Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 68 of 345
Found at i:18666951 original size:127 final size:129
Alignment explanation
Indices: 18666807--18667113 Score: 341
Period size: 130 Copynumber: 2.4 Consensus size: 129
18666797 GAAAAACCTA
* * * * * * *
18666807 AACCCAGCACGGTAGGGCACGATTCCTCGAATTTCCAAACATTAAACATTGCC-TCGCTTT-AGC
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTCACTTTAAGA
* * * * *
18666870 ATTTAGAAA-ACACGAGTGAAATTTCAAATGAATGTTCGATTATTTTAAACAAACGGGAAATTGC
66 ATTTAGAAAGACACAAGTGAAATTCCAAAGGAATATTCGATTATTTTAAACAAAC-AGAAATTGC
* * *
18666934 AACCCAGCACGATAGGGCACAATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTCACTTT-AAG
** * * * *
18666999 AATTTTTAAAGACATAAGTGAAATTCCAAAGGAATATTTGATTGTTTTGAACAAACAGAAATTGC
65 AATTTAGAAAGACACAAGTGAAATTCCAAAGGAATATTCGATTATTTTAAACAAACAGAAATTGC
* * * * *
18667064 AACCCAGCATGATAGGGCACGTTTCCCCAAATTGCCAAATATCGAACATT
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATT
18667114 TTCTTTGTTT
Statistics
Matches: 150, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
127 46 0.31
128 5 0.03
130 62 0.41
131 37 0.25
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCAAACATTACCTTCACTTTAAGA
ATTTAGAAAGACACAAGTGAAATTCCAAAGGAATATTCGATTATTTTAAACAAACAGAAATTGC
Found at i:18668981 original size:40 final size:40
Alignment explanation
Indices: 18668914--18669090 Score: 304
Period size: 40 Copynumber: 4.5 Consensus size: 40
18668904 ACCCAAGTAT
*
18668914 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
18668953 CTTCGGGTCCTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
18668993 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
18669033 CTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
18669073 CTTCGGGTCTTAGCCCGG
1 CTTCGGGTCTTAGCCCGG
18669091 TTATCATCCG
Statistics
Matches: 131, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
38 1 0.01
39 10 0.08
40 120 0.92
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:18677969 original size:24 final size:25
Alignment explanation
Indices: 18677922--18677969 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
18677912 AAAAGTCAAA
* *
18677922 ACCCATTGAAACTTTAAAACCCAAT
1 ACCCATTGAAAATTTAAAAACCAAT
18677947 ACCCATT-AAAATTTAAAAACCAA
1 ACCCATTGAAAATTTAAAAACCAA
18677970 ATTGAAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (25 bp):
ACCCATTGAAAATTTAAAAACCAAT
Found at i:18679589 original size:11 final size:11
Alignment explanation
Indices: 18679573--18679609 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
18679563 CTGATTCTAT
18679573 TTTTTTTTTAC
1 TTTTTTTTTAC
18679584 TTTTTTTTTAC
1 TTTTTTTTTAC
* *
18679595 TTCTTTTTAAC
1 TTTTTTTTTAC
18679606 TTTT
1 TTTT
18679610 GTCTTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTTTTAC
Found at i:18679676 original size:23 final size:23
Alignment explanation
Indices: 18679650--18679702 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
18679640 TAAAGTTTTA
18679650 TATTTTATTT-TATTTTGTTCATT
1 TATTTTATTTATATTTTGTT-ATT
*
18679673 TATTTTATTTATTTTTTGTTATT
1 TATTTTATTTATATTTTGTTATT
*
18679696 AATTTTA
1 TATTTTA
18679703 AAAAATTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.74
Consensus pattern (23 bp):
TATTTTATTTATATTTTGTTATT
Found at i:18679754 original size:20 final size:22
Alignment explanation
Indices: 18679717--18679760 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
18679707 ATTTGAAATG
18679717 TTTTATAATATATATTTTAAAA
1 TTTTATAATATATATTTTAAAA
*
18679739 TTTTA-AATAT-TATTTTTAAA
1 TTTTATAATATATATTTTAAAA
18679759 TT
1 TT
18679761 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 5 0.24
22 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTTATAATATATATTTTAAAA
Found at i:18679766 original size:12 final size:11
Alignment explanation
Indices: 18679717--18679806 Score: 62
Period size: 12 Copynumber: 7.8 Consensus size: 11
18679707 ATTTGAAATG
18679717 TTTTATAATATAT
1 TTTTA-AAT-TAT
18679730 ATTTTAAA--AT
1 -TTTTAAATTAT
*
18679740 TTTAAATATTAT
1 TTTTAA-ATTAT
18679752 TTTTAAATTAT
1 TTTTAAATTAT
18679763 TTTTAAA--AT
1 TTTTAAATTAT
*
18679772 TTTAAATATATAT
1 TTTTAA-AT-TAT
18679785 TTTTGAAATTATT
1 TTTT-AAATTA-T
18679798 TTTTAAATT
1 TTTTAAATT
18679807 TTGAATATTA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
9 12 0.19
10 4 0.06
11 12 0.19
12 14 0.22
13 14 0.22
14 7 0.11
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (11 bp):
TTTTAAATTAT
Found at i:18679799 original size:34 final size:33
Alignment explanation
Indices: 18679731--18679863 Score: 178
Period size: 35 Copynumber: 3.9 Consensus size: 33
18679721 ATAATATATA
18679731 TTTTAAAATTTTAAATATTATTTTT-AAATTAT
1 TTTTAAAATTTTAAATATTATTTTTGAAATTAT
18679763 TTTTAAAATTTTAAATATATATTTTTGAAATTAT
1 TTTTAAAATTTTAAATAT-TATTTTTGAAATTAT
* *
18679797 TTTTTAAATTTTGAATATTATATTTTTGAAATTAT
1 TTTTAAAATTTTAAATA-T-TATTTTTGAAATTAT
* *
18679832 TTTCTCTAAATTTTAAATATTATTTTTTAAAT
1 TTT-T-AAAATTTTAAATATTATTTTTGAAAT
18679864 ATTAAATATA
Statistics
Matches: 92, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
32 18 0.20
33 7 0.08
34 22 0.24
35 31 0.34
36 2 0.02
37 12 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (33 bp):
TTTTAAAATTTTAAATATTATTTTTGAAATTAT
Found at i:18679828 original size:23 final size:20
Alignment explanation
Indices: 18679785--18679881 Score: 80
Period size: 20 Copynumber: 5.0 Consensus size: 20
18679775 AAATATATAT
18679785 TTTTGAAATTATTTTTTAAA
1 TTTTGAAATTATTTTTTAAA
* *
18679805 TTTTG-AA-TA--TTAT-AT
1 TTTTGAAATTATTTTTTAAA
18679820 TTTTGAAATTATTTTCTCTAAA
1 TTTTGAAATTATTTT-T-TAAA
*
18679842 TTTTAAATATTATTTTTTAAA
1 TTTTGAA-ATTATTTTTTAAA
*
18679863 TATT-AAATATATTTTTTAA
1 TTTTGAAAT-TATTTTTTAA
18679882 TAATATTTAA
Statistics
Matches: 62, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
15 6 0.10
16 5 0.08
17 2 0.03
18 2 0.03
19 6 0.10
20 17 0.27
21 8 0.13
22 8 0.13
23 8 0.13
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTTGAAATTATTTTTTAAA
Found at i:18679862 original size:21 final size:21
Alignment explanation
Indices: 18679827--18679881 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
18679817 TATTTTTGAA
*
18679827 ATTATTTTCTCTAAATTTTAAAT
1 ATTATTTT-T-TAAATATTAAAT
18679850 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
18679871 A-TATTTTTTAA
1 ATTATTTTTTAA
18679882 TAATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 10 0.32
21 12 0.39
22 1 0.03
23 8 0.26
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:18679891 original size:23 final size:22
Alignment explanation
Indices: 18679827--18679897 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 22
18679817 TATTTTTGAA
18679827 ATTATTTTCTCTAAAT-TTTAAAT
1 ATTATTTT-T-TAAATATTTAAAT
18679850 ATTATTTTTTAAATA-TTAAAT
1 ATTATTTTTTAAATATTTAAAT
*
18679871 A-TATTTTTTAATAATATTTAAAC
1 ATTATTTTTT-A-AATATTTAAAT
18679894 ATTA
1 ATTA
18679898 AAATTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 8 0.19
21 13 0.31
22 5 0.12
23 14 0.33
24 2 0.05
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTATTTTTTAAATATTTAAAT
Found at i:18679924 original size:11 final size:11
Alignment explanation
Indices: 18679896--18679934 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
18679886 ATTTAAACAT
18679896 TAAAATTTTTAAA
1 TAAAATTTTT--A
18679909 TAAAATTTTTA
1 TAAAATTTTTA
18679920 TAAAATTTTT-
1 TAAAATTTTTA
18679930 TAAAA
1 TAAAA
18679935 AGGTTTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.19
11 11 0.42
13 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATTTTTA
Found at i:18680048 original size:12 final size:13
Alignment explanation
Indices: 18680033--18680062 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
18680023 TTTTTAAATT
18680033 TTTTA-TTAAAAA
1 TTTTATTTAAAAA
18680045 TTTTATTTAAAAA
1 TTTTATTTAAAAA
18680058 TTTTA
1 TTTTA
18680063 AATGTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTTATTTAAAAA
Found at i:18680181 original size:21 final size:21
Alignment explanation
Indices: 18680155--18680222 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
18680145 TCATATTATT
18680155 AAAAAATATATTTAAAATTT-
1 AAAAAATATATTTAAAATTTA
18680175 -AAAAA-A-A-TT--AATTTCA
1 AAAAAATATATTTAAAATTT-A
*
18680191 AAAATATATATTTAAAATTTA
1 AAAAAATATATTTAAAATTTA
18680212 AAAAAATATAT
1 AAAAAATATAT
18680223 ATTATAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
14 5 0.13
16 2 0.05
17 5 0.13
18 2 0.05
19 6 0.16
20 2 0.05
21 11 0.29
22 5 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAAATATATTTAAAATTTA
Found at i:18680288 original size:9 final size:9
Alignment explanation
Indices: 18680274--18680307 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
18680264 TTAATAATAA
18680274 AAAATAAAT
1 AAAATAAAT
18680283 AAAATAAAT
1 AAAATAAAT
18680292 AAACA-AAAT
1 AAA-ATAAAT
18680301 AAAATAA
1 AAAATAA
18680308 GAAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 1 0.04
9 21 0.91
10 1 0.04
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:18680292 original size:23 final size:24
Alignment explanation
