917 original size:42 final size:41
Alignment explanation
Indices: 13759808--13759927 Score: 122
Period size: 38 Copynumber: 3.0 Consensus size: 41
13759798 AAATGACTAA
* * *
13759808 AATAAAGTAAAAATTTTAGTACACATATTAAAGAGAAAAATT
1 AATAAAGT-AAAATTTTAATACACTTATTAAAGATAAAAATT
** *
13759850 -A-AACTTGAAAA--TTAATAGACTTATTAAAGATAAAAATT
1 AATAAAGT-AAAATTTTAATACACTTATTAAAGATAAAAATT
*
13759888 AATAAAGTACAAATTTTAATACACTTATTACAGATAAAAA
1 AATAAAGTA-AAATTTTAATACACTTATTAAAGATAAAAA
13759928 CTGATACAAC
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
38 23 0.37
39 2 0.03
40 13 0.21
41 1 0.02
42 23 0.37
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (41 bp):
AATAAAGTAAAATTTTAATACACTTATTAAAGATAAAAATT
Found at i:13762219 original size:145 final size:145
Alignment explanation
Indices: 13761937--13762277 Score: 411
Period size: 145 Copynumber: 2.4 Consensus size: 145
13761927 TTAAAACATC
* * * ** *
13761937 AAAAGTCATGAAATATTATAAAATTGAGATTTGGAAAGTTTCACAAAAATCTAAGCTCAGAAAGA
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCTAAACTCAGAAAGA
* * * * *
13762002 TCAAATTATAAAAATACCCTTACAGGAGTATTTAAGTAATTTCACACTTTTCAGGGTACTAATGT
66 TCAAATTACAAAAATACCCTTAAAGGAGTATTTAAGTAATTGCACACTTCTCAGGGTACTAATAT
13762067 GAGTTCAAATGCACA
131 GAGTTCAAATGCACA
* * *
13762082 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAGAAAG
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCTAAACTC-AGAAAG
* * *
13762147 AT-AAATTACAAAAATATCCTTATAAGG-GTATTT-TGATAATTGCACACTTCTC-GGGATACTG
65 ATCAAATTACAAAAATACCCTTA-AAGGAGTATTTAAG-TAATTGCACACTTCTCAGGG-TACTA
* * * *
13762208 CTATTATTTCAAATGCACC
127 ATATGAGTTCAAATGCACA
* *
13762227 AAAAATAATGAAATATTATAAAATTAGGATTTGAAAAGTTTCATGAAAATC
1 AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATC
13762278 CGAGTTCGGG
Statistics
Matches: 166, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
144 4 0.02
145 151 0.91
146 11 0.07
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (145 bp):
AAAAATCATGAAATATTATAAAATTAAGATTTGAAAAGTTTCATGAAAATCTAAACTCAGAAAGA
TCAAATTACAAAAATACCCTTAAAGGAGTATTTAAGTAATTGCACACTTCTCAGGGTACTAATAT
GAGTTCAAATGCACA
Found at i:13762332 original size:145 final size:145
Alignment explanation
Indices: 13761944--13762332 Score: 410
Period size: 145 Copynumber: 2.7 Consensus size: 145
13761934 ATCAAAAGTC
* ** *
13761944 ATGAAATATTATAAAATT-GAGATTTGGAAAGTTTCACAAAAATCTAAGCTCAGAAAGATCAAAT
1 ATGAAATATTATAAAATTAG-GATTTGAAAAGTTTCATGAAAATCTAAGCTCGGAAAGATCAAAT
* * * * *
13762008 TATAAAAATACCCTTACAGGAGTATTTAAGTAATTTCACACTTTTCAGGGTACTAATGTGAGTTC
65 TATAAAAATACCCTTACAAGAGTATTTTAGTAATTGCACACTTCTCAGGGTACTAATATGAGTTC
*
13762073 AAATGCACAAAAAATC
130 AAATGCACAAAAAATA
* * * * *
13762089 ATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAGAAAGAT-AAAT
1 ATGAAATATTATAAAATTAGGATTTGAAAAGTTTCATGAAAATCTAAGCTCG-GAAAGATCAAAT
* * * * ** * *
13762153 TACAAAAATATCCTTATAAGGGTATTTT-GATAATTGCACACTTCTC-GGGATACTGCTATTATT
65 TATAAAAATACCCTTACAAGAGTATTTTAG-TAATTGCACACTTCTCAGGG-TACTAATATGAGT
*
13762216 TCAAATGCACCAAAAATA
128 TCAAATGCACAAAAAATA
** * * *
13762234 ATGAAATATTATAAAATTAGGATTTGAAAAGTTTCATGAAAATCCGAGTTCGGGAAGGTCAAATT
1 ATGAAATATTATAAAATTAGGATTTGAAAAGTTTCATGAAAATCTAAGCTCGGAAAGATCAAATT
* * *
13762299 ATGAAAATACCCCTTA-AAAAGCATTTTAGTAATT
66 ATAAAAATA-CCCTTACAAGAGTATTTTAGTAATT
13762333 TTGTACTTCC
Statistics
Matches: 197, Mismatches: 40, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
144 9 0.05
145 175 0.89
146 13 0.07
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (145 bp):
ATGAAATATTATAAAATTAGGATTTGAAAAGTTTCATGAAAATCTAAGCTCGGAAAGATCAAATT
ATAAAAATACCCTTACAAGAGTATTTTAGTAATTGCACACTTCTCAGGGTACTAATATGAGTTCA
AATGCACAAAAAATA
Found at i:13765222 original size:15 final size:16
Alignment explanation
Indices: 13765202--13765251 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
13765192 TTGCTTTTGC
13765202 TTTTG-TTTTTGTTTT
1 TTTTGTTTTTTGTTTT
13765217 TTTTGTTTTTTGTTTT
1 TTTTGTTTTTTGTTTT
*
13765233 TGTTT-TTCTTTTCTTTT
1 T-TTTGTT-TTTTGTTTT
13765250 TT
1 TT
13765252 CTTTTTTCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 12 0.39
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (16 bp):
TTTTGTTTTTTGTTTT
Found at i:13765250 original size:12 final size:11
Alignment explanation
Indices: 13765202--13765289 Score: 61
Period size: 12 Copynumber: 7.5 Consensus size: 11
13765192 TTGCTTTTGC
*
13765202 TTTTGTTTTTGT
1 TTTTCTTTTT-T
*
13765214 TTTT-TTTGTT
1 TTTTCTTTTTT
*
13765224 TTTTGTTTTTGT
1 TTTTCTTTTT-T
13765236 TTTTCTTTTCTT
1 TTTTCTTTT-TT
13765248 TTTTCTTTTTT
1 TTTTCTTTTTT
*
13765259 CTCTTCATTTTTGT
1 -TTTTC-TTTTT-T
*
13765273 TTTTCCCTTTTT
1 TTTT-CTTTTTT
13765285 TTTTC
1 TTTTC
13765290 AATTTCCCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
10 5 0.08
11 11 0.17
12 32 0.51
13 13 0.21
14 2 0.03
ACGTcount: A:0.01, C:0.11, G:0.07, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:13765276 original size:6 final size:6
Alignment explanation
Indices: 13765190--13765257 Score: 61
Period size: 6 Copynumber: 11.7 Consensus size: 6
13765180 ACTTTATTGC
* * *
13765190 TTTTGC TTTTGC TTTTGT TTTTGT TTTT-T TTGT-T TTTTGT TTTTGT
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT
* *
13765236 TTTTCT TTTCT-T TTTTCT TTTT
1 TTTTGT TTT-TGT TTTTGT TTTT
13765258 TCTCTTCATT
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
5 9 0.16
6 45 0.82
7 1 0.02
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.82
Consensus pattern (6 bp):
TTTTGT
Found at i:13765276 original size:7 final size:7
Alignment explanation
Indices: 13765202--13765239 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
13765192 TTGCTTTTGC
13765202 TTTTGTT
1 TTTTGTT
*
13765209 TTTGTTTT
1 TTT-TGTT
13765217 TTTTGTT
1 TTTTGTT
13765224 TTTTG-T
1 TTTTGTT
13765230 TTTTGTT
1 TTTTGTT
13765237 TTT
1 TTT
13765240 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.22
7 15 0.56
8 6 0.22
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:13770969 original size:144 final size:144
Alignment explanation
Indices: 13770589--13770976 Score: 401
Period size: 144 Copynumber: 2.7 Consensus size: 144
13770579 ACACCAGAAC
* * * * **
13770589 TCATGAAGTATTATAAAATTGAGATCTGAAAACTTTTATG-AAATTCGAGCTTGGGAAGATCAAA
1 TCATGAAATATTATTAAATTAAGATCTGAAAACTTTCATGAAAATTCGAGCTTGAAAAGATCAAA
* * * *
13770653 TTATAAAAATACCCCTATTAAAGTATTTTAATAATTCCACACTTCTTAGGATATTGCTATGATTT
66 TTATGAAAATACCCCTA-AAAAGTATTTTAATAATTACACACTTCTTAGGATACTGCTATGATTT
