Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 19 of 34
Found at i:2842122 original size:169 final size:168
Alignment explanation
Indices: 2841682--2842285 Score: 865
Period size: 169 Copynumber: 3.6 Consensus size: 168
2841672 GAGAAGGGAG
* * *
2841682 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
* *
2841745 AAGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCT
66 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--------AAAAA-GTGCCACGGAGTCGTGGGCT
* * * *
2841810 TT--------AAAAAGAGTGCCACAGAGTCGTGGGTTTTAAAAAGAA
122 TTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
* ** *
2841849 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAGAAG-GTGCCATGGAGCTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-A
* *
2841911 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAG
65 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAG
2841976 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
130 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
2842015 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTGA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-A
* *
2842080 AAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAACAGTGCCACGGAGTCGTGGGCTTTGAAAAG
65 AAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAG
2842145 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
130 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
2842184 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
2842249 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
66 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
2842286 AAGAAGGTGC
Statistics
Matches: 402, Mismatches: 21, Indels: 27
0.89 0.05 0.06
Matches are distributed among these distances:
158 21 0.05
159 4 0.01
166 84 0.21
167 58 0.14
168 45 0.11
169 190 0.47
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (168 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGTGCCACGGAGTCGTGGGCTTTGAAAAGA
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACAGAA
Found at i:2842309 original size:104 final size:107
Alignment explanation
Indices: 2842116--2842313 Score: 330
Period size: 104 Copynumber: 1.9 Consensus size: 107
2842106 GGCTTTAAAC
* *
2842116 AGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA
1 AGTGCCACAGAGTCGTGGGCTTT-AAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
2842181 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAG
65 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAG
*
2842224 AGTGCCACAGAGTTGTGGGCTTT-AAA-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AGTGCCACAGAGTCGTGGGCTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
*
2842286 AAGAAGGTGCCACGGAGTTGTGGGCTTT
66 AAAAAGGTGCCACGGAGTTGTGGGCTTT
2842314 AAACAGTCCC
Statistics
Matches: 86, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
104 54 0.63
105 8 0.09
106 3 0.03
108 21 0.24
ACGTcount: A:0.31, C:0.13, G:0.35, T:0.21
Consensus pattern (107 bp):
AGTGCCACAGAGTCGTGGGCTTTAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAG
Found at i:2848666 original size:27 final size:27
Alignment explanation
Indices: 2848602--2848695 Score: 75
Period size: 27 Copynumber: 3.4 Consensus size: 27
2848592 CTTTCACTTG
2848602 TGAAATTTTTAATTAAACTTTCCACCTA
1 TGAAATTTTTAATTAAAC-TTCCACCTA
* * **
2848630 TGAAAATTTTAATTAGA-TTCCTATTTA
1 TGAAATTTTTAATTAAACTTCC-ACCTA
* * **
2848657 TGAAATTTTTAGTTGAATCTTTAACCTA
1 TGAAATTTTTAATT-AAACTTCCACCTA
2848685 TG-AATTTTTAA
1 TGAAATTTTTAA
2848696 AATTACATAT
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
26 4 0.08
27 23 0.46
28 21 0.42
29 2 0.04
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (27 bp):
TGAAATTTTTAATTAAACTTCCACCTA
Found at i:2849167 original size:4 final size:4
Alignment explanation
Indices: 2849160--2849228 Score: 88
Period size: 4 Copynumber: 17.8 Consensus size: 4
2849150 AAGAGAAAAA
* * *
2849160 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAA AAAC AGAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
*
2849208 AAA- AAAG AAA- AAAA AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAA
2849229 TTCTTGCAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 6 0.11
4 51 0.89
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:2849287 original size:15 final size:15
Alignment explanation
Indices: 2849269--2849299 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2849259 TTTTTTTTCC
2849269 TCTTATTCATCTTCA
1 TCTTATTCATCTTCA
*
2849284 TCTTCTTCATCTTCA
1 TCTTATTCATCTTCA
2849299 T
1 T
2849300 TCTATTTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.29, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTATTCATCTTCA
Found at i:2851809 original size:22 final size:20
Alignment explanation
Indices: 2851763--2851835 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
2851753 CAAGGAAATA
* *
2851763 TATCGATACATTAATAAATG
1 TATCGATACATTTATAATTG
2851783 TATCGATACATGCTTCA-AATTG
1 TATCGATACAT--TT-ATAATTG
*
2851805 TATCGATACATTTATCATTG
1 TATCGATACATTTATAATTG
2851825 TATCGATACAT
1 TATCGATACAT
2851836 CTAGGTTTTT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.61
22 16 0.35
23 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (20 bp):
TATCGATACATTTATAATTG
Found at i:2855955 original size:20 final size:20
Alignment explanation
Indices: 2855930--2856010 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
2855920 TTTTAACTAG