Indices: 18680261--18680321 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
18680251 AATTTTTTTT
*
18680261 AAATTAATAATAAAAAAT-AAATA
1 AAATAAATAATAAAAAATAAAATA
*
18680284 AAATAAATAA-ACAAAATAAAATA
1 AAATAAATAATAAAAAATAAAATA
*
18680307 AGAAAAAAT-ATAAAA
1 A-AATAAATAATAAAA
18680322 CTTAAAAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
22 6 0.19
23 16 0.52
24 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATAAATAATAAAAAATAAAATA
Found at i:18680293 original size:13 final size:13
Alignment explanation
Indices: 18680260--18680303 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
18680250 CAATTTTTTT
*
18680260 TAAATTAATAATAA
1 TAAATAAATAA-AA
*
18680274 AAAATAAATAAAA
1 TAAATAAATAAAA
*
18680287 TAAATAAACAAAA
1 TAAATAAATAAAA
18680300 TAAA
1 TAAA
18680304 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 17 0.65
14 9 0.35
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:18680338 original size:17 final size:17
Alignment explanation
Indices: 18680271--18680364 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
18680261 AAATTAATAA
* *
18680271 TAAAAAATAAATAAAA-
1 TAAAAAAGAAAAAAAAT
*
18680287 TAAATAAACAAAATAAAA-
1 TAAA-AAAGAAAA-AAAAT
*
18680305 TAAGAAAA-AATATAAAACT
1 TAA-AAAAGAA-A-AAAAAT
18680324 TAAAAAAGAAAAAAAAT
1 TAAAAAAGAAAAAAAAT
* **
18680341 TAAAAAAGACAAAAGTT
1 TAAAAAAGAAAAAAAAT
18680358 TAAAAAA
1 TAAAAAA
18680365 AAAGTAAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 13
0.76 0.08 0.15
Matches are distributed among these distances:
16 4 0.06
17 34 0.53
18 19 0.30
19 7 0.11
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.17
Consensus pattern (17 bp):
TAAAAAAGAAAAAAAAT
Found at i:18680344 original size:24 final size:24
Alignment explanation
Indices: 18680300--18680345 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
18680290 ATAAACAAAA
*
18680300 TAAAATAAGAAAAAATATAAAACT
1 TAAAATAAGAAAAAAAATAAAACT
18680324 TAAAA-AAGAAAAAAAATTAAAA
1 TAAAATAAGAAAAAAAA-TAAAA
18680346 AAGACAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.17
Consensus pattern (24 bp):
TAAAATAAGAAAAAAAATAAAACT
Found at i:18681043 original size:22 final size:22
Alignment explanation
Indices: 18681001--18681044 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18680991 TTGTTTTGTT
* *
18681001 ATTTTTAAAAATATATCTTATA
1 ATTTTTAAAAAAATATATTATA
18681023 ATTTTTAAAATAAATA-ATTATA
1 ATTTTTAAAA-AAATATATTATA
18681045 CTTATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTTTAAAAAAATATATTATA
Found at i:18681075 original size:25 final size:25
Alignment explanation
Indices: 18681035--18681110 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 25
18681025 TTTTAAAATA
18681035 AATAATTATACTTATTTTAATATTT
1 AATAATTATACTTATTTTAATATTT
18681060 AATAATTATA--TATATTTAATATTT
1 AATAATTATACTTAT-TTTAATATTT
* * *
18681084 AGT-ATTATATTTTATTATAA-ATTT
1 AATAATTATA-CTTATTTTAATATTT
18681108 AAT
1 AAT
18681111 TTTTATGTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
23 9 0.20
24 18 0.41
25 14 0.32
26 3 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (25 bp):
AATAATTATACTTATTTTAATATTT
Found at i:18681076 original size:17 final size:19
Alignment explanation
Indices: 18681054--18681095 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
18681044 ACTTATTTTA
18681054 ATATTTAATAATTA-TA-T
1 ATATTTAATAATTAGTATT
*
18681071 ATATTTAATATTTAGTATT
1 ATATTTAATAATTAGTATT
18681090 ATATTT
1 ATATTT
18681096 TATTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 13 0.59
18 2 0.09
19 7 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
ATATTTAATAATTAGTATT
Found at i:18686955 original size:114 final size:114
Alignment explanation
Indices: 18686755--18687184 Score: 355
Period size: 114 Copynumber: 3.7 Consensus size: 114
18686745 GGGAATCTTC
* ** *
18686755 TACATGGTC-AAAGTTCATATCTACTGGAATGGTAATGCTCGTCTCTGTGGATGT-AACTTTAGC
1 TACATGGTCTAAA-TTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGAT-TCAACTTTAGC
* * * *
18686818 CATAGGAGAAGTTACAGGATTCTTGGGGCTATTGGGCAAACCGTTATCTGT
64 CATGGGATAAGTTACAGGATTCTTGGGGCTATTGGACAAACCGTTACCTGT
* * *
18686869 TACATGGTCTAAATTCGTATCTACTGGAGTTGTAACACTCGTCTCTGCGGATTCAACTTTAGCCA
1 TACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATTCAACTTTAGCCA
* * * * * *
18686934 TGGGATAACTTACAGGATTCTTGGGGTTGTTGGATAAACCTTTACCTTT
66 TGGGATAAGTTACAGGATTCTTGGGGCTATTGGACAAACCGTTACCTGT
** * * * * * * * *
18686983 TACATATTCTAAATTCGTATTTACCGGAATGGTAACACTTGTCTCTGAGGATGCTACATCAGCCT
1 TACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATTCAACTTTAGCCA
* * * * * * *
18687048 TGGGATAAGTTACAAGATTCTTGGGGTTGTAGGACAAATC-TTCATCTTT
66 TGGGATAAGTTACAGGATTCTTGGGGCTATTGGACAAACCGTT-ACCTGT
* * * * * * * * * *
18687097 TACACGGTCTAAGTTGGTCTCCACTGGAATGGTAGTAGCAC-CATGCTCCGGGGATGCAACTATA
1 TACATGGTCTAAATTCGTATCTACTGGAATGGTA--A-CACTCGT-CTCTGAGGATTCAACTTTA
* *
18687161 GCCATAGGATTAGTTACAGGATTC
62 GCCATGGGATAAGTTACAGGATTC
18687185 ATAGAGTTGG
Statistics
Matches: 253, Mismatches: 56, Indels: 11
0.79 0.17 0.03
Matches are distributed among these distances:
113 3 0.01
114 209 0.83
115 3 0.01
116 2 0.01
117 36 0.14
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (114 bp):
TACATGGTCTAAATTCGTATCTACTGGAATGGTAACACTCGTCTCTGAGGATTCAACTTTAGCCA
TGGGATAAGTTACAGGATTCTTGGGGCTATTGGACAAACCGTTACCTGT
Found at i:18692047 original size:22 final size:22
Alignment explanation
Indices: 18692022--18692069 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
18692012 CATATTAGTT
18692022 ATTT-ATTTTTTAACTTAATTTA
1 ATTTAATTTTTT-ACTTAATTTA
**
18692044 ATTTAATTTTTTGTTTAATTTA
1 ATTTAATTTTTTACTTAATTTA
18692066 ATTT
1 ATTT
18692070 TTCACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
ATTTAATTTTTTACTTAATTTA
Found at i:18692492 original size:92 final size:91
Alignment explanation
Indices: 18692224--18692510 Score: 405
Period size: 93 Copynumber: 3.1 Consensus size: 91
18692214 CGCATTGGAC
* *
18692224 ATTTTATGAAAGTACATGTAACATAATAAAATACATATTGATAGTTCAAGTACCACATTGGACAT
1 ATTTTATGAAAGTACATGTACCATAATAAAATACAAATTGATAGTTCAAGTACCACATTGGACAT
* *
18692289 TTTCAATGTGCAAGTACCACATTAGA
66 TTTCAAAGTACAAGTACCACATTAGA
* * * * *
18692315 CATTTTATGAAAGTACAAGTACAATAATAAAA-ACACATATTGATAATTCAAGCACCAAATTGGA
1 -ATTTTATGAAAGTACATGTACCATAATAAAATACA-A-ATTGATAGTTCAAGTACCACATTGGA
*
18692379 CATTTTCAAAGTACAAGTACCACATTACA
63 CATTTTCAAAGTACAAGTACCACATTAGA
* *
18692408 TATTTTATGATAGTACATGTACCATAATAAAATACAAATTGATAGTTCAAGTACTACATTGGACA
1 -ATTTTATGAAAGTACATGTACCATAATAAAATACAAATTGATAGTTCAAGTACCACATTGGACA
* *
18692473 TTTTCAAAATACAAATACCACATTAGA
65 TTTTCAAAGTACAAGTACCACATTAGA
18692500 ATTTTATGAAA
1 ATTTTATGAAA
18692511 ATATACATAC
Statistics
Matches: 170, Mismatches: 22, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
91 13 0.08
92 76 0.45
93 78 0.46
94 3 0.02
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.31
Consensus pattern (91 bp):
ATTTTATGAAAGTACATGTACCATAATAAAATACAAATTGATAGTTCAAGTACCACATTGGACAT
TTTCAAAGTACAAGTACCACATTAGA
Found at i:18694236 original size:39 final size:40
Alignment explanation
Indices: 18694149--18694236 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
18694139 ATAAAAAATA
* **
18694149 CCGCTATAGATCAAGCACTAGTGGCACTTTTTGAAAAACG
1 CCGCTATAGATCAAGCACTAGCGGCACCCTTTGAAAAACG
*
18694189 CCGCTATAGATCAAGCATTAGCGGC-CCCTTTGAAAAACG
1 CCGCTATAGATCAAGCACTAGCGGCACCCTTTGAAAAACG
* *
18694228 TCGTTATAG
1 CCGCTATAG
18694237 GTCGAATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 19 0.45
40 23 0.55
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (40 bp):
CCGCTATAGATCAAGCACTAGCGGCACCCTTTGAAAAACG
Found at i:18694248 original size:39 final size:40
Alignment explanation
Indices: 18694149--18694266 Score: 114
Period size: 40 Copynumber: 3.0 Consensus size: 40
18694139 ATAAAAAATA
* * * **
18694149 CCGCTATAGATCAAGCACTAGTGGCACTTTTTGAAAAACG
1 CCGCTATAGATCAAGCATTAGCGGCGCCCTTTGAAAAACG
18694189 CCGCTATAGATCAAGCATTAGCGGC-CCCTTTGAAAAACG
1 CCGCTATAGATCAAGCATTAGCGGCGCCCTTTGAAAAACG
* * * * **
18694228 TCGTTATAGGTCGAA-TATTAGCGGCGCTTTTTGAAAAAC
1 CCGCTATAGATC-AAGCATTAGCGGCGCCCTTTGAAAAAC
18694267 ACTGCAAAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
39 30 0.45
40 36 0.55
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGCTATAGATCAAGCATTAGCGGCGCCCTTTGAAAAACG
Found at i:18694867 original size:14 final size:14
Alignment explanation
Indices: 18694842--18694886 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
18694832 TAAATTATTA
*
18694842 TTATAGTTTAGGGT
1 TTATAATTTAGGGT
* *
18694856 TTGTGATTTAGGGT
1 TTATAATTTAGGGT
*
18694870 ATATAATTTAGGGT
1 TTATAATTTAGGGT
18694884 TTA
1 TTA
18694887 AGCTTTAGGA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTATAATTTAGGGT
Found at i:18694953 original size:43 final size:43
Alignment explanation
Indices: 18694905--18695004 Score: 101
Period size: 43 Copynumber: 2.3 Consensus size: 43
18694895 GAGTTACTAT
* * *
18694905 TTTAAGGTTTATAGATTATATGTTTAGGGATTATGGTTTATGG
1 TTTAAGGTTTATAGATTAGAGGTTTAGGGATTATGGTTTATGA
* ** * * * *
18694948 TTTAAGATTTAGGGGTTAGGGGTTTAGGGTTTATGTTTTATGA