13770718 CAAATGCACAAAAAA
130 CAAATGCACAAAAAA
* * *
13770733 TCATGAAATATTA-TAAATTAAGATCTCAAAAGTTTCATGAAAA-TCTGAGCTCGAGAAAGAT-A
1 TCATGAAATATTATTAAATTAAGATCTGAAAACTTTCATGAAAATTC-GAGCTTGA-AAAGATCA
* ** * ** * * * *
13770795 AATTACGAAAATACCTTTTTAAGGGTATTTTGATAATTACACA-TTTTTAGGGGTACTGCTGTGA
64 AATTATGAAAATACC-CCTAAAAAGTATTTTAATAATTACACACTTCTTA-GGATACTGCTATGA
* *
13770859 TTTTAAATGCACTAAAAA
127 TTTCAAATGCACAAAAAA
* * * *
13770877 TTATTAAATATTATTAAATTAAGATTTGGAAAA-TTTCATGAAAATTCAAGCTTGAAAAGATCAA
1 TCATGAAATATTATTAAATTAAGATCT-GAAAACTTTCATGAAAATTCGAGCTTGAAAAGATCAA
* *
13770941 ATTATGAAAATACCCCTAAAAAGCATTTTAGTAATT
65 ATTATGAAAATACCCCTAAAAAGTATTTTAATAATT
13770977 TTGTACTTCC
Statistics
Matches: 195, Mismatches: 40, Indels: 18
0.77 0.16 0.07
Matches are distributed among these distances:
143 28 0.14
144 111 0.57
145 50 0.26
146 6 0.03
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (144 bp):
TCATGAAATATTATTAAATTAAGATCTGAAAACTTTCATGAAAATTCGAGCTTGAAAAGATCAAA
TTATGAAAATACCCCTAAAAAGTATTTTAATAATTACACACTTCTTAGGATACTGCTATGATTTC
AAATGCACAAAAAA
Found at i:13771741 original size:106 final size:106
Alignment explanation
Indices: 13771552--13771750 Score: 267
Period size: 106 Copynumber: 1.9 Consensus size: 106
13771542 AATTAAAATA
* * * *
13771552 AGAGATCATGCCCAAAGGTCTTACAAGTTTCAAAATTAAAATAGATTCAACTTAGGAGACTTAAG
1 AGAGATCATGCCCAAAGGTCTTACAAATCTCAAAATTAAAACAGATTCAACTTAGAAGACTTAAG
* *
13771617 AATCTTACCTAGAAGACTTATAGATTATGTGAAAAGGTTTT
66 AATCCTACCTAGAAGACTTAAAGATTATGTGAAAAGGTTTT
* * **
13771658 AGAGATTATGCCCAGAA-GTCTTACAAATCTCAAAGTTAAAACAGATTCGGCTT-GAAAGACTTA
1 AGAGATCATGCCCA-AAGGTCTTACAAATCTCAAAATTAAAACAGATTCAACTTAG-AAGACTTA
*
13771721 AGAATCCTACCTAGAGGACTTAAAGATTAT
64 AGAATCCTACCTAGAAGACTTAAAGATTAT
13771751 ACTCGGAGGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
105 1 0.01
106 77 0.96
107 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (106 bp):
AGAGATCATGCCCAAAGGTCTTACAAATCTCAAAATTAAAACAGATTCAACTTAGAAGACTTAAG
AATCCTACCTAGAAGACTTAAAGATTATGTGAAAAGGTTTT
Found at i:13771974 original size:126 final size:125
Alignment explanation
Indices: 13771739--13772071 Score: 381
Period size: 126 Copynumber: 2.6 Consensus size: 125
13771729 ACCTAGAGGA
* * *
13771739 CTTAAAGATTAT-ACTCGGAGGTCTTACAAATCTCAAAAGCTTTGAATGCTCCTCATAATAGAGG
1 CTTAAAGATTATGCCT-AGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATAGAGG
*
13771803 CATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAAGTCTTGAAGATT-GTCTCT-AAAGGT
65 CATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAAGTCTTGAAAATTAG-CT-TGAAA-GT
* *
13771865 CTTAAAGATTATGCCCTTA-A-GTCTTACAAATCTCAAAATCTTTCAATGCTCCTCATAATGGAG
1 CTTAAAGATTATG-CC-TAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATAGAG
* * * * * *
13771928 GCATTGAAACTTTGAAAATTTAAAATGTTTTGTCC-AGAGGTTTTGAAAATTAAGCTTGGAAGT
64 GCATTGAAACTTTAAAAATTTAAAATATTTT-ACCTAGAAGTCTTGAAAATT-AGCTTGAAAGT
* * **
13771991 CTTAAAGATTATGCCTAGAGGTCTTACAAATCTAAAAAATCTTTGAATACTCCTTGTAATAGAGG
1 CTTAAAGATTATGCCTAGAGGTCTTACAAATCT-CAAAATCTTTGAATGCTCCTCATAATAGAGG
**
13772056 CATTGAAGTTTTAAAA
65 CATTGAAACTTTAAAA
13772072 GCTTTTATTT
Statistics
Matches: 176, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
124 2 0.01
125 3 0.02
126 123 0.70
127 45 0.26
128 2 0.01
129 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (125 bp):
CTTAAAGATTATGCCTAGAGGTCTTACAAATCTCAAAATCTTTGAATGCTCCTCATAATAGAGGC
ATTGAAACTTTAAAAATTTAAAATATTTTACCTAGAAGTCTTGAAAATTAGCTTGAAAGT
Found at i:13772271 original size:37 final size:37
Alignment explanation
Indices: 13772199--13772294 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
13772189 ATTGTTCATT
*
13772199 CTAAATAGAGGTTTTG-AACTTTGAAAATAACTCCCC
1 CTAAATAGAGGATTTGAAACTTTGAAAATAACTCCCC
* ***
13772235 CTAAACAGAGGATTTGAAACTTTGAAAATGGTTCCCC
1 CTAAATAGAGGATTTGAAACTTTGAAAATAACTCCCC
* *
13772272 CTAAATAGAAGCTTTGAAACTTT
1 CTAAATAGAGGATTTGAAACTTT
13772295 TTTAAAATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 14 0.27
37 37 0.73
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (37 bp):
CTAAATAGAGGATTTGAAACTTTGAAAATAACTCCCC
Found at i:13772330 original size:90 final size:90
Alignment explanation
Indices: 13772218--13772384 Score: 226
Period size: 90 Copynumber: 1.9 Consensus size: 90
13772208 GGTTTTGAAC
* * * *
13772218 TTTGAAAATAACTCCCCCTAAACAGAGGATTTGAAACTTTGAAAATGGTTCCCCCTAAATAGAAG
1 TTTGAAAATAACTCCCCCTAAACAAAAGATTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAAG
13772283 CTTTGAAACTTTTTTAAAATTCTTA
66 CTTTGAAACTTTTTTAAAATTCTTA
** ** * * **
13772308 TTTGAAAATTGCTCCCTTTAAACAAAAGTTTTGAAACTTTAAAAATGGCTGCCCCTAAATAGTGG
1 TTTGAAAATAACTCCCCCTAAACAAAAGATTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAAG
13772373 CTTTGAAACTTT
66 CTTTGAAACTTT
13772385 GAAAATGGCT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (90 bp):
TTTGAAAATAACTCCCCCTAAACAAAAGATTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAAG
CTTTGAAACTTTTTTAAAATTCTTA
Found at i:13772378 original size:37 final size:37
Alignment explanation
Indices: 13772337--13772426 Score: 135
Period size: 37 Copynumber: 2.4 Consensus size: 37
13772327 AAACAAAAGT
* *
13772337 TTTGAAACTTTAAAAATGGCTGCCCCTAAATAGTGGC
1 TTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAGGC
*
13772374 TTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGC
1 TTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAGGC
*
13772411 TTTGAAAGTTCTAAAA
1 TTTGAAACTT-TAAAA
13772427 CAAAAATCTT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
37 43 0.91
38 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (37 bp):
TTTGAAACTTTAAAAATGGCTCCCCCTAAATAGAGGC
Found at i:13772390 original size:127 final size:129
Alignment explanation
Indices: 13772130--13772519 Score: 416
Period size: 127 Copynumber: 3.1 Consensus size: 129
13772120 AATGCTCTTG
* * * * ***
13772130 TTTGAAAATGGCTTCCCTTAAATAGAGGCTTTGAAACTT-T-AA-AAAAATCTTGTACAAAAATT
1 TTTGAAAATGGCTCCCCCTAAATAGAAGCTTTGAAACTTCTAAACAAAAATCTTATTTGAAAATT
* ** * * * ** *
13772192 GTTCATTCTAAATAGAGGTTTTG-AACTTTGAAAATAACTCCCCCTAAACAGAGGATTTGAAAC
66 GCTCCCTCTAAACAAAAGTTTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGATTTGAAAC
* *** *
13772255 TTTGAAAATGGTTCCCCCTAAATAGAAGCTTTGAAACTT-T-TTTAAAATTCTTATTTGAAAATT
1 TTTGAAAATGGCTCCCCCTAAATAGAAGCTTTGAAACTTCTAAACAAAAATCTTATTTGAAAATT
* * * * *
13772318 GCTCCCTTTAAACAAAAGTTTTGAAACTTTAAAAATGGCTGCCCCTAAATAGTGGCTTTGAAAC