2855930 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2855950 ATGTATCGATACATCTGGGTAAAAGACAGA
1 ATGTATCGATACAT-T--G----A-A-A-A
2855980 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
2856000 ATGTATCGATA
1 ATGTATCGATA
2856011 AATCTAGGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 20
0.72 0.00 0.28
Matches are distributed among these distances:
20 26 0.51
21 2 0.04
22 1 0.02
23 2 0.04
27 2 0.04
28 1 0.02
29 2 0.04
30 15 0.29
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:2862872 original size:15 final size:16
Alignment explanation
Indices: 2862842--2862874 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
2862832 CTATTTTTTA
2862842 TTCCTTGACTTGTGTTG
1 TTCCTTGAC-TGTGTTG
2862859 TTCCTTGA-TGTGTTG
1 TTCCTTGACTGTGTTG
2862874 T
1 T
2862875 GGTGGGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TTCCTTGACTGTGTTG
Found at i:2864093 original size:20 final size:20
Alignment explanation
Indices: 2864068--2864120 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2864058 GTTGGGCACA
** *
2864068 ATGTATTGATACTTTTTACC
1 ATGTATTGATACAATGTACC
* *
2864088 ATGTATCGATACAATGTCCC
1 ATGTATTGATACAATGTACC
2864108 ATGTATTGATACA
1 ATGTATTGATACA
2864121 TTGCACTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATTGATACAATGTACC
Found at i:2864194 original size:19 final size:20
Alignment explanation
Indices: 2864149--2864202 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
2864139 CTACTGGTTT
2864149 CATGTATCGATACAATTAAG
1 CATGTATCGATACAATTAAG
* *
2864169 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTAAG
2864188 CATGTATCGATACAA
1 CATGTATCGATACAA
2864203 AGCATAATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTAAG
Found at i:2867540 original size:20 final size:20
Alignment explanation
Indices: 2867512--2867655 Score: 130
Period size: 20 Copynumber: 6.8 Consensus size: 20
2867502 AAAATGCCTG
* *
2867512 AATGTATCGATACATTGTA-
1 AATGTATCGATACAATGAAC
2867531 AATGGTATCGATACAATGAAC
1 AAT-GTATCGATACAATGAAC
* *
2867552 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGAAC
2867572 AATGTATCGATACAATGCAA-
1 AATGTATCGATACAATG-AAC
*
2867592 AATGTATCGATACATCTGGGTAAACCC
1 AATGTATCGATACA-AT--G--AA--C
2867619 AGAATGTATCGATACAATGAAC
1 --AATGTATCGATACAATGAAC
2867641 AATGTATCGATACAA
1 AATGTATCGATACAA
2867656 ATTGTGAAAA
Statistics
Matches: 104, Mismatches: 9, Indels: 23
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.03
20 74 0.71
21 5 0.05
22 1 0.01
23 1 0.01
24 4 0.04
26 1 0.01
28 1 0.01
29 14 0.13
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:2868274 original size:41 final size:39
Alignment explanation
Indices: 2868155--2868283 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 39
2868145 TTTAGGAGGG
* * *
2868155 AAAGAAATGGAAAGGGTGTCCCACTTTTTGAGGACAAAGGA
1 AAAGAAAAGGAAA--GTGTCCTACTTCTTGAGGACAAAGGA
* * * * * *
2868196 AAAGAGAATGAAA-TAGATCTTGCTCCTTGAAGACAAAGGAAA
1 AAAGAAAAGGAAAGT-G-TCCTACTTCTTGAGGACAAAGG--A
2868238 AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAGTGGA
1 AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAA--GGA
2868279 AAAGA
1 AAAGA
2868284 GCACATCCTA
Statistics
Matches: 66, Mismatches: 15, Indels: 14
0.69 0.16 0.15
Matches are distributed among these distances:
38 1 0.02
39 1 0.02
40 16 0.24
41 32 0.48
42 13 0.20
43 3 0.05
ACGTcount: A:0.44, C:0.12, G:0.26, T:0.19
Consensus pattern (39 bp):
AAAGAAAAGGAAAGTGTCCTACTTCTTGAGGACAAAGGA
Found at i:2868380 original size:42 final size:42
Alignment explanation
Indices: 2868334--2868481 Score: 172
Period size: 42 Copynumber: 3.4 Consensus size: 42
2868324 GAAATGGTCT
* *
2868334 TGCTCTTTGGGGACAAAAGAAAGAAGAAAATAAAGTGCATCC
1 TGCTCTTTGAGGACAAAAGAAAGAAGAAAATAAAGTGCGTCC
* *
2868376 TGCTCTTTGAGGACAAAAGAGAA-AAGAAGGGAATGAAGTGTGTCC
1 TGCTCTTTGAGGACAAAAGA-AAGAAGAA---AATAAAGTGCGTCC
* *
2868421 TGTTCTTTGAGGACAAAGGAAAGAAGAAAATAAAGTGCGTCC
1 TGCTCTTTGAGGACAAAAGAAAGAAGAAAATAAAGTGCGTCC
**
2868463 CACTCTTTGAGGACTAAAA
1 TGCTCTTTGAGGAC-AAAA
2868482 AGTGTCACCA
Statistics
Matches: 88, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
42 47 0.53
43 5 0.06
44 2 0.02
45 34 0.39
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.21
Consensus pattern (42 bp):
TGCTCTTTGAGGACAAAAGAAAGAAGAAAATAAAGTGCGTCC
Found at i:2868545 original size:61 final size:61
Alignment explanation
Indices: 2868464--2868763 Score: 381
Period size: 61 Copynumber: 4.9 Consensus size: 61
2868454 AGTGCGTCCC
** * * * *
2868464 ACTCTTTGAGGACTAAAAAGTGTCACCAACTCGTGTGGACTTTGAAAAGG-AAAGGCATCTT
1 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGAAAAGGCATCCT
*
2868525 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTATGTGGGCTTTGCAAA-GAGAAA-GCATCCT
1 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGGA-AAAGGCATCCT
* * *
2868586 GCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
* * *
2868647 ACTCTTTGAGGACTAGAAAATACCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
* * * *
2868708 GCTTTTTAAGGACTAGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGGAAAAG
1 ACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GGAAAAG
2868764 AAGGAAATGA
Statistics
Matches: 210, Mismatches: 23, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
60 7 0.03
61 164 0.78
62 32 0.15
63 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (61 bp):
ACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCT
Found at i:2868638 original size:33 final size:33