1 TTTAAGGTTTATAGATTAGAGGTTTAGGGATTATGGTTTATGA
*
18694991 TTTAGGGTTTATAG
1 TTTAAGGTTTATAG
18695005 GGATAGGGGT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (43 bp):
TTTAAGGTTTATAGATTAGAGGTTTAGGGATTATGGTTTATGA
Found at i:18695002 original size:14 final size:14
Alignment explanation
Indices: 18694926--18695001 Score: 53
Period size: 14 Copynumber: 5.4 Consensus size: 14
18694916 TAGATTATAT
*
18694926 GTTTAGGGATTATG
1 GTTTAGGGTTTATG
* *
18694940 GTTTATGGTTTAAG
1 GTTTAGGGTTTATG
* * *
18694954 ATTTAGGGGTTAGGG
1 GTTTAGGGTTTA-TG
18694969 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
* * * *
18694983 TTTTATGATTTAGG
1 GTTTAGGGTTTATG
18694997 GTTTA
1 GTTTA
18695002 TAGGGATAGG
Statistics
Matches: 46, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
14 35 0.76
15 11 0.24
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:18695012 original size:36 final size:36
Alignment explanation
Indices: 18694929--18695012 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
18694919 ATTATATGTT
*
18694929 TAGGGATTATGGTTTATGGTTTAAGATTTAGGGGTTA
1 TAGGGA-TAGGGTTTATGGTTTAAGATTTAGGGGTTA
* * * * *
18694966 -GGGGTTTAGGGTTTATGTTTTATGATTTAGGGTTTA
1 TAGGG-ATAGGGTTTATGGTTTAAGATTTAGGGGTTA
18695002 TAGGGATAGGG
1 TAGGGATAGGG
18695013 GTTAAGGGTT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
36 34 0.92
37 3 0.08
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (36 bp):
TAGGGATAGGGTTTATGGTTTAAGATTTAGGGGTTA
Found at i:18700806 original size:14 final size:14
Alignment explanation
Indices: 18700756--18700806 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
18700746 AATATTTAAA
18700756 ATGATATACAAT-AT
1 ATGAT-TACAATGAT
*
18700770 ATGA-TACAATGTT
1 ATGATTACAATGAT
*
18700783 ATGATGACAATGAT
1 ATGATTACAATGAT
*
18700797 AAGATTACAA
1 ATGATTACAA
18700807 AGGTGGATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 19 0.63
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (14 bp):
ATGATTACAATGAT
Found at i:18700889 original size:21 final size:21
Alignment explanation
Indices: 18700856--18700900 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
18700846 GTAAAGCAAT
* *
18700856 AAAACAAAAATACATGACGTA
1 AAAACAAAAATACATAACATA
* *
18700877 AAAATAAACATACATAACATA
1 AAAACAAAAATACATAACATA
18700898 AAA
1 AAA
18700901 TGTTTAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.16
Consensus pattern (21 bp):
AAAACAAAAATACATAACATA
Found at i:18701176 original size:3 final size:3
Alignment explanation
Indices: 18701163--18701235 Score: 110
Period size: 3 Copynumber: 24.3 Consensus size: 3
18701153 GACAAAAAAT
* * * *
18701163 ATA ACA ATA ATA ATA ATG ATA ATA GTA GTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
18701211 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
18701236 AAATGAACTT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:18702659 original size:20 final size:20
Alignment explanation
Indices: 18702607--18702659 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
18702597 TGTTTTGTTA
18702607 CTGTCTTGTTTGCTTCATTT
1 CTGTCTTGTTTGCTTCATTT
* * * *
18702627 TTGTCCTGCTTGCTTCGTTT
1 CTGTCTTGTTTGCTTCATTT
18702647 CTGTCTTGTTTGC
1 CTGTCTTGTTTGC
18702660 AGGTTATAGG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.02, C:0.23, G:0.19, T:0.57
Consensus pattern (20 bp):
CTGTCTTGTTTGCTTCATTT
Found at i:18703414 original size:51 final size:51
Alignment explanation
Indices: 18703330--18703441 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 51
18703320 GATCCACTAT
** * * * *
18703330 CTTCAATCTGCTCCACTACAACTTCAGGAAGATAATACTTGTAACTTGTAG
1 CTTCAATCTATTCCACTACAACTTCAGGAAGATAAGACTCGCAACTTGTAA
* * * *
18703381 CTTTAATCTATTCCACTGCAACTTTAGGGAGATAAGACTCGCAACTTGTAA
1 CTTCAATCTATTCCACTACAACTTCAGGAAGATAAGACTCGCAACTTGTAA
18703432 CTTCAATCTA
1 CTTCAATCTA
18703442 CTCTATTGCG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.31, C:0.23, G:0.13, T:0.32
Consensus pattern (51 bp):
CTTCAATCTATTCCACTACAACTTCAGGAAGATAAGACTCGCAACTTGTAA
Found at i:18704380 original size:45 final size:45
Alignment explanation
Indices: 18704329--18704416 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 45
18704319 CAAGCTCGAA
* * *
18704329 ATAAATTAATCACGATAACAG-ATTTTGCTAAAGTACAAAATGAGG
1 ATAAATTAATCAAGAT-ACAGCATTTTGCCAAAATACAAAATGAGG
* **
18704374 ATAAATTGATCAAGATAGTGCATTTTGCCAAAATACAAAATGA
1 ATAAATTAATCAAGATACAGCATTTTGCCAAAATACAAAATGA
18704417 ATAAGGTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
44 2 0.06
45 34 0.94
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.27
Consensus pattern (45 bp):
ATAAATTAATCAAGATACAGCATTTTGCCAAAATACAAAATGAGG
Found at i:18714134 original size:30 final size:30
Alignment explanation
Indices: 18714076--18714135 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
18714066 TTCCCGAGCC
* *
18714076 TAGGGGCAAAAGTGTAATTATGTAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
18714106 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
18714136 CGTATTAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:18718450 original size:30 final size:30
Alignment explanation
Indices: 18718414--18718473 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
18718404 TTCCCGAGCC
*
18718414 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
18718444 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
18718474 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:18723173 original size:7 final size:7
Alignment explanation
Indices: 18723161--18723197 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
18723151 AAATGACATA
18723161 AATTTTC
1 AATTTTC
18723168 AATTTTC
1 AATTTTC
18723175 AATTTTC
1 AATTTTC
18723182 AATTTTC
1 AATTTTC
18723189 AATTTTC
1 AATTTTC
18723196 AA
1 AA
18723198 CGAAAATACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (7 bp):
AATTTTC
Found at i:18724051 original size:21 final size:21
Alignment explanation
Indices: 18724018--18724064 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
18724008 GTAAAGCAAT
* * *
18724018 AAAACAAAAATACATGACGTA
1 AAAATAAAAATACATAACATA
*
18724039 AAAATAAACATACATAACATA
1 AAAATAAAAATACATAACATA
18724060 AAAAT
1 AAAAT
18724065 GTTTAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.66, C:0.13, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAAAAATACATAACATA
Found at i:18724333 original size:3 final size:3
Alignment explanation
Indices: 18724325--18724404 Score: 160
Period size: 3 Copynumber: 26.7 Consensus size: 3
18724315 AGACAAAAAT
18724325 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
18724373 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
18724405 GAACTTAGAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:18725782 original size:20 final size:20
Alignment explanation
Indices: 18725765--18725815 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
18725755 GTTTCGTTAC
18725765 TGTCTTGTTTGCTTCGTTTT
1 TGTCTTGTTTGCTTCGTTTT
* * *
18725785 TGTCCTGCTTGCTTTGTTTT
1 TGTCTTGTTTGCTTCGTTTT
18725805 TGTCTTGTTTG
1 TGTCTTGTTTG
18725816 TAAGTTATAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.22, T:0.63
Consensus pattern (20 bp):
TGTCTTGTTTGCTTCGTTTT
Found at i:18726432 original size:42 final size:42
Alignment explanation
Indices: 18726260--18726450 Score: 170
Period size: 42 Copynumber: 4.5 Consensus size: 42
18726250 TATATTTTTT
*
18726260 TAAAGGTCATGTTCTTTAGCGGCGTTTATGAGAAAAGCACCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTATG-GAAAAGCGCCGC
* * * * *
18726303 TAAAGGTCTAT-TT-TATAGTGGCGCTTAAGGGAAAAGCGTCGC
1 TAAAGGTC-ATGTTCTTTAGCGGCG-TTTATGGAAAAGCGCCGC
* * * * * * * *
18726345 TAAAGGTTATGTTTTTTAACAGTGTTTGTGGGAAAAGTGCTGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTAT-GGAAAAGCGCCGC
* * *
18726388 TAAAGATCATGATCTTTAGCGGCATTTATGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTATGGAAAAGCGCCGC
*
18726430 TAAAGATCATGTTCTTTAGCG
1 TAAAGGTCATGTTCTTTAGCG
18726451 ACTTTTTTTA
Statistics
Matches: 113, Mismatches: 30, Indels: 11
0.73 0.19 0.07
Matches are distributed among these distances:
41 2 0.02
42 60 0.53
43 49 0.43
44 2 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (42 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTATGGAAAAGCGCCGC
Found at i:18726776 original size:2 final size:2
Alignment explanation
Indices: 18726769--18726807 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
18726759 TCTGAAATTT
18726769 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18726808 GCAATGCAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18732514 original size:6 final size:6
Alignment explanation
Indices: 18732503--18732527 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
18732493 TTAGCAATTA
18732503 ACATTT ACATTT ACATTT ACATTT A
1 ACATTT ACATTT ACATTT ACATTT A
18732528 AAATATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (6 bp):
ACATTT
Found at i:18732739 original size:9 final size:9
Alignment explanation
Indices: 18732727--18732788 Score: 90
Period size: 9 Copynumber: 7.0 Consensus size: 9
18732717 AATAAATAAT