66 GCTCCCTCTAAACAAAAGTTTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGATTTGAAAC
* * *
13772382 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAAGTTCTAAAACAAAAATCTTGTTTGAAAAT
1 TTTGAAAATGGCTCCCCCTAAATAGAAGCTTTGAAACTTCT-AAACAAAAATCTTATTTGAAAAT
* * **
13772447 TGCTCCCTCTAAACAGAGGTTTTGAAACTTTGAAAATGGCTCCCCCTAAATAGA-TTTTTGAAAC
65 TGCTCCCTCTAAACAAAAGTTTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGATTTGAAAC
*
13772511 TTTAAAAAT
1 TTTGAAAAT
13772520 CTTGTTTTTC
Statistics
Matches: 218, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
125 36 0.17
126 31 0.14
127 69 0.32
128 1 0.00
129 16 0.07
130 65 0.30
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.33
Consensus pattern (129 bp):
TTTGAAAATGGCTCCCCCTAAATAGAAGCTTTGAAACTTCTAAACAAAAATCTTATTTGAAAATT
GCTCCCTCTAAACAAAAGTTTTGAAACTTTGAAAATGGCTCCCCCTAAATAGAGGATTTGAAAC
Found at i:13772513 original size:36 final size:37
Alignment explanation
Indices: 13772438--13772519 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
13772428 AAAAATCTTG
* *
13772438 TTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAGAGGTTTTGAAAC
* *
13772475 TTTGAAAATGGCTCCCCCTAAATAGA-TTTTTGAAAC
1 TTTGAAAATGGCTCCCCCTAAACAGAGGTTTTGAAAC
*
13772511 TTTAAAAAT
1 TTTGAAAAT
13772520 CTTGTTTTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.34
Consensus pattern (37 bp):
TTTGAAAATGGCTCCCCCTAAACAGAGGTTTTGAAAC
Found at i:13776654 original size:14 final size:14
Alignment explanation
Indices: 13776635--13776662 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13776625 ATCTTCTTAC
13776635 AATACCCTGACTTT
1 AATACCCTGACTTT
13776649 AATACCCTGACTTT
1 AATACCCTGACTTT
13776663 GGTTTTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (14 bp):
AATACCCTGACTTT
Found at i:13777866 original size:3 final size:3
Alignment explanation
Indices: 13777858--13777894 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
13777848 TTCATTTCCC
13777858 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
13777895 GCCATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:13780679 original size:21 final size:21
Alignment explanation
Indices: 13780645--13780689 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
13780635 TTCCCTTTTT
* * *
13780645 CTCTTTTTTTTTTTTTGCAGA
1 CTCTTCTTTCTTTTTGGCAGA
13780666 CTCTTCTTTCTTTTTGGCAGA
1 CTCTTCTTTCTTTTTGGCAGA
13780687 CTC
1 CTC
13780690 CCTATTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.22, G:0.11, T:0.58
Consensus pattern (21 bp):
CTCTTCTTTCTTTTTGGCAGA
Found at i:13781492 original size:144 final size:142
Alignment explanation
Indices: 13781121--13781503 Score: 396
Period size: 144 Copynumber: 2.7 Consensus size: 142
13781111 TATTTTTGGA
* * * * * * * * *
13781121 ATTTTAAA-ACACAAAAAATGATAAAATATTATAAAATTGAGATTTGCAAAGTTTAATGCAAATT
1 ATTTAAAATACACCAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTCATGAAAATT
* * *
13781185 CGAGCTCGAGAAGGTCAAAGTACAAAAATACCCTTATGGGGTATTTTAGTAATTTTTCACTTTTT
66 -GAGCTCGAGAAGGTCAAATTACAAAAATACACTTATAGGGTATTTTAGTAA-TTTTCACTTTTT
13781250 GAGGTACTACTATG
129 GAGGTACTACTATG
* * *
13781264 ATTTAAAATACACCAAAAATCATGAAATATTATGAAAATAAG-TTCTAAAAAATTTCATGAAAAT
1 ATTTAAAATACACCAAAAATCATGAAATATTATGAAATTAAGATT-TGAAAAGTTTCATGAAAA-
* * *
13781328 TTGATCTCGAAAAGGACAAATTACAAAAATACACTTATAAGGGTATTTTAGTAA-TTTCACATTT
64 TTGAGCTCGAGAAGGTCAAATTACAAAAATACACTTAT-AGGGTATTTTAGTAATTTTCAC-TTT
* * ** *
13781392 TTGGGGTATTGTTGTG
127 TTGAGGTACTACTATG
* * * *
13781408 ATTTCAAATGCACTAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTCATAAAAATC
1 ATTTAAAATACACCAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTCATGAAAAT-
* **
13781473 TGAGCT-TATGAAGGTCAAATTAGGAAAATAC
65 TGAGCTCGA-GAAGGTCAAATTACAAAAATAC
13781504 CCCTTAAAAG
Statistics
Matches: 196, Mismatches: 36, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
143 17 0.09
144 161 0.82
145 18 0.09
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (142 bp):
ATTTAAAATACACCAAAAATCATGAAATATTATGAAATTAAGATTTGAAAAGTTTCATGAAAATT
GAGCTCGAGAAGGTCAAATTACAAAAATACACTTATAGGGTATTTTAGTAATTTTCACTTTTTGA
GGTACTACTATG
Found at i:13782582 original size:3 final size:3
Alignment explanation
Indices: 13782574--13782635 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
13782564 TTTTAGATTT
* * * * *
13782574 ATG ATG ATG ATG ATT ATG ATA ATG ATG ATG ATT ATG ATA ACG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
*
13782622 ATG AAG ATG ATG AT
1 ATG ATG ATG ATG AT
13782636 CATAATAATA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:13782600 original size:18 final size:18
Alignment explanation
Indices: 13782577--13782623 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
13782567 TAGATTTATG
13782577 ATGATGATGATTATGATA
1 ATGATGATGATTATGATA
13782595 ATGATGATGATTATGATA
1 ATGATGATGATTATGATA
*
13782613 ACGATGATGAT
1 ATGATGATGAT
13782624 GAAGATGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.36
Consensus pattern (18 bp):
ATGATGATGATTATGATA
Found at i:13782643 original size:3 final size:3
Alignment explanation
Indices: 13782637--13782670 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
13782627 GATGATGATC
13782637 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13782671 ATGAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13783023 original size:12 final size:12
Alignment explanation
Indices: 13782998--13783065 Score: 64
Period size: 13 Copynumber: 5.3 Consensus size: 12
13782988 GTTGATAAAT
13782998 CCCTAAATTGAAA
1 CCCTAAA-TGAAA
13783011 CCCTAAATGAAA
1 CCCTAAATGAAA
*
13783023 CTCTAATATGAAA
1 CCCTAA-ATGAAA
* *
13783036 CCTTAAAATAAAA
1 CCCT-AAATGAAA
*
13783049 GCCCTTAATGAAA
1 -CCCTAAATGAAA
13783062 CCCT
1 CCCT
13783066 CGGTAAAAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
12 14 0.31
13 26 0.58
14 5 0.11
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (12 bp):
CCCTAAATGAAA
Found at i:13783116 original size:19 final size:20
Alignment explanation
Indices: 13783071--13783118 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
13783061 ACCCTCGGTA
13783071 AAAACC-AAAACCCTAGATG
1 AAAACCTAAAACCCTAGATG
* *
13783090 AAAA-CTAAAACCTTAGGT-
1 AAAACCTAAAACCCTAGATG
13783108 AAAACCTAAAA
1 AAAACCTAAAA
13783119 GTCCTAGGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (20 bp):
AAAACCTAAAACCCTAGATG
Found at i:13783190 original size:18 final size:19
Alignment explanation
Indices: 13783151--13783190 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