Alignment explanation
Indices: 2868600--2868699 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 33
2868590 TTTGAGGATT
2868600 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
1 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
* * * * *
2868633 GGAAAA-GGCATCCTACTCTTTGAGGAC--T---A
1 GGAAAATGCCA-CCAACT-TGTGTGGGCTTTGAAA
*
2868662 -GAAAATACCACCAACTTGTGTGGGCTTTGAAA
1 GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
2868694 GGAAAA
1 GGAAAA
2868700 GGCATCCTGC
Statistics
Matches: 47, Mismatches: 11, Indels: 18
0.62 0.14 0.24
Matches are distributed among these distances:
27 6 0.13
28 10 0.21
29 4 0.09
32 5 0.11
33 16 0.34
34 6 0.13
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (33 bp):
GGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
Found at i:2869176 original size:124 final size:121
Alignment explanation
Indices: 2868815--2869388 Score: 720
Period size: 124 Copynumber: 4.7 Consensus size: 121
2868805 ATAAAGAGGG
* * * * * *
2868815 TCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGCGGGCTTTGAAAG-GAGAAGGCGTCA
1 TCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGTCC
* * * * * *
2868879 TGCTCCTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTTAAAGGAAAAGTCG
65 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
*
2868936 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGTCCT
* * * *
2869001 ACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCA
66 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
* *
2869057 TCCTACTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGT
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAAAGGCGT
*
2869122 CCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGCA
63 CCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAG---AAAAGGCA
* * * * *
2869184 TCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAG-GAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGTCC
* * * *
2869248 TGCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAGAGAAAAAAAAAGCG
65 TGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT--A-A-AAAGAAAAGGCA
* * * *
2869309 TCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAAGAAAAAATGTGTCC
1 TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGGCGTCC
2869374 TGCTCTTTGAGGACT
65 TGCTCTTTGAGGACT
2869389 GGAAAGGCTA
Statistics
Matches: 396, Mismatches: 43, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
120 28 0.07
121 121 0.31
122 5 0.01
124 133 0.34
125 27 0.07
126 25 0.06
127 29 0.07
128 28 0.07
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGCGTCCT
GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGGCA
Found at i:2869264 original size:188 final size:186
Alignment explanation
Indices: 2868815--2869391 Score: 862
Period size: 188 Copynumber: 3.1 Consensus size: 186
2868805 ATAAAGAGGG
* * * *
2868815 TCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGCGGGCTTTGAAAGGAGAAGGCGTCAT
1 TCCTGCTCTTTGAGGACT-GGAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
* * * *
2868880 GCTCCTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTT-TAAAG---GAAAAGTCGTCCTG
65 GCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGTCCTG
*
2868941 CTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTT-AAAAG-AAAAAAGGC
130 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
* ** *
2868996 GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCATCCT
1 -TCCTGCTCTTTGAGGACTGGAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCT
* * *
2869061 ACTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGTCCTG
65 GCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGTCCTG
*
2869126 CTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
130 CTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
2869183 ATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCC
1 -TCCTGCTCTTTGAGGACTGGA-GGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCC
* * *
2869248 TGCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAGAGAAAAAAAAAGCGTCTT
64 TGCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGTCCT
* *
2869313 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAAGAAAAAATGTG-
129 GCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAG-GC
2869371 TCCTGCTCTTTGAGGACTGGA
1 TCCTGCTCTTTGAGGACTGGA
2869392 AAGGCTAAAA
Statistics
Matches: 356, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
181 77 0.22
182 21 0.06
185 51 0.14
186 5 0.01
187 48 0.13
188 153 0.43
189 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (186 bp):
TCCTGCTCTTTGAGGACTGGAGGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAGGCGTCCTG
CTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAAAGAAAAAAAAGGCGTCCTGC
TCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
Found at i:2869395 original size:64 final size:61
Alignment explanation
Indices: 2868814--2869388 Score: 735
Period size: 60 Copynumber: 9.3 Consensus size: 61
2868804 AATAAAGAGG
* * * * *
2868814 GTCCTGCTCTTTGAGGACTAGGAGGTGCCACCAACTTGTGCGGGCTTTGAAAG-GAGAAGGC
1 GTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
* * * * * *
2868875 GTCATGCTCCTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTTAAAG-GAAAAGTC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
*
2868935 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTATGTGGGCTTTAAAAGAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
* * * *