18732727 TTAAAAATA
1 TTAAAAATA
18732736 TTAAAAATA
1 TTAAAAATA
18732745 TTAAAAATA
1 TTAAAAATA
18732754 TTAAAAATA
1 TTAAAAATA
18732763 TTAAAAA-A
1 TTAAAAATA
* *
18732771 TTTAAAACA
1 TTAAAAATA
*
18732780 ATAAAAATA
1 TTAAAAATA
18732789 AAATAAATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
8 7 0.15
9 41 0.85
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAATA
Found at i:18732757 original size:27 final size:26
Alignment explanation
Indices: 18732719--18732786 Score: 59
Period size: 27 Copynumber: 2.6 Consensus size: 26
18732709 GTCACATAAA
*
18732719 TAAATAAT-TTAAAAATATTAAAAATAT
1 TAAA-AATATTAAAAA-ATTAAAAACAT
18732746 TAAAAATATTAAAAATATTAAAAA-AT
1 TAAAAATATTAAAAA-ATTAAAAACAT
* * *
18732772 TTAAAACAATAAAAA
1 TAAAAATATTAAAAA
18732787 TAAAATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.46
27 20 0.54
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (26 bp):
TAAAAATATTAAAAAATTAAAAACAT
Found at i:18733340 original size:30 final size:32
Alignment explanation
Indices: 18733285--18733353 Score: 88
Period size: 30 Copynumber: 2.2 Consensus size: 32
18733275 AAAAAATATC
*
18733285 AATTTAACTCTTTTTTGAAAGGTTGATGATAA
1 AATTTAACTCTTTTTTGAAAGGTTGAGGATAA
** *
18733317 AATTTAACT-TTTTTTTTAA-GTTGAGGATCA
1 AATTTAACTCTTTTTTGAAAGGTTGAGGATAA
18733347 AATTTAA
1 AATTTAA
18733354 TCAGAAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 16 0.48
31 8 0.24
32 9 0.27
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.46
Consensus pattern (32 bp):
AATTTAACTCTTTTTTGAAAGGTTGAGGATAA
Found at i:18733396 original size:2 final size:2
Alignment explanation
Indices: 18733383--18733419 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
18733373 AAATTGATAA
*
18733383 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18733420 AACTTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18736131 original size:14 final size:15
Alignment explanation
Indices: 18736101--18736132 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
18736091 TATCGCTTGC
18736101 AAAACAGATTTTAAA
1 AAAACAGATTTTAAA
18736116 AAAACAGATTTTAAA
1 AAAACAGATTTTAAA
18736131 AA
1 AA
18736133 TACCTCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.25
Consensus pattern (15 bp):
AAAACAGATTTTAAA
Found at i:18740155 original size:19 final size:19
Alignment explanation
Indices: 18740131--18740168 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
18740121 AACCCTTAGT
18740131 TTTTCTTT-TTTCATTTTTC
1 TTTTCTTTCTTTC-TTTTTC
18740150 TTTTCTTTCTTTCTTTTTC
1 TTTTCTTTCTTTCTTTTTC
18740169 CTGCTACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTTCTTTCTTTTTC
Found at i:18745623 original size:23 final size:23
Alignment explanation
Indices: 18745592--18745654 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
18745582 ATTATTTACC
* *
18745592 AACTCATTTTGGTATAAATAGTA
1 AACTTATTTTGCTATAAATAGTA
18745615 AACTTATTTTGCTATAAATAGTA
1 AACTTATTTTGCTATAAATAGTA
*
18745638 AACTTATTTTGTTATAA
1 AACTTATTTTGCTATAA
18745655 TGGCATGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (23 bp):
AACTTATTTTGCTATAAATAGTA
Found at i:18757972 original size:5 final size:5
Alignment explanation
Indices: 18757962--18757987 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
18757952 TCCATCCTTG
18757962 TGTTT TGTTT TGTTT TGTTT TGTTT T
1 TGTTT TGTTT TGTTT TGTTT TGTTT T
18757988 TAGCTTCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (5 bp):
TGTTT
Found at i:18762084 original size:27 final size:27
Alignment explanation
Indices: 18762054--18762260 Score: 238
Period size: 27 Copynumber: 7.7 Consensus size: 27
18762044 TGTAGGGTAG
* **
18762054 AATTACCAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
18762081 AATTACCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* **
18762108 AATTACCAAAATACCTTTAGTTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
18762135 AATTACCAAAATACCCTTAATTTGTGA
1 AATTACCAAAATACCCTTAGTTTGTAA
** * *
18762162 AATTATTAAAATACCC-TCGACTTGTAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * **
18762189 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCTTAGTTTGTAA
18762216 AATTACCAAAATAGCCC-TAGTTTGTAA
1 AATTACCAAAATA-CCCTTAGTTTGTAA
18762243 AATTACCAAAATACCCTT
1 AATTACCAAAATACCCTT
18762261 GTAGGGTAGA
Statistics
Matches: 148, Mismatches: 28, Indels: 8
0.80 0.15 0.04
Matches are distributed among these distances:
26 4 0.03
27 140 0.95
28 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:18762093 original size:54 final size:54
Alignment explanation
Indices: 18762016--18762285 Score: 198
Period size: 54 Copynumber: 5.0 Consensus size: 54
18762006 TTAGAATACT
** *
18762016 TTAGTTTACAAAATTACTGAAATACCCCTGTAG-GGTAGAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCT-TAGTGGTAAAATTACCAAAATACCC
* * *
18762070 TTGGTTTACAAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACCAAAATACCT
1 TTAGTTTACAAAATTACCAAAATACCCCTTAG-TGGTAAAATTACCAAAATACCC
* * * **
18762124 TTAGTTTACAAAATTACCAAAATA-CCCTTAATTTGTGAAATTATTAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTT-AGTGGTAAAATTACCAAAATACCC
* * * * *
18762178 TCGACTTGT--AAAATTACCAAAATA-CCATTGGT-TTACAAAATTACCAAAATAGCCC
1 T-TAGTT-TACAAAATTACCAAAATACCCCTTAGTGGT--AAAATTACCAAAATA-CCC
** * * **
18762233 -TAGTTTGTAAAATTACCAAAATACCCTTGTAG-GGTAGAATTACTGAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCT-TAGTGGTAAAATTACCAAAATACCC
18762286 CTGTAGGGTA
Statistics
Matches: 174, Mismatches: 29, Indels: 27
0.76 0.13 0.12
Matches are distributed among these distances:
52 5 0.03
53 11 0.06
54 144 0.83
55 10 0.06
56 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
TTAGTTTACAAAATTACCAAAATACCCCTTAGTGGTAAAATTACCAAAATACCC
Found at i:18762151 original size:81 final size:82
Alignment explanation
Indices: 18762054--18762260 Score: 285
Period size: 81 Copynumber: 2.5 Consensus size: 82
18762044 TGTAGGGTAG
* ** *
18762054 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGACTTGTAAAATTACCAAA
*
18762118 ATACCTTTAGTTTACAA
66 ATACCATTAGTTTACAA
* * ** *
18762135 AATTACCAAAATACCCTTAATTTGTGAAATTATTAAAATACCC-TCGACTTGTAAAATTACCAAA
1 AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGACTTGTAAAATTACCAAA
*
18762199 ATACCATTGGTTTACAA
66 ATACCATTAGTTTACAA
18762216 AATTACCAAAATAGCCC-TAGTTTGTAAAATTACCAAAATACCCTT
1 AATTACCAAAATA-CCCTTAGTTTGTAAAATTACCAAAATACCCTT
18762261 GTAGGGTAGA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 2 0.02
81 102 0.94
82 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (82 bp):
AATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCTTAGACTTGTAAAATTACCAAA
ATACCATTAGTTTACAA
Found at i:18762273 original size:27 final size:27
Alignment explanation
Indices: 18762243--18762438 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
18762233 TAGTTTGTAA
*
18762243 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
18762270 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
18762297 AGTTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
18762324 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
18762351 AATTACTGAAATACCCTTGTATGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
18762378 AAATACCGAGATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
18762405 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
18762432 AATTACC
1 AATTACC
18762439 ATTTTGCCCC
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:18762303 original size:81 final size:81
Alignment explanation
Indices: 18762218--18762437 Score: 221
Period size: 81 Copynumber: 2.7 Consensus size: 81
18762208 GTTTACAAAA
** *
18762218 TTACCAAAATAGCCCTAGT-TTGTA-AAATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAA
1 TTACCAAAATA-CCCTAGTAGGGTAGAAA-TACCAAAATACCCCTGTAGGGTAGAATTACTGAAA
18762281 TACCCCTGTAGGGTAGAG
64 TACCCCTGTAGGGTAGAG
* * *
18762299 TTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACTGAAATA
1 TTACCAAAATACCCTAGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTGAAATA
* * *
18762364 CCCTTGTATGGTAGAA
66 CCCCTGTAGGGTAGAG
* * * * * * * * * *
18762380 ATACCGAGATACCCCT-GTGGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 TTACCAAAATA-CCCTAGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTAC
18762438 CATTTTGCCC
Statistics
Matches: 119, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 6 0.05
81 106 0.89
82 7 0.06
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (81 bp):
TTACCAAAATACCCTAGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACTGAAATA
CCCCTGTAGGGTAGAG
Found at i:18762449 original size:54 final size:54
Alignment explanation
Indices: 18762243--18762434 Score: 287
Period size: 54 Copynumber: 3.6 Consensus size: 54
18762233 TAGTTTGTAA
* * *
18762243 AATTACCAAAATACCCTTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
*
18762297 AGTTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* * * *
18762351 AATTACTGAAATACCCTTGTATGGTAGAAATACCGAGATACCCCTGTGGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
18762405 AATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAAAT
18762435 TACCATTTTG
Statistics