13783141 GAAAAAATCA
*
13783151 AAACCCTAGGTAAAACCCT
1 AAACCCTACGTAAAACCCT
*
13783170 AAACCCTACGTGAAA-CCT
1 AAACCCTACGTAAAACCCT
13783188 AAA
1 AAA
13783191 TGAGAAACCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.45, C:0.30, G:0.10, T:0.15
Consensus pattern (19 bp):
AAACCCTACGTAAAACCCT
Found at i:13787721 original size:3 final size:3
Alignment explanation
Indices: 13787713--13787741 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13787703 TTATAATAGC
13787713 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13787742 CAATTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:13792022 original size:22 final size:23
Alignment explanation
Indices: 13791997--13792042 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
13791987 TTTAGTACAC
*
13791997 GTATTAAAG-AGAAAAATAAAAT
1 GTATAAAAGTAGAAAAATAAAAT
* *
13792019 GTATAAAAGTATAGAAATAAAAT
1 GTATAAAAGTAGAAAAATAAAAT
13792042 G
1 G
13792043 ATTGAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (23 bp):
GTATAAAAGTAGAAAAATAAAAT
Found at i:13794404 original size:42 final size:41
Alignment explanation
Indices: 13794295--13794414 Score: 113
Period size: 38 Copynumber: 3.0 Consensus size: 41
13794285 AAATGACTAA
* * *
13794295 AATAAAGTAAAAATTTTAGTACACGTATTAAAGAGAAAAATT
1 AATAAAGT-AAAATTTTAATACACTTATTAAAGATAAAAATT
** *
13794337 -A-AACTTGAAAA--TTAATAGACTTATTAAAGATAAAAATT
1 AATAAAGT-AAAATTTTAATACACTTATTAAAGATAAAAATT
* *
13794375 AATAAAGTACAAATTTTAATACACTTATTACATATAAAAA
1 AATAAAGTA-AAATTTTAATACACTTATTAAAGATAAAAA
13794415 CTGATACAAC
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
38 23 0.38
39 2 0.03
40 13 0.21
41 1 0.02
42 22 0.36
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (41 bp):
AATAAAGTAAAATTTTAATACACTTATTAAAGATAAAAATT
Found at i:13799658 original size:12 final size:12
Alignment explanation
Indices: 13799641--13799718 Score: 60
Period size: 11 Copynumber: 6.7 Consensus size: 12
13799631 CACCACTTTA
13799641 TTGCTTTTGCTT
1 TTGCTTTTGCTT
13799653 TTGCTTTTGTCTT
1 TTGCTTTTG-CTT
*
13799666 TTG-TTTTTCTAT
1 TTGCTTTTGCT-T
*
13799678 TT--TTTTTCTT
1 TTGCTTTTGCTT
13799688 TT-CTTTT-CTTT
1 TTGCTTTTGC-TT
13799699 TTGCTTTTTGCTT
1 TTGC-TTTTGCTT
13799712 TT-CTTTT
1 TTGCTTTT
13799719 TGTTTTTCTT
Statistics
Matches: 58, Mismatches: 1, Indels: 15
0.78 0.01 0.20
Matches are distributed among these distances:
10 4 0.07
11 21 0.36
12 18 0.31
13 14 0.24
14 1 0.02
ACGTcount: A:0.01, C:0.14, G:0.09, T:0.76
Consensus pattern (12 bp):
TTGCTTTTGCTT
Found at i:13799685 original size:11 final size:10
Alignment explanation
Indices: 13799657--13799735 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 10
13799647 TTGCTTTTGC
*
13799657 TTTTGTCTTT
1 TTTTTTCTTT
13799667 TGTTTTTCTATT
1 T-TTTTTCT-TT
13799679 TTTTTTCTTT
1 TTTTTTCTTT
*
13799689 TCTTTTCTTT
1 TTTTTTCTTT
**
13799699 TTGCTT-TTT
1 TTTTTTCTTT
**
13799708 GCTTTTCTTTT
1 TTTTTTC-TTT
13799719 TGTTTTTCTTT
1 T-TTTTTCTTT
13799730 TTTTTT
1 TTTTTT
13799736 TCAATTTCCC
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
9 5 0.09
10 20 0.38
11 20 0.38
12 8 0.15
ACGTcount: A:0.01, C:0.11, G:0.06, T:0.81
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:13799707 original size:24 final size:24
Alignment explanation
Indices: 13799645--13799737 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
13799635 ACTTTATTGC
* *
13799645 TTTTGCTTTTGCTTTTGTCTTTTGT
1 TTTTG-TTTTGCTTTTTTCTTTTCT
* *
13799670 TTTTCTATT--TTTTTTCTTTTCT
1 TTTTGTTTTGCTTTTTTCTTTTCT
*
13799692 TTTCT-TTTTGCTTTTTGCTTTTCT
1 TTT-TGTTTTGCTTTTTTCTTTTCT
*
13799716 TTTTGTTTTTCTTTTTT-TTTTC
1 TTTTGTTTTGCTTTTTTCTTTTC
13799738 AATTTCCCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
22 17 0.30
23 7 0.12
24 28 0.50
25 4 0.07
ACGTcount: A:0.01, C:0.13, G:0.08, T:0.78
Consensus pattern (24 bp):
TTTTGTTTTGCTTTTTTCTTTTCT
Found at i:13799719 original size:6 final size:6
Alignment explanation
Indices: 13799644--13799737 Score: 74
Period size: 6 Copynumber: 16.2 Consensus size: 6
13799634 CACTTTATTG
* * * *
13799644 CTTTTG CTTTTG CTTTTGT C-TTTT GTTTTT CTATTT -TTTTT C-TTTT
1 CTTTTT CTTTTT CTTTT-T CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
13799690 C-TTTT CTTTTT GCTTTTT GC-TTTT CTTTTT GTTTTT CTTTTT -TTTTT
1 CTTTTT CTTTTT -CTTTTT -CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
13799737 C
1 C
13799738 AATTTCCCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
5 21 0.28
6 44 0.59
7 9 0.12
ACGTcount: A:0.01, C:0.14, G:0.07, T:0.78
Consensus pattern (6 bp):
CTTTTT
Found at i:13800703 original size:7 final size:8
Alignment explanation
Indices: 13800657--13800702 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
13800647 AATTAATAAT
*
13800657 TAAAATTT
1 TAAAATTA
13800665 TAAAAATTA
1 T-AAAATTA
13800674 -AAAATTA
1 TAAAATTA
13800681 TAAAATTA
1 TAAAATTA
13800689 TGAAAA-TA
1 T-AAAATTA
13800697 TAAAAT
1 TAAAAT
13800703 AAGGAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 11 0.33
8 12 0.36
9 10 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (8 bp):
TAAAATTA
Found at i:13805340 original size:144 final size:145
Alignment explanation
Indices: 13805030--13805369 Score: 418
Period size: 144 Copynumber: 2.4 Consensus size: 145
13805020 TTAAAACACC
* * ** * *
13805030 AAAAATCATCAAATATTATAAAATTGAGATCTGAAAAGTTTCACAAAAATCTGAGCTCGAAAAGA
1 AAAAATCATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAAAAGA
* * * * * * *
13805095 TGAAATTATAAAGATACCCTTATAGGAGTATTTTAATAATTTCACATTTTTTAGGGTACTAATGT
66 TGAAATTACAAAGATACCCTTATAGGAGTATTTTAATAATTGCACACTTCTCAGGATACTAACGT
13805160 GATTTCAAATGCACA
131 GATTTCAAATGCACA
* *
13805175 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAGAAGG
1 AAAAATCATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAACTCGA-AAAG
* * * **
13805240 AT-AAATTACAAA-ATATCCTTATAAGG-GTAATTTT-GTAATTGCACACTTCTCAGGATATTGC
65 ATGAAATTACAAAGATACCCTTAT-AGGAGT-ATTTTAATAATTGCACACTTCTCAGGATACTAA
13805301 CGTGATTTCAAATGCACA
128 CGTGATTTCAAATGCACA
* * *
13805319 AAAAATCATGAAATATTATGAAATTGGGATTTGAAAAGTTTCATGAAAATC
1 AAAAATCATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATC
13805370 CAAGCTCGGA
Statistics
Matches: 168, Mismatches: 24, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
144 93 0.55
145 70 0.42
146 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.31
Consensus pattern (145 bp):
AAAAATCATAAAATATTATGAAATTGAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAAAAGA
TGAAATTACAAAGATACCCTTATAGGAGTATTTTAATAATTGCACACTTCTCAGGATACTAACGT
GATTTCAAATGCACA
Found at i:13805417 original size:144 final size:145
Alignment explanation
Indices: 13805030--13805424 Score: 372
Period size: 144 Copynumber: 2.7 Consensus size: 145
13805020 TTAAAACACC
* * * ** ** * *
13805030 AAAAATCATCAAATATTATAAAATTGAGATCTGAAAAGTTTCACAAAAATCTGAGCTCGA-AAAG
1 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAGAAGG
* * ** * * * * * * * ***
13805094 ATGAAATTATAAAGATACCCTTATAGGAGT-ATTTTAATAATTTCACATTTTTTAGGGTACTAAT
66 AT-AAATTACAAA-ATACCCCTATAAAAGTAATTTTAGTAATTGCACACTTCTCAGGATATTGCC
13805158 GTGATTTCAAATGCACA
129 GTGATTTCAAATGCACA
*
13805175 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCTAAACTCGAGAAGG
1 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAGAAGG
* * **
13805240 ATAAATTACAAAATATCCTTATAAGGGTAATTTT-GTAATTGCACACTTCTCAGGATATTGCCGT
66 ATAAATTACAAAATACCCCTATAAAAGTAATTTTAGTAATTGCACACTTCTCAGGATATTGCCGT
13805304 GATTTCAAATGCACA
131 GATTTCAAATGCACA
* ** * *
13805319 AAAAATCATGAAATATTATGAAATTGGGATTTGAAAAGTTTCATGAAAATCCAAGCTCG-GAAAG
1 AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAG-AAG
* *
13805383 G-TCAAATTATGAAAATACCCCCTA-AAAAG-CATTTTAGTAATT
65 GAT-AAATTA-CAAAATA-CCCCTATAAAAGTAATTTTAGTAATT
13805425 TTGTACTTCC
Statistics
Matches: 209, Mismatches: 34, Indels: 14
0.81 0.13 0.05
Matches are distributed among these distances:
143 2 0.01
144 116 0.56
145 82 0.39
146 9 0.04
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.31
Consensus pattern (145 bp):
AAAAATCATAAAATATTATGAAATTAAGATCTGAAAAGTTTCATGAAAATCCAAACTCGAGAAGG
ATAAATTACAAAATACCCCTATAAAAGTAATTTTAGTAATTGCACACTTCTCAGGATATTGCCGT
GATTTCAAATGCACA
Found at i:13806164 original size:106 final size:106
Alignment explanation
Indices: 13805991--13806193 Score: 250
Period size: 106 Copynumber: 1.9 Consensus size: 106
13805981 GGAATTAAAA
* * * *
13805991 TAAGAGATCATGCCTAAAGGTCTTACAAGTCTCAAAATTAAAATAGATTCAACTTAGGAGACATA
1 TAAGAGATCATGCCCAAAGGTCTTACAAATCTCAAAATTAAAACAAATTCAACTTAGGAGACATA
* *
13806056 CGAATCTTAC-CTAGAAGACTTATAGATTATGCGACAAGATT
66 CGAATCCTACTC-AGAAGACTTAAAGATTATGCGACAAGATT
* * * * *
13806097 TAAGAGATTATGCCCAGAA-GTCTTACAAATCTCAAAGTTAAAACAAATTTAGCTT-GGAAGACT
1 TAAGAGATCATGCCCA-AAGGTCTTACAAATCTCAAAATTAAAACAAATTCAACTTAGG-AGACA
*
13806160 TACGAATCCTACTCAGAGGACTTAAAGATTATGC
64 TACGAATCCTACTCAGAAGACTTAAAGATTATGC
13806194 TCGGAGGTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
105 2 0.02
106 77 0.94
107 3 0.04
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (106 bp):
TAAGAGATCATGCCCAAAGGTCTTACAAATCTCAAAATTAAAACAAATTCAACTTAGGAGACATA
CGAATCCTACTCAGAAGACTTAAAGATTATGCGACAAGATT
Found at i:13806424 original size:22 final size:22
Alignment explanation
Indices: 13806399--13806456 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
13806389 TAAAATGTTT
* *
13806399 TGCCTAGAGGTCTTGGAA-ATTA
1 TGCCTAGAAGTCTT-AAAGATTA
13806421 TGCCT-GAAGTCTTAAAGATTA
1 TGCCTAGAAGTCTTAAAGATTA
*
13806442 TGCCCAGAAGTCTTA
1 TGCCTAGAAGTCTTA
13806457 CAAATCTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 2 0.06
21 15 0.48
22 14 0.45
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (22 bp):
TGCCTAGAAGTCTTAAAGATTA
Found at i:13806474 original size:125 final size:126
Alignment explanation
Indices: 13806180--13806478 Score: 401
Period size: 126 Copynumber: 2.4 Consensus size: 126
13806170 ACTCAGAGGA
* * * * * *
13806180 CTTAAAGATTATGCTCGGAGGTTTTACAAATCTC-AAAATCTTTGAATGTTCCTTATAATAGAGG
1 CTTAAAGATTATGCCCAGAAGTCTTACAAATCTCAAAAATCTTTGAATGCTCCTCATAATAGAGG
13806244 CACTGAAACTTTGAAAATTTAAAATATTTTACCTAGAGGTCTTGAAGATTTTATCCAAAGGT
66 CACTGAAACTTTGAAAATTTAAAATATTTTACCTAGAGGTCTTGAAGA-TTTATCCAAAGGT
* * * *
13806306 CTTAGAGATTATGCCTATAAGTCTTACAAATCTTAAAAATCTTTGAATGCTCCTCATAAT-GAGG
1 CTTAAAGATTATGCCCAGAAGTCTTACAAATCTCAAAAATCTTTGAATGCTCCTCATAATAGAGG
* * * *
13806370 CATTGAAACTTTGAAAATTTAAAATGTTTTGCCTAGAGGTCTTGGAA-A-TTATGCCTGAA-GT
66 CACTGAAACTTTGAAAATTTAAAATATTTTACCTAGAGGTCTT-GAAGATTTAT-CC-AAAGGT
13806431 CTTAAAGATTATGCCCAGAAGTCTTACAAATCTCAAAAATCTTTGAAT
1 CTTAAAGATTATGCCCAGAAGTCTTACAAATCTCAAAAATCTTTGAAT
13806479 ACTCATTGTA
Statistics
Matches: 151, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
124 4 0.03
125 48 0.32
126 73 0.48
127 26 0.17
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (126 bp):
CTTAAAGATTATGCCCAGAAGTCTTACAAATCTCAAAAATCTTTGAATGCTCCTCATAATAGAGG
CACTGAAACTTTGAAAATTTAAAATATTTTACCTAGAGGTCTTGAAGATTTATCCAAAGGT
Found at i:13806685 original size:37 final size:37
Alignment explanation
Indices: 13806620--13806701 Score: 103
Period size: 37 Copynumber: 2.2 Consensus size: 37
13806610 ATAAATCTTA
*
13806620 TTTGAAAATGGCCACCCCTAAACGGAGGCTTAGAAAC
1 TTTGAAAATGGCCACCCCTAAACAGAGGCTTAGAAAC
* * *
13806657 TTTGAAAATGGCTC-CCCTTAAATAGAGGCTTTGAAAC
1 TTTGAAAATGGC-CACCCCTAAACAGAGGCTTAGAAAC
*
13806694 TTTAAAAA
1 TTTGAAAA
13806702 AATCTTGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 38 0.97
38 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.26
Consensus pattern (37 bp):
TTTGAAAATGGCCACCCCTAAACAGAGGCTTAGAAAC
Found at i:13806759 original size:89 final size:88
Alignment explanation
Indices: 13806570--13806790 Score: 266
Period size: 89 Copynumber: 2.5 Consensus size: 88
13806560 AATGCCTTTG
* * * *
13806570 TTTGAAAATGGCTCCCCCTAAATAAAGGCTTTGACACTTT-ATAAATCTTATTTGAAAATGGCCA
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATCTTATATGAAAATGGCCA
*
13806634 CCCCTAAACGGAGGCTTAGAAAC
66 CCCCTAAACAGAGGCTTAGAAAC
* * *
13806657 TTTGAAAATGGCTCCCCTTAAATAGAGGCTTTGAAACTTTAAAAAAATCTTGTATGAAAATTGCT
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTT-AAAAAATCTTATATGAAAATGGC-
* * * *
13806722 C-CCTCTAAATAGAGGTTTTGAAAC
64 CACCCCTAAACAGAGGCTTAGAAAC
* * * *
13806746 TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAA
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAA
13806791 TGGCTCCCCC
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
87 37 0.32
88 4 0.04
89 72 0.63
90 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (88 bp):
TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAAATCTTATATGAAAATGGCCA
CCCCTAAACAGAGGCTTAGAAAC
Found at i:13806761 original size:37 final size:37
Alignment explanation
Indices: 13806711--13806822 Score: 161
Period size: 37 Copynumber: 3.0 Consensus size: 37
13806701 AAATCTTGTA
* * * *
13806711 TGAAAATTGCTCCCTCTAAATAGAGGTTTTGAAACTT
1 TGAAAATGGCTCCCCCTAAACAGAGGATTTGAAACTT