2868996 GTCCTACTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAG-GAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
* * *
2869056 ATCCTACTTTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG--AAAAAAGGC
*
2869120 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAAGGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAAGGC
* * * * * *
2869183 ATCCTGCTCTTTGAGGACTGGAGGGTGCCACCAACTCGTGTGGGCTTTGAAAG-GAAAAGGC
1 GTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
* *
2869244 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAATTTGTGTGGGCTTTAAAGAGAAAAAAAAAGC
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAA-AG--AAAAAAGGC
* * * *
2869308 GTCTTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAAGAAAAAATGT
1 GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGGC
2869370 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
2869389 GGAAAGGCTA
Statistics
Matches: 455, Mismatches: 48, Indels: 21
0.87 0.09 0.04
Matches are distributed among these distances:
60 158 0.35
61 103 0.23
62 25 0.05
63 32 0.07
64 134 0.29
65 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGGC
Found at i:2877900 original size:27 final size:27
Alignment explanation
Indices: 2877862--2877932 Score: 142
Period size: 27 Copynumber: 2.6 Consensus size: 27
2877852 TGTTGAAAAC
2877862 GGGGTTGGAGTGTCCCCTCGGAAGAAT
1 GGGGTTGGAGTGTCCCCTCGGAAGAAT
2877889 GGGGTTGGAGTGTCCCCTCGGAAGAAT
1 GGGGTTGGAGTGTCCCCTCGGAAGAAT
2877916 GGGGTTGGAGTGTCCCC
1 GGGGTTGGAGTGTCCCC
2877933 GATGAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.15, C:0.20, G:0.42, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTGTCCCCTCGGAAGAAT
Found at i:2879960 original size:52 final size:52
Alignment explanation
Indices: 2879875--2880001 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
2879865 CGAAATATGA
*
2879875 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTGGGC
* *
2879927 AAATTTGCCTGCATGTATCGATAAATTTTATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTGGGC
*
2879979 AAGTTTGCCTGCATGTATCGATA
1 AAATTTGCCTGCATGTATCGATA
2880002 CAAAGATCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATAAATTTCATAGTGTATCGATACATCTGGGC
Found at i:2880014 original size:52 final size:51
Alignment explanation
Indices: 2879875--2880023 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
2879865 CGAAATATGA
*
2879875 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-ATCATAGTGTATCGATACATCTGGGC
* *
2879927 AAATTTGCCTGCATGTATCGATA-AATTTTATAGTGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACAA--TCATAGTGTATCGATACATCTGGGC
* **
2879979 AAGTTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATCAT-AGTGTATCGATACA
2880024 ATGTATCGAT
Statistics
Matches: 86, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
51 3 0.03
52 81 0.94
53 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACAATCATAGTGTATCGATACATCTGGGC
Found at i:2880030 original size:13 final size:13
Alignment explanation
Indices: 2880012--2880069 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
2880002 CAAAGATCAG
2880012 TGTATCGATACAA
1 TGTATCGATACAA
2880025 TGTATCGATAC-A
1 TGTATCGATACAA
2880037 T-T-T-G--A-AA
1 TGTATCGATACAA
*
2880044 TGTATCGATACAT
1 TGTATCGATACAA
2880057 TGTATCGATACAA
1 TGTATCGATACAA
2880070 CACTTATGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
7 3 0.08
8 1 0.03
9 2 0.06
10 2 0.06
11 1 0.03
12 3 0.08
13 24 0.67
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2880081 original size:19 final size:20
Alignment explanation
Indices: 2880057--2880141 Score: 105
Period size: 20 Copynumber: 4.7 Consensus size: 20
2880047 ATCGATACAT
2880057 TGTATCGATACAACAC-TTA
1 TGTATCGATACAACACTTTA
2880076 TGTATCGATACAACACTTTA
1 TGTATCGATACAACACTTTA
2880096 TGTATCGAT---ACA---T-
1 TGTATCGATACAACACTTTA
*
2880109 TGTATCGGTACAACACTTTA
1 TGTATCGATACAACACTTTA
2880129 TGTATCGATACAA
1 TGTATCGATACAA
2880142 ATCGTTGAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 15
0.77 0.03 0.21
Matches are distributed among these distances:
13 8 0.14
14 1 0.02
16 3 0.05
17 3 0.05
19 17 0.30
20 24 0.43
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (20 bp):
TGTATCGATACAACACTTTA
Found at i:2880121 original size:33 final size:33
Alignment explanation
Indices: 2880076--2880140 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
2880066 ACAACACTTA
2880076 TGTATCGATACAACACTTTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
*
2880109 TGTATCGGTACAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
2880141 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:2881206 original size:49 final size:48
Alignment explanation
Indices: 2881036--2881316 Score: 312
Period size: 43 Copynumber: 5.9 Consensus size: 48
2881026 AAAGATGAGA
* * *
2881036 AAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG
1 AAAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AA-A--G
* *
2881089 AAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTT----
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
2881133 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* *
2881180 AAGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT----
1 AA-AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
*
2881225 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
1 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
* * * *
2881272 ATGAAGGGGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