Matches: 125, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 4 0.03
54 121 0.97
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:18762601 original size:16 final size:16
Alignment explanation
Indices: 18762580--18762610 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18762570 CAAATATGGG
*
18762580 CATGACATTTTGCATA
1 CATGACATGTTGCATA
18762596 CATGACATGTTGCAT
1 CATGACATGTTGCAT
18762611 GGGTGGGGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:18764374 original size:42 final size:42
Alignment explanation
Indices: 18764316--18764461 Score: 220
Period size: 42 Copynumber: 3.5 Consensus size: 42
18764306 ATGCTAATAG
* *
18764316 CCCAGCTATGGTCTTACACGAAGTTTCATATAGATGTCATAT
1 CCCAGATATGGTCTTACACGAAGTTTCATATAGATGCCATAT
* * * *
18764358 CCCAAATATAGTCTTACATGAAGTTTCATATTGATGCCATAT
1 CCCAGATATGGTCTTACACGAAGTTTCATATAGATGCCATAT
* *
18764400 CCCAGATATGGTCTTACACGAAGTTTCCTATCGATGCCATAT
1 CCCAGATATGGTCTTACACGAAGTTTCATATAGATGCCATAT
18764442 CCCAGATATGGTCTTACACG
1 CCCAGATATGGTCTTACACG
18764462 TAAATCTCAA
Statistics
Matches: 93, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 93 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
CCCAGATATGGTCTTACACGAAGTTTCATATAGATGCCATAT
Found at i:18764441 original size:84 final size:84
Alignment explanation
Indices: 18764264--18764459 Score: 243
Period size: 84 Copynumber: 2.3 Consensus size: 84
18764254 TACCGTACCA
* * *
18764264 ATGCCATATCCCAAATATGTTCTTACATGTGATCTCGTATCGATGCTAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAAATATG-TCTTACATGAGATCTCATATCGATGCTAATAGCCCAGATATGGTC
18764329 TTACACGAAGTTTCATATAG
65 TTACACGAAGTTTCATATAG
* * * * *
18764349 ATGTCATATCCCAAATATAGTCTTACATGA-AGTTTCATATTGATGC-CATATCCCAGATATGGT
1 ATGCCATATCCCAAATAT-GTCTTACATGAGA-TCTCATATCGATGCTAATAGCCCAGATATGGT
* *
18764412 CTTACACGAAGTTTCCTATCG
64 CTTACACGAAGTTTCATATAG
*
18764433 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAAATAT-GTCTTACA
18764460 CGTAAATCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
84 58 0.60
85 37 0.39
86 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (84 bp):
ATGCCATATCCCAAATATGTCTTACATGAGATCTCATATCGATGCTAATAGCCCAGATATGGTCT
TACACGAAGTTTCATATAG
Found at i:18769530 original size:20 final size:20
Alignment explanation
Indices: 18769505--18769551 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18769495 TATCTCAAAC
18769505 CACATAGTTCATATACATTT-
1 CACATA-TTCATATACATTTA
* *
18769525 CACATATTCCTATTCATTTA
1 CACATATTCATATACATTTA
18769545 CACATAT
1 CACATAT
18769552 AGCATATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (20 bp):
CACATATTCATATACATTTA
Found at i:18769834 original size:42 final size:44
Alignment explanation
Indices: 18769724--18769880 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 44
18769714 AGCTCATGCA
* * *
18769724 ATTCCAACGTCCCAGACGTGGTCTTACATGTAAA-CAAATATCG
1 ATTCCAACATCCCAGACGTGGTCTTACACGTAAATAAAATATCG
* * **
18769767 ATGCC-ACTATCCCAAACAAGGTCTTACACG-AAATAAAATA-CG
1 ATTCCAAC-ATCCCAGACGTGGTCTTACACGTAAATAAAATATCG
* * *
18769809 ATTCCAACATCCCAGGCGTGGTCTTACACGTAAATCATAA-GTCG
1 ATTCCAACATCCCAGACGTGGTCTTACACGTAAAT-AAAATATCG
* * * *
18769853 ATGCGAACGTCCCAGATGTGGTCTTACA
1 ATTCCAACATCCCAGACGTGGTCTTACA
18769881 TGAAAACACA
Statistics
Matches: 89, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.33
43 32 0.36
44 28 0.31
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (44 bp):
ATTCCAACATCCCAGACGTGGTCTTACACGTAAATAAAATATCG
Found at i:18777485 original size:44 final size:43
Alignment explanation
Indices: 18777342--18777500 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
18777332 AGCTCGTACA
* * *
18777342 ATGCCAACGTCCTAGATGTGGTCTTACATGTAAA-CAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATAT-G
* *
18777385 ATGCC-ACTGTCCCAGACAG-GGTCTTACAC-AAAATCAAATACG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAATCAAATATG
18777427 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-TG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCA-AA-TATG
* *
18777471 ATGCCAACATCCCAGACGTGGTCTCACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
18777501 AAAACACATA
Statistics
Matches: 99, Mismatches: 9, Indels: 15
0.80 0.07 0.12
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 35 0.35
44 32 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAATCAAATATG
Found at i:18781057 original size:13 final size:13
Alignment explanation
Indices: 18781039--18781071 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
18781029 GTGCAGACTT
*
18781039 CACACGCCCAGGG
1 CACACGCCCAGAG
18781052 CACACGCCCAGAG
1 CACACGCCCAGAG
18781065 CACACGC
1 CACACGC
18781072 TCGTGCATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.27, C:0.48, G:0.24, T:0.00
Consensus pattern (13 bp):
CACACGCCCAGAG
Found at i:18783087 original size:40 final size:40
Alignment explanation
Indices: 18783038--18783132 Score: 181
Period size: 40 Copynumber: 2.4 Consensus size: 40
18783028 CGGATGTAAC
*
18783038 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
18783078 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
18783118 AACCCGCACGAATGC
1 AACCCGCACGAATGC
18783133 TATGCACATA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:18785801 original size:42 final size:42
Alignment explanation
Indices: 18785690--18785885 Score: 198
Period size: 42 Copynumber: 4.6 Consensus size: 42
18785680 TACCGTACCA
* * * * * * *
18785690 ATGCTATATCCCAAATATGGTCTTACATG-TGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAG-TTTCATATAG
* * *
18785732 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTTTAATATAG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTTTCATATAG
* *
18785775 ATGCCATATCCCAGATATGATCTTACACGAAGTTTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTTTCATATAG
* * * *
18785817 ATGCCAAATCCCAGATTTGGTCTTACACGATGTTTCCTATCA-
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTTTCATAT-AG
*
18785859 ATTCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
18785886 TGTAAATCTC
Statistics
Matches: 127, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 95 0.75
43 31 0.24
44 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTTTCATATAG
Found at i:18785872 original size:84 final size:85
Alignment explanation
Indices: 18785727--18785885 Score: 223
Period size: 84 Copynumber: 1.9 Consensus size: 85
18785717 TGTGATCTCG
*
18785727 TATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAGTTTAATATAGATGCCATATCCCAGATA
1 TATCGATGCCAATAGCCCAGATATGGTCTTACACGAAGTTTAATATAGATGCCATATCCCAGATA
18785792 TGATCTTACACGAAGTTTCA
66 TGATCTTACACGAAGTTTCA
* * * ** *
18785812 TATCGATGCCAA-ATCCCAGATTTGGTCTTACACGATGTTTCCTATCA-ATTCCATATCCCAGAT
1 TATCGATGCCAATAGCCCAGATATGGTCTTACACGAAGTTTAATAT-AGATGCCATATCCCAGAT
*
18785875 ATGGTCTTACA
65 ATGATCTTACA
18785886 TGTAAATCTC
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 52 0.80
85 13 0.20
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (85 bp):
TATCGATGCCAATAGCCCAGATATGGTCTTACACGAAGTTTAATATAGATGCCATATCCCAGATA
TGATCTTACACGAAGTTTCA
Found at i:18788570 original size:31 final size:30
Alignment explanation
Indices: 18788524--18788585 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 30
18788514 TTCATCCAGG
*
18788524 TAAGCCTTTTTTTCTTCCGTTCTTCAACTT
1 TAAGCCTTTTTTTCTTCCATTCTTCAACTT
*
18788554 TAAGCTTTCTTTTTCTTCCATTCTTCAACTT
1 TAAGCCTT-TTTTTCTTCCATTCTTCAACTT
18788585 T
1 T
18788586 TTCCATCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.24
31 22 0.76
ACGTcount: A:0.15, C:0.26, G:0.05, T:0.55
Consensus pattern (30 bp):
TAAGCCTTTTTTTCTTCCATTCTTCAACTT
Found at i:18790969 original size:92 final size:92
Alignment explanation
Indices: 18790858--18791026 Score: 302
Period size: 92 Copynumber: 1.8 Consensus size: 92
18790848 CCCATAAGCG
* * *
18790858 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
18790923 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
18790950 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
18791015 GAGTTCGGATGC
66 GAGTTCGGATGC
18791027 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:18791023 original size:46 final size:46
Alignment explanation
Indices: 18790849--18791023 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
18790839 TGTAACCCGC
* * * * *
18790849 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
18790895 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
18790945 -C-TCA--CAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
18790987 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
18791024 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
41 2 0.02
42 4 0.04
43 2 0.02
44 2 0.02
46 90 0.83
48 2 0.02
49 2 0.02
50 2 0.02
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:18794223 original size:20 final size:19
Alignment explanation
Indices: 18794179--18794224 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
18794169 CATCCAAACA
18794179 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
*
18794198 CGAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCA-TTT