*
13806748 TGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTT
1 TGAAAATGGCTCCCCCTAAACAGAGGATTTGAAACTT
* *
13806785 TGAAAATGGCTCCCCCTAAACAAAGGCTTTGAAACTT
1 TGAAAATGGCTCCCCCTAAACAGAGGATTTGAAACTT
13806822 T
1 T
13806823 TTAAAAAATT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.29
Consensus pattern (37 bp):
TGAAAATGGCTCCCCCTAAACAGAGGATTTGAAACTT
Found at i:13806903 original size:91 final size:91
Alignment explanation
Indices: 13806746--13806913 Score: 228
Period size: 91 Copynumber: 1.8 Consensus size: 91
13806736 GTTTTGAAAC
* *
13806746 TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAATGGCTCCCCCTAAACAAAGG
1 TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAATAGCTCACCCTAAACAAAGG
13806811 CTTTGAAACTTTTTAAAAAATTCTTA
66 CTTTGAAACTTTTTAAAAAATTCTTA
* * * * * * ** * *
13806837 TTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAACTTTGAAAATAGTTGACTTTAAATAGAGG
1 TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAATAGCTCACCCTAAACAAAGG
13806902 CTTTGAAACTTT
66 CTTTGAAACTTT
13806914 GAAAATGACT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
91 65 1.00
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (91 bp):
TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAATAGCTCACCCTAAACAAAGG
CTTTGAAACTTTTTAAAAAATTCTTA
Found at i:13806907 original size:128 final size:128
Alignment explanation
Indices: 13806620--13807048 Score: 567
Period size: 128 Copynumber: 3.4 Consensus size: 128
13806610 ATAAATCTTA
** * *
13806620 TTTGAAAATGGC-CACCCCTAAACGGAGGCTTAGAAACTTTGAAAATGGCTCCCCTTAAATAGAG
1 TTTGAAAATGGCTC-CCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTTAAACAGAG
* *
13806684 GCTTTGAAAC--TTTAAAAAAATCTTGTATGAAAATTGCTCCCTCTAAATAGAGGTTTTGAAAC
65 GCTTTGAAACTTTTTAAAAAAATCTTGTTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
* * * * *
13806746 TTTGAAAATGGCTCCCCCTAAACAGAAGATTTGAAACTTTGAAAATGGCTCCCCCTAAACAAAGG
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTTAAACAGAGG
* *
13806811 CTTTGAAACTTTTTAAAAAATTCTTATTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
66 CTTTGAAACTTTTTAAAAAAATCTTGTTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
* * ** ** *
13806874 TTTGAAAATAGTTGACTTTAAATAGAGGCTTTGAAACTTTGAAAATGACTCCCCTTAAACAGAGG
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTTAAACAGAGG
* ** * * * *
13806939 CTTTGAAAGTTCTAAAAAAAAATCTTGTTTAAAAATTACTTCCTTTAAACAGAGGTTTTGAAAC
66 CTTTGAAACTT-TTTAAAAAAATCTTGTTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
*
13807003 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTAAAAAT
1 TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAAT
13807049 CTTGTTTTTC
Statistics
Matches: 260, Mismatches: 39, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
126 65 0.25
127 1 0.00
128 111 0.43
129 83 0.32
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (128 bp):
TTTGAAAATGGCTCCCCCTAAATAGAGGCTTTGAAACTTTGAAAATGGCTCCCCTTAAACAGAGG
CTTTGAAACTTTTTAAAAAAATCTTGTTTGAAAATTGCTCCCTCTAAACAGAGGTTTTGAAAC
Found at i:13806932 original size:37 final size:36
Alignment explanation
Indices: 13806837--13806946 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 36
13806827 AAAATTCTTA
*
13806837 TTTGAAAATTG-CTCCCTCTAAACAGAGGTTTTGAAAC
1 TTTGAAAA-TGACTCCCT-TAAACAGAGGCTTTGAAAC
* * * *
13806874 TTTGAAAAT-AGTTGACTTTAAATAGAGGCTTTGAAAC
1 TTTGAAAATGA-CT-CCCTTAAACAGAGGCTTTGAAAC
13806911 TTTGAAAATGACTCCCCTTAAACAGAGGCTTTGAAA
1 TTTGAAAATGACT-CCCTTAAACAGAGGCTTTGAAA
13806947 GTTCTAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
36 1 0.02
37 55 0.93
38 3 0.05
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (36 bp):
TTTGAAAATGACTCCCTTAAACAGAGGCTTTGAAAC
Found at i:13808053 original size:16 final size:17
Alignment explanation
Indices: 13808032--13808068 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
13808022 TTTCTTTTTT
13808032 TTGTTATTG-TTATTTA
1 TTGTTATTGTTTATTTA
13808048 TTGTTATTGTTTTATTTA
1 TTGTTATTG-TTTATTTA
13808066 TTG
1 TTG
13808069 CTTTTTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.16, C:0.00, G:0.14, T:0.70
Consensus pattern (17 bp):
TTGTTATTGTTTATTTA
Found at i:13815385 original size:9 final size:9
Alignment explanation
Indices: 13815371--13815396 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13815361 ATGCCCCCTA
13815371 TTAACTCTC
1 TTAACTCTC
13815380 TTAACTCTC
1 TTAACTCTC
13815389 TTAACTCT
1 TTAACTCT
13815397 AGTATTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (9 bp):
TTAACTCTC
Found at i:13818706 original size:3 final size:3
Alignment explanation
Indices: 13818698--13818747 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
13818688 TTCATTTCCC
*
13818698 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13818746 TA
1 TA
13818748 CCATTAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:13821138 original size:145 final size:143
Alignment explanation
Indices: 13820594--13821139 Score: 475
Period size: 145 Copynumber: 3.8 Consensus size: 143
13820584 GTGAAAGGTA
** * * * * *
13820594 AAATTACCAAAATACCCTTATAGGGGGTATTCCCATAATTTGACCTTCTCAAGTTTGGATTTTCA
1 AAATTACCAAAATACCCTTATA-GGGGTATTTTCGTAATTTGGCCTTCTCAAGCTCGGAATTTCA
*
13820659 TGAAA-TGCTTT-AGATCTTAATTTTATAATA-TTTAGTGATTTTTTGTGCATTTAAAGTCATAG
65 TGAAACT--TTTCAGATCTTAATTTCATAATATTTTA-TGA-TTTTTGTGCATTTAAA-TCATAG
*
13820721 CCA-TACCCTAG-GAA-TGGTG
125 -CAGTACAC-AGAGAAGT-GTG
* * * * * *
13820740 AAATTATCGAAATACCTTTCTAGGGGTATTTTCGTAATTTGG-CTTTTCCAAGCTCGGATTTTCA
1 AAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGGCCTTCT-CAAGCTCGGAATTTCA
* * * * *
13820804 TGAAACATTTCAGA-CTTTAACATTTTATAATATTTCAT-AGTTTTTGATG-AGTTTGAAACCAC
65 TGAAACTTTTCAGATC-TT-A-ATTTCATAATATTTTATGA-TTTTTG-TGCA-TTT-AAATCAT
* * * *
13820866 AGCAGTCCTC-GAGAAAGGGTA
123 AGCAGTACACAGAG-AAGTGTG
* * * * * *
13820887 AAATTACTAAAATACCCTTATAGGGGTATTTTTGTAATTTGGTCTTCCCAAGCTCAGAATTTAAT
1 AAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGGCCTTCTCAAGCTCGGAATTTCAT
**
13820952 GAAACTTTTCAGATCTTAATTTCATAATATTTTGCGATTTTTAGTGCATCTTAAATCATAGCAGT
66 GAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTT-GTGCAT-TTAAATCATAGCAGT
13821017 ACACAGAGAAGTGTG
129 ACACAGAGAAGTGTG
** **
13821032 AAATTACCAAAATACCCTTATAAAGGTATTTTCGTAATTTGGCCTTCTTGAGCTCGGAATTTCAT
1 AAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGGCCTTCTCAAGCTCGGAATTTCAT
* * * *
13821097 GAAACTTTTTATATCTCAATTTCATAATATTTTATGGTTTTTG
66 GAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTG
13821140 GTGTTTTAAA
Statistics
Matches: 321, Mismatches: 58, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
144 9 0.03
145 171 0.53
146 39 0.12
147 92 0.29
148 10 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (143 bp):
AAATTACCAAAATACCCTTATAGGGGTATTTTCGTAATTTGGCCTTCTCAAGCTCGGAATTTCAT
GAAACTTTTCAGATCTTAATTTCATAATATTTTATGATTTTTGTGCATTTAAATCATAGCAGTAC
ACAGAGAAGTGTG
Found at i:13822590 original size:3 final size:3
Alignment explanation
Indices: 13822582--13822622 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13822572 CATTTTATTT
13822582 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
13822623 TTTGAAGAAG
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:13829711 original size:25 final size:25
Alignment explanation
Indices: 13829683--13829742 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
13829673 AGTCATAACA
*
13829683 AAATTATGCAT-TGTCTGCTCATGCT
1 AAATTATG-ATATGTCTACTCATGCT
13829708 AAA-TATGATAATGTCTACTCATGCT
1 AAATTATGAT-ATGTCTACTCATGCT
13829733 AAA-TATGATA
1 AAATTATGATA
13829743 ACCAATATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 2 0.06
24 5 0.16
25 25 0.78
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (25 bp):
AAATTATGATATGTCTACTCATGCT
Found at i:13829743 original size:25 final size:25
Alignment explanation
Indices: 13829694--13829743 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
13829684 AATTATGCAT
*
13829694 TGTCTGCTCATGCTAAATATGATAA
1 TGTCTACTCATGCTAAATATGATAA
13829719 TGTCTACTCATGCTAAATATGATAA
1 TGTCTACTCATGCTAAATATGATAA
13829744 CCAATATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (25 bp):
TGTCTACTCATGCTAAATATGATAA
Found at i:13832819 original size:6 final size:6
Alignment explanation
Indices: 13832808--13832866 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
13832798 CACCACTTTA
* ** * *
13832808 TTGCTT TTGCTT TTGTTT TTATTT TTGTTT TTGTTT TTGC-T TTGC-T
1 TTGCTT TTGCTT TTGCTT TTGCTT TTGCTT TTGCTT TTGCTT TTGCTT
13832854 TTGCTT TT-CTT TT
1 TTGCTT TTGCTT TT
13832867 TTTTCTCTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
5 15 0.31
6 33 0.69
ACGTcount: A:0.02, C:0.10, G:0.14, T:0.75
Consensus pattern (6 bp):
TTGCTT
Found at i:13832868 original size:41 final size:41
Alignment explanation
Indices: 13832808--13832891 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 41
13832798 CACCACTTTA
*
13832808 TTGCTTTTGCTTTTGTTTTTATT-T-TTGTTTTTGTTTTTGCT
1 TTGCTTTTGCTTTTGTTTTT-TTCTCTT-TTTTTGTTTTTCCT
*
13832849 TTGC-TTTGCTTTTCTTTTTTTTCTCTTTTTTTGTTTTTCCT
1 TTGCTTTTGCTTTT-GTTTTTTTCTCTTTTTTTGTTTTTCCT
13832890 TT
1 TT
13832892 TGTTTTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
40 11 0.29
41 25 0.66
42 2 0.05
ACGTcount: A:0.01, C:0.12, G:0.11, T:0.76
Consensus pattern (41 bp):
TTGCTTTTGCTTTTGTTTTTTTCTCTTTTTTTGTTTTTCCT
Found at i:13832876 original size:16 final size:14
Alignment explanation
Indices: 13832857--13832899 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 14
13832847 CTTTGCTTTG
13832857 CTTTTCTTTTTTTTC
1 CTTTT-TTTTTTTTC
13832872 TCTTTTTTTGTTTTTC
1 -CTTTTTTT-TTTTTC
13832888 CTTTTGTTTTTT
1 CTTTT-TTTTTT
13832900 CAATTTCGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (14 bp):
CTTTTTTTTTTTTC
Found at i:13833826 original size:9 final size:9
Alignment explanation
Indices: 13833807--13833838 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13833797 TAATCAATAA
13833807 TTAAAAA-T
1 TTAAAAATT
13833815 TTAAAAATT
1 TTAAAAATT
13833824 TTAAAAATT
1 TTAAAAATT
13833833 TTAAAA
1 TTAAAA
13833839 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TTAAAAATT
Found at i:13833829 original size:17 final size:17
Alignment explanation
Indices: 13833807--13833839 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13833797 TAATCAATAA
13833807 TTAAAAATTTAAAAATT
1 TTAAAAATTTAAAAATT
*
13833824 TTAAAAATTTTAAAAT
1 TTAAAAATTTAAAAAT
13833840 AATAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAAAATTTAAAAATT
Found at i:13833845 original size:3 final size:3
Alignment explanation
Indices: 13833837--13833874 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
13833827 AAAATTTTAA
13833837 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 AA
13833875 AGGCTTGGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13835385 original size:27 final size:27
Alignment explanation
Indices: 13835355--13835423 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 27
13835345 TCCTTGGTCG
*
13835355 TACTAAGCATAAAAGGTTCATTGGCTA
1 TACTAAGCATAAAAGGTTCATTGGCCA
* * *
13835382 TACTAAGTATAAAATGTTCCTTGGCCA
1 TACTAAGCATAAAAGGTTCATTGGCCA
13835409 TACTAAGCATAAAAG
1 TACTAAGCATAAAAG
13835424 ACAATTGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (27 bp):
TACTAAGCATAAAAGGTTCATTGGCCA
Found at i:13835811 original size:3 final size:3
Alignment explanation
Indices: 13835803--13835828 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13835793 TTTTAGATTT
13835803 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
13835829 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:13836479 original size:3 final size:3
Alignment explanation
Indices: 13836471--13836514 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
13836461 GAACTTTCAT
* * *
13836471 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA CAA TAA CAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
13836515 GCAACAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:13836488 original size:12 final size:12
Alignment explanation
Indices: 13836471--13836581 Score: 78
Period size: 12 Copynumber: 9.2 Consensus size: 12
13836461 GAACTTTCAT
*
13836471 TAATAATAATAA
1 TAATAATAACAA
*
13836483 TAATAATAATAA
1 TAATAATAACAA
*
13836495 TAACAATAACAA
1 TAATAATAACAA
* *
13836507 TAACAATAGCAA
1 TAATAATAACAA
* * *
13836519 CAACAACAACAA
1 TAATAATAACAA
* * *
13836531 CAACAACAACAA
1 TAATAATAACAA
* * *
13836543 CAACAACAACAA
1 TAATAATAACAA
* *
13836555 CAATAATAATAA
1 TAATAATAACAA
13836567 TAATAATAACAA
1 TAATAATAACAA
13836579 TAA
1 TAA
13836582 CAACAACAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 88 1.00
ACGTcount: A:0.66, C:0.16, G:0.01, T:0.17
Consensus pattern (12 bp):
TAATAATAACAA
Found at i:13836524 original size:3 final size:3
Alignment explanation
Indices: 13836496--13836590 Score: 91
Period size: 3 Copynumber: 31.7 Consensus size: 3
13836486 TAATAATAAT
* * * *
13836496 AAC AAT AAC AAT AAC AAT AGC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