2881317 TGTTAGGATC
Statistics
Matches: 197, Mismatches: 19, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
43 79 0.40
44 1 0.01
48 1 0.01
49 77 0.39
52 33 0.17
53 6 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (48 bp):
AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
Found at i:2881223 original size:92 final size:92
Alignment explanation
Indices: 2881037--2881316 Score: 452
Period size: 92 Copynumber: 3.0 Consensus size: 92
2881027 AAGATGAGAA
* * *
2881037 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AGAAGGTGCCAAT
* *
2881102 ATGCTAATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCAATATTGGACTT
2881133 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
2881198 TGATTCAAGGCCAGCAATATTGGACTT
66 TGATTCAAGGCCAGCAATATTGGACTT
* *
2881225 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGGGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
*
2881290 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCAATATTGGACTT
2881317 TGTTAGGATC
Statistics
Matches: 176, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 130 0.74
95 41 0.23
96 5 0.03
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
TGATTCAAGGCCAGCAATATTGGACTT
Found at i:2881610 original size:20 final size:20
Alignment explanation
Indices: 2881585--2881639 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2881575 AAAACCCTTA
2881585 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
2881605 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
2881625 AATGTATCGATACAT
1 AAAGTATCGATACAT
2881640 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:2881729 original size:13 final size:13
Alignment explanation
Indices: 2881711--2881736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2881701 ACACCAAAGT
2881711 ATGTATCGATACA
1 ATGTATCGATACA
2881724 ATGTATCGATACA
1 ATGTATCGATACA
2881737 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2881734 original size:33 final size:33
Alignment explanation
Indices: 2881692--2881756 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2881682 TAGCCAAACT
* *
2881692 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
2881725 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
2881757 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:2887920 original size:13 final size:13
Alignment explanation
Indices: 2887902--2887940 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2887892 ACATTTTTCT
2887902 TTGTATCGATACA
1 TTGTATCGATACA
2887915 TTGTATCGATACA
1 TTGTATCGATACA
*
2887928 CTGTATCGATACA
1 TTGTATCGATACA
2887941 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2888085 original size:21 final size:21
Alignment explanation
Indices: 2888061--2888107 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2888051 AAATCTTTTG
*
2888061 CAAAATACTT-GTTTTTCACTT
1 CAAAATACTTCGTTTTTC-CAT
*
2888082 CAAATTACTTCGTTTTTCCAT
1 CAAAATACTTCGTTTTTCCAT
2888103 CAAAA
1 CAAAA
2888108 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.32, C:0.21, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATACTTCGTTTTTCCAT
Found at i:2890546 original size:52 final size:52
Alignment explanation
Indices: 2890398--2890526 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2890388 CGAAATATGA
*
2890398 AAATTTGCCTGCTTGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * *
2890450 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATTGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
2890502 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
2890527 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:2890553 original size:13 final size:13
Alignment explanation
Indices: 2890535--2890559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2890525 CAAAGATCAG
2890535 TGTATCGATACAA
1 TGTATCGATACAA
2890548 TGTATCGATACA
1 TGTATCGATACA
2890560 TTTGAAATGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2891576 original size:55 final size:52
Alignment explanation
Indices: 2891516--2891629 Score: 156
Period size: 52 Copynumber: 2.1 Consensus size: 52
2891506 CGATATTGGG
* * *
2891516 CTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
* *
2891571 CTTAAAGATGGAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
2891623 CTTAAAG
1 CTTAAAG
2891630 GTGCCAATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
52 37 0.69
53 6 0.11
54 1 0.02
55 10 0.19
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAATATGCTAATTCAAGGCCAGCTACATTGAA
Found at i:2891614 original size:52 final size:55
Alignment explanation
Indices: 2891479--2891629 Score: 164
Period size: 55 Copynumber: 2.8 Consensus size: 55
2891469 AAGTGATAAA
* * * * * * **
2891479 GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* * *
2891534 GATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAG
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
* *
2891587 G-TGCCAATATGCTAATTCAAGGCCAGCTATATTGGACTTAAAG
1 GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAG
2891630 GTGCCAATGT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.45
53 6 0.07
54 1 0.01
55 38 0.46
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (55 bp):
GATGCCAATATGCTAATTCAAGGCCAGCTACATTGAACTTAAAGATGAGAAAAAG
Found at i:2891763 original size:31 final size:31
Alignment explanation
Indices: 2891725--2891785 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
2891715 TATGTGTGGA
2891725 CGAATCTATTTCCCATTGTCCTTAGTTGAGT