18794218 CCAGAAA
1 CCAGAAA
18794225 TCATTTTTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:18795387 original size:6 final size:6
Alignment explanation
Indices: 18795378--18795406 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
18795368 AATAAACATA
18795378 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA
18795407 CAAATGGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAAAT
Found at i:18796907 original size:20 final size:21
Alignment explanation
Indices: 18796884--18796923 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
18796874 TGTCTACTTC
*
18796884 AGTGGTTAAG-TGTCTTGGGA
1 AGTGGTTAAGAAGTCTTGGGA
*
18796904 AGTGTTTAAGAAGTCTTGGG
1 AGTGGTTAAGAAGTCTTGGG
18796924 TTCAAGCCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.23, C:0.05, G:0.38, T:0.35
Consensus pattern (21 bp):
AGTGGTTAAGAAGTCTTGGGA
Found at i:18806883 original size:13 final size:13
Alignment explanation
Indices: 18806865--18806922 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 13
18806855 AATTAATTCT
18806865 TTATTAATTATTA
1 TTATTAATTATTA
*
18806878 TTATT-ATTTTTA
1 TTATTAATTATTA
* *
18806890 GT-TCAATTATTTA
1 TTATTAATTA-TTA
18806903 TTA-TAATTATTA
1 TTATTAATTATTA
*
18806915 TTTTTAAT
1 TTATTAAT
18806923 CAATTGTTCT
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
11 1 0.03
12 15 0.44
13 18 0.53
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (13 bp):
TTATTAATTATTA
Found at i:18809492 original size:13 final size:13
Alignment explanation
Indices: 18809474--18809499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
18809464 ATGTTCTTTT
18809474 GTTTCTATTGTTA
1 GTTTCTATTGTTA
18809487 GTTTCTATTGTTA
1 GTTTCTATTGTTA
18809500 AATTTTCTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
GTTTCTATTGTTA
Found at i:18812928 original size:24 final size:24
Alignment explanation
Indices: 18812895--18813017 Score: 160
Period size: 24 Copynumber: 5.2 Consensus size: 24
18812885 GGCCTTGCCT
*
18812895 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18812919 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18812943 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* * *
18812966 CTTTTGATAACTAGGGTATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
**
18812990 C-TTTAATAACTAAGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18813013 CTTTT
1 CTTTT
18813018 TCACTTCCTC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 41 0.48
24 45 0.52
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:18812952 original size:47 final size:47
Alignment explanation
Indices: 18812897--18813018 Score: 181
Period size: 47 Copynumber: 2.6 Consensus size: 47
18812887 CCTTGCCTCT
* *
18812897 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
* * *
18812944 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTAGGGTATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
**
18812991 TTTAATAACTAAGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
18813019 CACTTCCTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.31
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTAGGGCATAAGCCC
Found at i:18812955 original size:23 final size:23
Alignment explanation
Indices: 18812897--18813016 Score: 150
Period size: 23 Copynumber: 5.1 Consensus size: 23
18812887 CCTTGCCTCT
*
18812897 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18812920 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18812944 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* * *
18812967 TTTTGATAACTAGGGTATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
**
18812991 TTTAATAACTAAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18813014 TTT
1 TTT
18813017 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
23 44 0.52
24 40 0.48
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18813093 original size:20 final size:20
Alignment explanation
Indices: 18813068--18813106 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
18813058 TATGAATACA
18813068 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATG
18813088 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
18813107 ACCATGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATG
Found at i:18813112 original size:20 final size:20
Alignment explanation
Indices: 18813069--18813113 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
18813059 ATGAATACAT
**
18813069 CATGTGCATATCATACATGT
1 CATGTGCATATCATACATAC
18813089 CATGTGCATATCATACATAC
1 CATGTGCATATCATACATAC
18813109 CATGT
1 CATGT
18813114 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.33
Consensus pattern (20 bp):
CATGTGCATATCATACATAC
Found at i:18813182 original size:25 final size:25
Alignment explanation
Indices: 18813150--18813197 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
18813140 ATACATAAAC
* *
18813150 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
18813175 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
18813198 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:18821021 original size:24 final size:24
Alignment explanation
Indices: 18820988--18821110 Score: 196
Period size: 24 Copynumber: 5.2 Consensus size: 24
18820978 GGCCTTGCCT
*
18820988 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18821012 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18821036 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
18821059 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18821083 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
18821106 CTTTT
1 CTTTT
18821111 TCACTTCTCC
Statistics
Matches: 90, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
23 43 0.48
24 47 0.52
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:18821045 original size:47 final size:47
Alignment explanation
Indices: 18820990--18821111 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
18820980 CCTTGCCTCT
*
18820990 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
* *
18821037 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
18821084 TTTAATAACTGGGGCATAAGCCCTTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTTT
18821112 CACTTCTCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGCCC
Found at i:18821048 original size:23 final size:23
Alignment explanation
Indices: 18820990--18821109 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
18820980 CCTTGCCTCT
*
18820990 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18821013 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
18821037 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
18821060 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
18821084 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
18821107 TTT
1 TTT
18821110 TTCACTTCTC
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
23 46 0.52
24 42 0.48
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:18821184 original size:20 final size:20
Alignment explanation
Indices: 18821159--18821225 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
18821149 TTATGAATAC
18821159 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
18821179 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18821199 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
18821219 ACCATGT
1 ATCATGT
18821226 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:18821190 original size:11 final size:11
Alignment explanation
Indices: 18821159--18821214 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
18821149 TTATGAATAC
18821159 ATCATGTGCAT
1 ATCATGTGCAT
*
18821170 ATCA--TACAT
1 ATCATGTGCAT
18821179 ATCATGTGCAT
1 ATCATGTGCAT
*
18821190 ATCA--TACAT
1 ATCATGTGCAT
*
18821199 GTCATGTGCAT
1 ATCATGTGCAT
18821210 ATCAT
1 ATCAT
18821215 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:18821294 original size:25 final size:25
Alignment explanation
Indices: 18821262--18821309 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18821252 ATACATAAAC
* * *
18821262 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
18821287 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
18821310 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:18823729 original size:18 final size:20
Alignment explanation
Indices: 18823684--18823731 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
18823674 AACTAGCTAG
18823684 AATAAAATCAACAATGAAAGT
1 AATAAAA-CAACAATGAAAGT
*
18823705 AACTAAAACAA-AATGAATGT
1 AA-TAAAACAACAATGAAAGT
18823725 -ATAAAAC
1 AATAAAAC
18823732 TGCAGAATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 6 0.24
19 1 0.04
20 8 0.32
21 5 0.20
22 5 0.20
ACGTcount: A:0.62, C:0.10, G:0.08, T:0.19
Consensus pattern (20 bp):
AATAAAACAACAATGAAAGT
Found at i:18823894 original size:12 final size:12
Alignment explanation
Indices: 18823865--18823901 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
18823855 AAACCAATAC
18823865 AAATAAA-ATAAT
1 AAATAAAGA-AAT
18823877 -AATAAAGAAAT
1 AAATAAAGAAAT
18823888 AAATAAAGAAAT
1 AAATAAAGAAAT
18823900 AA
1 AA
18823902 TAATAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (12 bp):