* * * * * * *
13836544 AAC AAC AAC AAC AAT AAT AAT AAT AAT AAT AAC AAT AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
13836591 ATAAAGAAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.66, C:0.22, G:0.01, T:0.11
Consensus pattern (3 bp):
AAC
Found at i:13838074 original size:27 final size:27
Alignment explanation
Indices: 13838032--13838085 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
13838022 AATCATCCAT
*
13838032 GTTCCTTGGCCCTACTAAGCATAAAAG
1 GTTCCTTGGCCATACTAAGCATAAAAG
*
13838059 GTTCCTTGGCCATACTAAGTATAAAAG
1 GTTCCTTGGCCATACTAAGCATAAAAG
13838086 ACAATTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (27 bp):
GTTCCTTGGCCATACTAAGCATAAAAG
Found at i:13838478 original size:3 final size:3
Alignment explanation
Indices: 13838470--13838527 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
13838460 TAGATTTATG
13838470 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13838518 ATA ATA ATA A
1 ATA ATA ATA A
13838528 ATTTTAAATC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13838897 original size:19 final size:19
Alignment explanation
Indices: 13838873--13838914 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
13838863 ATGCCCTTAA
*
13838873 TGAAACCCTAGGTAAAAAT
1 TGAAACACTAGGTAAAAAT
*
13838892 TGAAACACTAGGTTAAAAT
1 TGAAACACTAGGTAAAAAT
13838911 TGAA
1 TGAA
13838915 TACTTAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.24
Consensus pattern (19 bp):
TGAAACACTAGGTAAAAAT
Found at i:13839138 original size:17 final size:17
Alignment explanation
Indices: 13839105--13839138 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
13839095 AGGATATTTA
*
13839105 AAAAATTTTATTTCATT
1 AAAAATTTTATTACATT
*
13839122 AAAAATTTTCTTACATT
1 AAAAATTTTATTACATT
13839139 TTTACAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAAATTTTATTACATT
Found at i:13839192 original size:3 final size:3
Alignment explanation
Indices: 13839180--13839233 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
13839170 AATAACAAAT
13839180 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
13839227 ATA ATA A
1 ATA ATA A
13839234 GGGCTTGGCC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:13839758 original size:19 final size:18
Alignment explanation
Indices: 13839718--13839760 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
13839708 AAGGAAAAAT
13839718 AAAAACTGACAATTTTGG
1 AAAAACTGACAATTTTGG
*
13839736 AAAAACTGACAGTTTTGG
1 AAAAACTGACAATTTTGG
13839754 AAAAACT
1 AAAAACT
13839761 AGAATGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.26
Consensus pattern (18 bp):
AAAAACTGACAATTTTGG
Found at i:13841318 original size:19 final size:18
Alignment explanation
Indices: 13841278--13841316 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
13841268 TATTAAATAG
13841278 TAAA-AAATAATAATAAA
1 TAAATAAATAATAATAAA
13841295 TAAATAAATCAATAAT-AA
1 TAAATAAAT-AATAATAAA
13841313 TAAA
1 TAAA
13841317 ATTTTAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 10 0.50
19 6 0.30
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
TAAATAAATAATAATAAA
Found at i:13841669 original size:19 final size:19
Alignment explanation
Indices: 13841645--13841685 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13841635 ATAAAAGCCA
13841645 AAACCCTAGGTGAAA-CCCT
1 AAACCCTAGGT-AAACCCCT
*
13841664 AAACCCTATGTAAACCCCT
1 AAACCCTAGGTAAACCCCT
13841683 AAA
1 AAA
13841686 TGAGAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.41, C:0.32, G:0.10, T:0.17
Consensus pattern (19 bp):
AAACCCTAGGTAAACCCCT
Found at i:13841907 original size:18 final size:17
Alignment explanation
Indices: 13841875--13841908 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
13841865 TTATGTTAAA
*
13841875 ATAAAAAATATAAATAT
1 ATAAAAAATAAAAATAT
13841892 ATAAAATAATAAAAATA
1 ATAAAA-AATAAAAATA
13841909 ATAGGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAAAAATAAAAATAT
Found at i:13846244 original size:16 final size:16
Alignment explanation
Indices: 13846225--13846275 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
13846215 TAAAAAAAAG
13846225 AGAAAAATGAAAAGAA
1 AGAAAAATGAAAAGAA
13846241 AGAAAAAAT-AAAA-AA
1 AG-AAAAATGAAAAGAA
*
13846256 ATGGAAAAAAGAAAAGAA
1 A--GAAAAATGAAAAGAA
13846274 AG
1 AG
13846276 GTCTTGAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
15 3 0.10
16 12 0.41
17 11 0.38
18 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (16 bp):
AGAAAAATGAAAAGAA
Found at i:13846246 original size:24 final size:24
Alignment explanation
Indices: 13846218--13846270 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
13846208 AATGCCATAA
*
13846218 AAAAAAGAGAAAAATGAAAAGAAAG
1 AAAAAAGAAAAAAATGAAAA-AAAG
* *
13846243 AAAAAATAAAAAAATGGAAAAAAG
1 AAAAAAGAAAAAAATGAAAAAAAG
13846267 AAAA
1 AAAA
13846271 GAAAGGTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (24 bp):
AAAAAAGAAAAAAATGAAAAAAAG
Found at i:13846247 original size:17 final size:17
Alignment explanation
Indices: 13846216--13846275 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
13846206 GAAATGCCAT
*
13846216 AAAAAAAAGAGAAAAATG
1 AAAAGAAAGA-AAAAATG
13846234 AAAAGAAAGAAAAAAT-
1 AAAAGAAAGAAAAAATG
13846250 AAAA-AAATGGAAAAAA-G
1 AAAAGAAA--GAAAAAATG
13846267 AAAAGAAAG
1 AAAAGAAAG
13846276 GTCTTGAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
15 3 0.08
16 5 0.14
17 17 0.46
18 12 0.32
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAGAAAGAAAAAATG
Found at i:13847000 original size:21 final size:21
Alignment explanation
Indices: 13846976--13847031 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
13846966 CAAAAAGTAT
*
13846976 AAAAAAAGGAAAA-GCAAAAA
1 AAAAAAAGAAAAATGCAAAAA
13846996 AAAAAAAGAAAAATGCAAAAA
1 AAAAAAAGAAAAATGCAAAAA
*
13847017 AAGAAAAGAAAAATG
1 AAAAAAAGAAAAATG
13847032 GTTATGACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 12 0.36
21 21 0.64
ACGTcount: A:0.79, C:0.04, G:0.14, T:0.04
Consensus pattern (21 bp):
AAAAAAAGAAAAATGCAAAAA
Found at i:13847960 original size:8 final size:8
Alignment explanation
Indices: 13847947--13847980 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
13847937 GATAATCAAT
13847947 AAAAAAAG
1 AAAAAAAG
13847955 AAAAAAAG
1 AAAAAAAG
13847963 AAAAAAA-
1 AAAAAAAG
13847970 AAGAAAAAG
1 AA-AAAAAG
13847979 AA
1 AA
13847981 TTGTGGCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 2 0.08
8 20 0.83
9 2 0.08
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Done.