1 CGAATCTATTTCCCATTGTCCTTAGTTGAGT
2891756 CGAATCTATTTCCCATTGTCCTTAGTTGAG
1 CGAATCTATTTCCCATTGTCCTTAGTTGAG
2891786 ATAGAGTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (31 bp):
CGAATCTATTTCCCATTGTCCTTAGTTGAGT
Found at i:2891844 original size:21 final size:21
Alignment explanation
Indices: 2891820--2891876 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2891810 AATTTATCCA
2891820 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
2891841 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
*
2891862 AAAGTATCGATACAT
1 AATGTATCGATACAT
2891877 CCTACAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:2891956 original size:19 final size:19
Alignment explanation
Indices: 2891932--2891999 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
2891922 AATTCAACAA
2891932 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
2891951 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
2891966 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
2891983 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
2892000 TTATCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:2891971 original size:13 final size:13
Alignment explanation
Indices: 2891953--2891977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2891943 ACATAAGTTT
2891953 TGTATCGATACAA
1 TGTATCGATACAA
2891966 TGTATCGATACA
1 TGTATCGATACA
2891978 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2891975 original size:32 final size:32
Alignment explanation
Indices: 2891934--2891996 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
2891924 TTCAACAATT
*
2891934 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
2891966 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
2891997 TAATTATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:2892057 original size:13 final size:13
Alignment explanation
Indices: 2892039--2892064 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2892029 CATTTTTCTG
2892039 TGTATCGATACAT
1 TGTATCGATACAT
2892052 TGTATCGATACAT
1 TGTATCGATACAT
2892065 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2892076 original size:33 final size:33
Alignment explanation
Indices: 2892019--2892085 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
2892009 GCCAAGGAAA
***
2892019 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
2892052 TGTATCGATACATGGATCTTTGTATTGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
2892085 T
1 T
2892086 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:2894492 original size:51 final size:53
Alignment explanation
Indices: 2894428--2894769 Score: 198
Period size: 52 Copynumber: 6.5 Consensus size: 53
2894418 AGTTTCTCAA
* * * *
2894428 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * *
2894479 TT-TTCTATAATCGGCGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
2894533 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCCCGT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA-----T
* * *
2894591 TAT-TTC-CGA--GGGGATACTCCAAC-CTCGATTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTC-CGATTTTATTTC-CAAAAACACCAAT
* * *
2894640 TT-TTCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACT-CCGATTTTATTTCCAAAAACACCAA-T
* *
2894693 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
2894745 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
2894770 CTCGTTATTT
Statistics
Matches: 222, Mismatches: 38, Indels: 61
0.69 0.12 0.19
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 6 0.03
51 32 0.14
52 81 0.36
53 32 0.14
54 33 0.15
55 21 0.09
57 5 0.02
58 5 0.02
59 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:2894612 original size:28 final size:27
Alignment explanation
Indices: 2894545--2894614 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
2894535 CTTCACAATC
**
2894545 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
2894572 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
2894600 GGGGATACTCCAACC
1 GGGGATACTCCAACC
2894615 TCGATTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:2894753 original size:104 final size:103
Alignment explanation
Indices: 2894433--2894770 Score: 303
Period size: 104 Copynumber: 3.2 Consensus size: 103
2894423 CTCAATTCTC
* * * * *
2894433 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGCGAT
1 CACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
2894497 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * ** * * * ** * *
2894538 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* *
2894600 GGGGATACTCCAAC-CTCGATTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTC-CGATTTTATTTC-CAAAAACACCAATTTTT
*
2894644 CCACAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
2894709 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
2894749 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
2894771 TCGTTATTTC
Statistics
Matches: 181, Mismatches: 34, Indels: 38
0.72 0.13 0.15
Matches are distributed among these distances:
103 8 0.04
104 43 0.24
105 38 0.21
106 19 0.10
107 36 0.20
108 11 0.06
109 26 0.14
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:2894789 original size:28 final size:28
Alignment explanation
Indices: 2894753--2894829 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
2894743 ATTTTTCACA
* *
2894753 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAACCCT-GTTACTTC
2894781 ATCGGGGATACTCCAACCCTGTTACTTC
1 ATCGGGGATACTCCAACCCTGTTACTTC