AAATAAAGAAAT
Found at i:18834699 original size:10 final size:10
Alignment explanation
Indices: 18834686--18834724 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
18834676 ATATGTGAAT
18834686 ATATCATGGC
1 ATATCATGGC
18834696 ATATCATGTGC
1 ATATCATG-GC
18834707 ATATCATGGC
1 ATATCATGGC
18834717 ATATCATG
1 ATATCATG
18834725 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:18834712 original size:21 final size:21
Alignment explanation
Indices: 18834686--18834725 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
18834676 ATATGTGAAT
18834686 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
18834707 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
18834726 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:18846495 original size:7 final size:7
Alignment explanation
Indices: 18846483--18846557 Score: 96
Period size: 7 Copynumber: 10.6 Consensus size: 7
18846473 AAAGTAAGAC
18846483 GGTTTAG
1 GGTTTAG
18846490 GGTTTAG
1 GGTTTAG
*
18846497 GGTTTTAA
1 GG-TTTAG
*
18846505 AGTTTAG
1 GGTTTAG
*
18846512 GGTTTAA
1 GGTTTAG
*
18846519 GGTTTAA
1 GGTTTAG
*
18846526 GGTTTAA
1 GGTTTAG
18846533 GGTTTAG
1 GGTTTAG
18846540 GGTTTAG
1 GGTTTAG
18846547 GGTTTAG
1 GGTTTAG
18846554 GGTT
1 GGTT
18846558 AATACAAATA
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.20, C:0.00, G:0.36, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:18848642 original size:10 final size:10
Alignment explanation
Indices: 18848610--18848643 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
18848600 CGTTTTGTCC
18848610 CTTTTTGGCT
1 CTTTTTGGCT
18848620 CGTTTTTGGCT
1 C-TTTTTGGCT
*
18848631 CTTTTTGACT
1 CTTTTTGGCT
18848641 CTT
1 CTT
18848644 GGTGCTCTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.03, C:0.21, G:0.18, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:18870278 original size:10 final size:9
Alignment explanation
Indices: 18870253--18870278 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
18870243 AGTATTAAAT
18870253 ATTAAAAAC
1 ATTAAAAAC
18870262 ATTAAAAAC
1 ATTAAAAAC
18870271 ATTAAAAA
1 ATTAAAAA
18870279 TTTTGAAAAT
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (9 bp):
ATTAAAAAC
Found at i:18872265 original size:81 final size:83
Alignment explanation
Indices: 18872180--18872342 Score: 224
Period size: 81 Copynumber: 2.0 Consensus size: 83
18872170 TGGGCGTATA
* *
18872180 GAGATAGCTTCGGCTAT-ATAAAGCACTTAGTGTGCGA-ATTGGAATAGCTTCGGCTAT-ATATG
1 GAGATAGCTTCGGCTATGA-AAAGCACTTAGTGTGCGATATTAGAATAGCTTCAGCTATGATATG
*
18872242 GCACTTAATGTGTGAGATT
65 GCACTTAATGTGCGAGATT
* * * * *
18872261 GAGATAGCTTCGGCTATGAAAGGCACTTAGTGTGCGATATTATAATAGTTTCAGCTATGCTTTGG
1 GAGATAGCTTCGGCTATGAAAAGCACTTAGTGTGCGATATTAGAATAGCTTCAGCTATGATATGG
18872326 CACTTAATGTGCGAGAT
66 CACTTAATGTGCGAGAT
18872343 ATCGAGTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
81 34 0.48
82 17 0.24
83 20 0.28
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (83 bp):
GAGATAGCTTCGGCTATGAAAAGCACTTAGTGTGCGATATTAGAATAGCTTCAGCTATGATATGG
CACTTAATGTGCGAGATT
Found at i:18872286 original size:41 final size:40
Alignment explanation
Indices: 18872161--18872297 Score: 170
Period size: 40 Copynumber: 3.4 Consensus size: 40
18872151 GATTATGTTT
* * *
18872161 GGCACTTAGTGGGCGTATAGAGATAGCTTCGGCTATATAA
1 GGCACTTAGTGTGCGAATTGAGATAGCTTCGGCTATATAA
* *
18872201 AGCACTTAGTGTGCGAATTG-GAATAGCTTCGGCTATATAT
1 GGCACTTAGTGTGCGAATTGAG-ATAGCTTCGGCTATATAA
* *
18872241 GGCACTTAATGTGTGAGATTGAGATAGCTTCGGCTATGA-AA
1 GGCACTTAGTGTGCGA-ATTGAGATAGCTTCGGCTAT-ATAA
18872282 GGCACTTAGTGTGCGA
1 GGCACTTAGTGTGCGA
18872298 TATTATAATA
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 1 0.01
40 46 0.56
41 33 0.40
42 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATTGAGATAGCTTCGGCTATATAA
Found at i:18872318 original size:41 final size:40
Alignment explanation
Indices: 18872161--18872339 Score: 141
Period size: 41 Copynumber: 4.4 Consensus size: 40
18872151 GATTATGTTT
* *
18872161 GGCACTTAGTGGGCGTA-TAGAGATAGCTTCGGCTAT-ATAA
1 GGCACTTAGTGTGCGAATTA-A-ATAGCTTCGGCTATGATAA
* * *
18872201 AGCACTTAGTGTGCGAATTGGAATAGCTTCGGCTAT-ATAT
1 GGCACTTAGTGTGCGAATT-AAATAGCTTCGGCTATGATAA
* * *
18872241 GGCACTTAATGTGTGAGATTGAGATAGCTTCGGCTATGA-AA
1 GGCACTTAGTGTGCGA-ATT-AAATAGCTTCGGCTATGATAA
* * * **
18872282 GGCACTTAGTGTGCGATATTATAATAGTTTCAGCTATGCTTT
1 GGCACTTAGTGTGCGA-ATTA-AATAGCTTCGGCTATGATAA
*
18872324 GGCACTTAATGTGCGA
1 GGCACTTAGTGTGCGA
18872340 GATATCGAGT
Statistics
Matches: 112, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
40 45 0.40
41 51 0.46
42 16 0.14
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.32
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATTAAATAGCTTCGGCTATGATAA
Found at i:18877310 original size:43 final size:43
Alignment explanation
Indices: 18877225--18877311 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
18877215 TGGGGTCTTT
*
18877225 AAAGAGCAATTAGACCCTTTAAAGAGGCATGAACGTCTATAGG
1 AAAGAGCAATTAGACCCTTTAAAGAGGCATGAACGTCCATAGG
**
18877268 AAAGAGCAATTAGACCCTTTAAAGAGGCATGGCCGTCCATAGG
1 AAAGAGCAATTAGACCCTTTAAAGAGGCATGAACGTCCATAGG
18877311 A
1 A
18877312 GACAAAGATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (43 bp):
AAAGAGCAATTAGACCCTTTAAAGAGGCATGAACGTCCATAGG
Found at i:18878377 original size:46 final size:45
Alignment explanation
Indices: 18878233--18878394 Score: 159
Period size: 46 Copynumber: 3.5 Consensus size: 45
18878223 TTTGTGTGCT
* * *
18878233 AGTGTAAGACATGTCTGGGACATGCATTGACCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCA-TGGCCTCGA-GATGAGAGCC
* * * *
18878279 AGTGTAAGACCATATCTGGGACATGACAGTGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CA-TGGCCTCGAGATGAGAGCC
*
18878327 AGTGTAGGACATGTCTGGGACATGCATCGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCAT-GGCCTCGAGATG-AGAGCC
*
18878373 AGTGTAAGACATG-ATGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
18878395 ACATTGGCTA
Statistics
Matches: 96, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
45 9 0.09
46 36 0.38
47 29 0.30
48 21 0.22
49 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATGGCCTCGAGATGAGAGCC
Found at i:18880457 original size:22 final size:22
Alignment explanation
Indices: 18880416--18880457 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
18880406 TGAAGAATGA
*
18880416 AGAAAAAGGGAAAATGAAATTG
1 AGAAAAAGGGAAAATAAAATTG
18880438 AGAAAAAGGGAAGAA-AAAAT
1 AGAAAAAGGGAA-AATAAAAT
18880458 GAGGAACGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.64, C:0.00, G:0.26, T:0.10
Consensus pattern (22 bp):
AGAAAAAGGGAAAATAAAATTG
Found at i:18880460 original size:21 final size:21
Alignment explanation
Indices: 18880411--18880460 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
18880401 AAAATTGAAG
18880411 AATGAAGAAAAAGGGAAAATGAA
1 AATG-AGAAAAAGGGAAAA-GAA
*
18880434 ATTGAGAAAAAGGGAAGAA-AA
1 AATGAGAAAAAGGGAA-AAGAA
18880455 AATGAG
1 AATGAG
18880461 GAACGTCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 7 0.29
22 12 0.50
23 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (21 bp):
AATGAGAAAAAGGGAAAAGAA
Found at i:18882360 original size:27 final size:27
Alignment explanation
Indices: 18882330--18882443 Score: 151
Period size: 27 Copynumber: 4.2 Consensus size: 27
18882320 GCCAAAAAAA
* *
18882330 TCATTTTACCTTATAAGGGCGAAA-TAG
1 TCATTTTACCTCATAAGGGCAAAACT-G
* *
18882357 TCATTTTACCTTATAAGGGTAAAACTG
1 TCATTTTACCTCATAAGGGCAAAACTG
*
18882384 TCATTTTACCTCATAAAGGCAAAACTG
1 TCATTTTACCTCATAAGGGCAAAACTG
18882411 TCATTTTACCTCATAAGGGCAAAA-TAG
1 TCATTTTACCTCATAAGGGCAAAACT-G
18882438 TCATTT
1 TCATTT
18882444 CACCAATTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.97
28 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (27 bp):
TCATTTTACCTCATAAGGGCAAAACTG
Found at i:18883935 original size:18 final size:18
Alignment explanation
Indices: 18883891--18883935 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
18883881 CTATTACAGA
18883891 AACAGTAAATAATGCAGT
1 AACAGTAAATAATGCAGT
* *
18883909 AACAATAAATAGTGCAGT
1 AACAGTAAATAATGCAGT
*
18883927 ATCAGTAAA
1 AACAGTAAA
18883936 CAGTATGCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.22
Consensus pattern (18 bp):
AACAGTAAATAATGCAGT
Found at i:18890198 original size:10 final size:10
Alignment explanation
Indices: 18890180--18890222 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
18890170 TTATGAATCA
*
18890180 TATGTTTTGG
1 TATGATTTGG
18890190 TATGATTTGG
1 TATGATTTGG
18890200 CCTTATGATTTGG
1 ---TATGATTTGG
18890213 TATGATTTGG
1 TATGATTTGG
18890223 CATGTATTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
10 19 0.66
13 10 0.34
ACGTcount: A:0.16, C:0.05, G:0.28, T:0.51
Consensus pattern (10 bp):
TATGATTTGG
Found at i:18890206 original size:23 final size:23
Alignment explanation
Indices: 18890180--18890223 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
18890170 TTATGAATCA
*
18890180 TATGTTTTGGTATGATTTGGCCT
1 TATGATTTGGTATGATTTGGCCT
18890203 TATGATTTGGTATGATTTGGC
1 TATGATTTGGTATGATTTGGC
18890224 ATGTATTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.16, C:0.07, G:0.27, T:0.50
Consensus pattern (23 bp):
TATGATTTGGTATGATTTGGCCT
Found at i:18895854 original size:18 final size:17
Alignment explanation
Indices: 18895831--18895864 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
18895821 TAGCTGTGCC
18895831 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
18895849 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
18895865 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:18897013 original size:20 final size:20
Alignment explanation
Indices: 18896970--18897039 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
18896960 ATTTTGATAA
18896970 ACATGATATGTATGATAT-C
1 ACATGATATGTATGATATGC
*
18896989 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
18897009 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
18897029 ACATGAGATGT
1 ACATGATATGT
18897040 TCATAAATGC
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 17 0.36
20 30 0.64
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:18897141 original size:24 final size:24
Alignment explanation
Indices: 18897084--18897250 Score: 232
Period size: 24 Copynumber: 7.0 Consensus size: 24
18897074 GGAGGAAGTG
*
18897084 CAAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
18897108 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
18897131 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
18897155 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
18897179 -TAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
18897202 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
18897226 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
18897251 ATGATAAAGC
Statistics
Matches: 131, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
23 43 0.33
24 77 0.59
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:18897184 original size:47 final size:46
Alignment explanation
Indices: 18897086--18897251 Score: 226
Period size: 47 Copynumber: 3.5 Consensus size: 46
18897076 AGGAAGTGCA
* * *
18897086 AAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-T
18897133 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATT
*
18897180 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTA-TAAAAGGGCTTATGCCCCAGTTATT
*
18897227 AAAAGAGGC-TAGGCCTCCAGTTATA
1 -AAAG-GGCTTATGCC-CCAGTTATA
18897252 TGATAAAGCA
Statistics
Matches: 109, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
47 65 0.60
48 34 0.31
49 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
Found at i:18897200 original size:71 final size:71
Alignment explanation
Indices: 18897084--18897250 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
18897074 GGAGGAAGTG
*
18897084 CAAAAGGGCTTATGCCCCAATTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
18897149 AGTTAT
66 AGTTAT
* *
18897155 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCC
1 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
18897220 AGTTAT
66 AGTTAT
* *
18897226 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 CAAAAG-GGCTTATGCC-CCAGTTAT
18897251 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 78 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (71 bp):
CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTAT
Found at i:18898514 original size:45 final size:45
Alignment explanation
Indices: 18898465--18898555 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
18898455 GTGCTAGATG
18898465 TTAAAAGTGCCTATTTGATTTGGCTTTATAAATGAGGGGTCCTTA
1 TTAAAAGTGCCTATTTGATTTGGCTTTATAAATGAGGGGTCCTTA
18898510 TTAAAAGTGCCTATTTGATTTGGCTTTATAAATGAGGGGTCCTTA
1 TTAAAAGTGCCTATTTGATTTGGCTTTATAAATGAGGGGTCCTTA
18898555 T
1 T
18898556 GATGCAAATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (45 bp):
TTAAAAGTGCCTATTTGATTTGGCTTTATAAATGAGGGGTCCTTA
Found at i:18899429 original size:137 final size:138
Alignment explanation
Indices: 18899236--18899505 Score: 472
Period size: 138 Copynumber: 2.0 Consensus size: 138
18899226 TAAAGGGGTT
* * *
18899236 TTGTTTTAGCTAATTAATTATCTAAACTAAGAATTCACAAAAAATAGAATTAGGGG-ATTACTTT
1 TTGTTTTAACTAACTAATTATCTAAACTAAGAATTCAAAAAAAATAGAATTAGGGGAATTACTTT
* *
18899300 TGGAAAACGATTGAATTAAGACAATACCTAAGGAAGAATCCACCTAGACTTCATTTGTTATTCTG
66 TGGAAAACGATTGAATTAAGACAATACATAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTG
18899365 ACTCCAAA
131 ACTCCAAA
18899373 TTGTTTTAACTAACTAATTATCTAAACTAAGAATTCAAAAAACAATAGAATT-GGGGAATTACTT
1 TTGTTTTAACTAACTAATTATCTAAACTAAGAATTCAAAAAA-AATAGAATTAGGGGAATTACTT
18899437 TTGGAAAACGATTGAATTAAGACAATACATAAGGAAGAATCCACCTAGACTTCACTTGTTATTCT
65 TTGGAAAACGATTGAATTAAGACAATACATAAGGAAGAATCCACCTAGACTTCACTTGTTATTCT
18899502 GACT
130 GACT
18899506 TCGAATCGGA
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
137 43 0.34
138 83 0.66
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (138 bp):
TTGTTTTAACTAACTAATTATCTAAACTAAGAATTCAAAAAAAATAGAATTAGGGGAATTACTTT
TGGAAAACGATTGAATTAAGACAATACATAAGGAAGAATCCACCTAGACTTCACTTGTTATTCTG
ACTCCAAA
Found at i:18904258 original size:13 final size:13
Alignment explanation
Indices: 18904240--18904264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18904230 TGTTTGTGCT
18904240 CACGGCCATGTCG
1 CACGGCCATGTCG
18904253 CACGGCCATGTC
1 CACGGCCATGTC
18904265 TGGCTTTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.28, T:0.16
Consensus pattern (13 bp):
CACGGCCATGTCG
Found at i:18906000 original size:19 final size:19
Alignment explanation
Indices: 18905976--18906013 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
18905966 CGGGCCACGA
18905976 TGGGCCGAAATGGG-CTATG
1 TGGGCC-AAATGGGCCTATG
*
18905995 TGGGCCCAATGGGCCTATG
1 TGGGCCAAATGGGCCTATG
18906014 AGCCCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (19 bp):
TGGGCCAAATGGGCCTATG
Found at i:18906251 original size:27 final size:27
Alignment explanation
Indices: 18906232--18906446 Score: 279
Period size: 27 Copynumber: 8.0 Consensus size: 27
18906222 ATTACCAAAG
*
18906232 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
18906259 TACCCTCGATTTATAAAATTACCATGT
1 TACCCTCGATTTATAGAATTACCATTT
* *
18906286 TACCCTCAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* ** *
18906313 TACTCTTAATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
18906340 TACCCT-GATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
***
18906366 TACCCTCGATTTATAGAATTACCAAAG
1 TACCCTCGATTTATAGAATTACCATTT
* *
18906393 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
* *
18906420 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
18906447 ACTCTTAGTT
Statistics
Matches: 163, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 24 0.15
27 139 0.85
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:18906432 original size:107 final size:106
Alignment explanation
Indices: 18906205--18906483 Score: 317
Period size: 107 Copynumber: 2.6 Consensus size: 106
18906195 ATTACTGAAA
* ** **
18906205 TACCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACC-ATTTACCCT-GATTTATAGAATTACCGTTTTACCCTCGATT
*
18906270 TATAAAATTACCATGTTACCCTCAATTTATAGAATTACCGTTT
64 TATAAAATTACCAAGTTACCCTCAATTTATAGAATTACCGTTT
* * * * * *
18906313 TACTCTTAATTTATAGAATTACCGTTTTACCCTGATTTATAGAATTACCATTTTACCCTCGATTT
1 TACCCTCAATTTACAAAATTACC-ATTTACCCTGATTTATAGAATTACCGTTTTACCCTCGATTT
* * *
18906378 ATAGAATTACCAAAG-TACCCTCGATTTATAGAATTATCGTTT
65 ATAAAATTACC-AAGTTACCCTCAATTTATAGAATTACCGTTT
* * * * * *
18906420 TACCCTCGATTTACAAAATTACCATTTACTCTTAGTTTACAAAATTACCGTTTTACCATCGATT
1 TACCCTCAATTTACAAAATTACCATTTACCCTGA-TTTATAGAATTACCGTTTTACCCTCGATT
18906484 CTGAAATTAC
Statistics
Matches: 143, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
106 8 0.06
107 109 0.76
108 26 0.18
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (106 bp):
TACCCTCAATTTACAAAATTACCATTTACCCTGATTTATAGAATTACCGTTTTACCCTCGATTTA
TAAAATTACCAAGTTACCCTCAATTTATAGAATTACCGTTT
Found at i:18906482 original size:80 final size:79
Alignment explanation
Indices: 18906232--18906483 Score: 299
Period size: 80 Copynumber: 3.1 Consensus size: 79
18906222 ATTACCAAAG
* *
18906232 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATGTTACCCTCAATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCAT-TTA-CCTTAGTT
18906297 TATAGAATTACCGTTT
64 TATAGAATTACCGTTT
* ** * * *
18906313 TACTCTTAATTTATAGAATTACCGTTTTACCCT-GATTTATAGAATTACCATTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCA-TTTACCTTAG-TT
****
18906377 TATAGAATTACCAAAG
64 TATAGAATTACCGTTT
* *
18906393 TACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACCATTTACTCTTAGTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTAC-CTTAGTTT
* *
18906458 ACAAAATTACCGTTT
65 ATAGAATTACCGTTT
*
18906473 TACCATCGATT
1 TACCCTCGATT
18906484 CTGAAATTAC
Statistics
Matches: 140, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
79 2 0.01
80 89 0.64
81 49 0.35
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (79 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAAAATTACCATTTACCTTAGTTTA
TAGAATTACCGTTT
Done.