*** *
2894809 CGAGGGGATACTCCAATCCTG
1 ATCGGGGATACTCCAACCCTG
2894830 ATTTTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
28 39 0.93
29 3 0.07
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTGTTACTTC
Found at i:2894798 original size:212 final size:212
Alignment explanation
Indices: 2894431--2894834 Score: 627
Period size: 212 Copynumber: 1.9 Consensus size: 212
2894421 TTCTCAATTC
* *
2894431 TCCACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGCGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGCGA
* *
2894496 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
2894561 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCTCGATTTTAT
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCT-GATTTTAT
2894625 CGCTAAAACACTAATTTT
195 CGCTAAAACACTAATTTT
* * * *
2894643 TCCACAATCGGGGATACTCCAA-TCCCGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACT-CCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGC
*
2894707 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * *
2894770 CTCGTTATTTCATCGGGGATACTCCAACCCTGTTACTTCCGAGGGGATACTCCAATCCTGATTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCTGATTTT
2894835 TTTTTCTTCT
Statistics
Matches: 175, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 29 0.17
212 109 0.62
213 37 0.21
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGCGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAATCCTGATTTTATC
GCTAAAACACTAATTTT
Found at i:2895956 original size:49 final size:49
Alignment explanation
Indices: 2895879--2896049 Score: 219
Period size: 49 Copynumber: 3.6 Consensus size: 49
2895869 GTCGCGACAG
*
2895879 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATA
* * * *
2895928 TGCTTATTCAAGGCTAGCGATATTGGACTT-----A-AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATA
* * *
2895971 TGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATA
*
2896020 TGCTGATTCAAGGCCAGCGATATTGGACTT
1 TGCTGATTCAAGGCCAGCGACATTGGACTT
2896050 TGTTAGGATC
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
43 38 0.37
44 1 0.01
49 64 0.62
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAAGAAGGTGCCAATA
Found at i:2896039 original size:92 final size:92
Alignment explanation
Indices: 2895878--2896049 Score: 308
Period size: 92 Copynumber: 1.9 Consensus size: 92
2895868 CGTCGCGACA
* *
2895878 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTTATTCAAGGCT
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCC
2895943 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCGATATTGGACTTAAAGGTGCCAAT
* *
2895970 GTGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
1 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCC
2896035 AGCGATATTGGACTT
66 AGCGATATTGGACTT
2896050 TGTTAGGATC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 76 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (92 bp):
GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAGGTGCCAAT
Found at i:2896343 original size:20 final size:20
Alignment explanation
Indices: 2896318--2896372 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
2896308 AAAACCCTTA
2896318 AAAGTATCGATACATAATT-C
1 AAAGTATCGATACAT-ATTGC
*
2896338 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATATTGC
*
2896358 AATGTATCGATACAT
1 AAAGTATCGATACAT
2896373 CAAAAATATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAGTATCGATACATATTGC
Found at i:2896462 original size:13 final size:13
Alignment explanation
Indices: 2896444--2896469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2896434 ACACCAAAGT
2896444 ATGTATCGATACA
1 ATGTATCGATACA
2896457 ATGTATCGATACA
1 ATGTATCGATACA
2896470 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2897373 original size:33 final size:33
Alignment explanation
Indices: 2897329--2897694 Score: 559
Period size: 33 Copynumber: 11.2 Consensus size: 33
2897319 TATTGGGCTT
*
2897329 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
2897362 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2897395 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2897427 AG-AGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2897459 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTT-G
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
2897491 AAAAAGGTTGCCACCGACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2897524 AAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2897557 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2897590 AAGAA-GGTTACCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2897623 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTTG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
2897656 A-AAGGGTTGCCACCGACTTGTGCGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
2897687 AGAAGGGT
1 AGAAGGGT
2897695 GAAAGATGCC
Statistics
Matches: 309, Mismatches: 15, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
31 5 0.02
32 128 0.41
33 168 0.54
34 8 0.03
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:2897424 original size:65 final size:66
Alignment explanation
Indices: 2897322--2897694 Score: 582
Period size: 65 Copynumber: 5.8 Consensus size: 66
2897312 CCAGCTATAT
* * *
2897322 TGGGC-TTAGAAG--GGTTGCCATCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
2897384 G
66 G
*
2897385 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
2897448 G
66 G
* * *
2897449 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTT-GAAAAAGGTTGCCACCGACTTAT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
2897513 G
66 G
2897514 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
2897579 G
66 G
* *
2897580 TGGGCTTTTGAAGAAGGTTACCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
2897645 G
66 G
* * *
2897646 TGGGCTTTTGAA-AGGGTTGCCACCGACTTGTGCGGGCTTT-GAGAAGGGT
1 TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
2897695 GAAAGATGCC
Statistics
Matches: 289, Mismatches: 15, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
63 7 0.02
64 43 0.15
65 142 0.49
66 97 0.34
ACGTcount: A:0.19, C:0.18, G:0.35, T:0.28
Consensus pattern (66 bp):
TGGGCTTTAGAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
G
Found at i:2897878 original size:27 final size:26
Alignment explanation
Indices: 2897833--2897953 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
2897823 CTTAGAAGGA
* *
2897833 AAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAG-GTGCCACGGAGTTGTGGACTT
2897860 AAACAGGTGCCACGGAGTTGTGGACTT
1 AAA-AGGTGCCACGGAGTTGTGGACTT
*
2897887 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 -------AAAAG-GTGCCACGGAGTTGTGGACTT
* *
2897921 AAAAGGGTGCCACAGAGTCGTGGACTT
1 AAAA-GGTGCCACGGAGTTGTGGACTT
2897948 AAAAGG
1 AAAAGG
2897954 AACAAGGTGC
Statistics
Matches: 78, Mismatches: 6, Indels: 21
0.74 0.06 0.20
Matches are distributed among these distances:
26 2 0.03
27 48 0.62
28 3 0.04
33 2 0.03
34 23 0.29
ACGTcount: A:0.31, C:0.15, G:0.35, T:0.19
Consensus pattern (26 bp):
AAAAGGTGCCACGGAGTTGTGGACTT
Found at i:2897880 original size:61 final size:62
Alignment explanation
Indices: 2897805--2898384 Score: 398
Period size: 61 Copynumber: 9.0 Consensus size: 62
2897795 AGGAAAAATA
* * * *
2897805 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT-AAACAG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAG
* *
2897866 GTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-AAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAG
* * * * *
2897927 GTGCCACAGAGTCGTGGACTTAAAAGGAACAAG-GTGCCACGGAGCTGTGGACTTTAAAAGGGAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT---A---AA
2897991 AAAG
59 AAAG
* *
2897995 AGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCTTAGAAGGA
1 -GTGCCACGGAGTTGTGGAC-TTAAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTT---A--A
*
2898060 AAATAA
58 AAA-AG
* * * * *
2898066 GTGCCACGGAGTTATGGGCTT-AAACG-----G-GTGCCACGAAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT---A--AAAA
2898124 AG
61 AG
* * * *
2898126 AGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTT-AAAAGG
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAG
* * * * *
2898188 GTGCCACGAAGTCGTGGACTTAAAAGGAACAAG-GTGCCACGGAGTTATGGACTTTAAAAGGGAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT---A---AA
2898252 AAAG
59 AAAG
* ** * * * *
2898256 AGTGCCACGGAGTTGTGGGCTTTGAA--AAGAAG-GTGCTACGGAGTCGTGGACTTAAAAGGAAC
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT--AA--AA-
2898318 AAG
60 AAG
* *
2898321 GTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAG
2898384 G
1 G
2898385 AAAAATATGC
Statistics
Matches: 424, Mismatches: 58, Indels: 72
0.77 0.10 0.13
Matches are distributed among these distances:
60 34 0.08
61 167 0.39
62 9 0.02
63 4 0.01
64 22 0.05
65 10 0.02
66 3 0.01
67 27 0.06
68 51 0.12
69 40 0.09
70 28 0.07
71 12 0.03
72 17 0.04
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.19
Consensus pattern (62 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAAG
Found at i:2898108 original size:227 final size:225
Alignment explanation
Indices: 2897696--2898381 Score: 876
Period size: 227 Copynumber: 3.0 Consensus size: 225
2897686 GAGAAGGGTG
*
2897696 AAAGA-TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTTAAAAG
1 AAAGAGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGAAG-TGTGGACTTTAAAAG
*
2897760 GGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAATAGTGCCACGGAGTTGTGGGCT
65 GGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCT
*
2897825 TAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAACAGGTGCCACGGAGTTGTGGACTTAGA
130 TAGAAGGAAAAA-AGTGCCACGGAGTTGTGGGCTTAAACAGGTGCCACGGAGTTGTGGACTTAGA
2897890 AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTA
194 AGGAAAAAGAGTGCCACGGAGTTGTGGGCTTA
* *
2897922 AAAGGGTGCCAC-AGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGCTGTGGACTTTAAAA
1 AAAGAGTGCCACGA-AGTCGTGGACTTAAAAGGAACAAGGTGCCACGAAG-TGTGGACTTTAAAA
2897986 GGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGC
64 GGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGC
* * *
2898051 TTAGAAGGAAAATAAGTGCCACGGAGTTATGGGCTTAAACGGGTGCCACGAAGTTGTGGACTTAG
129 TTAGAAGGAAAA-AAGTGCCACGGAGTTGTGGGCTTAAACAGGTGCCACGGAGTTGTGGACTTAG
* *
2898116 AAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAGAAGGAA
193 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT-------A
* *
2898156 AAAGAGTGCCACGAAGTTGTGGGCTTAAAA-G-----GGTGCCACGAAGTCGTGGAC-TTAAAA-
1 AAAGAGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGAAGT-GTGGACTTTAAAAG
* * * *
2898213 GGAACAAG-GTGCCACGGAGTTATGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCT
65 GGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCT
* * * * * *
2898277 TTGAA--AAGAAGGTGCTACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC
130 TAGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTT---A--AAC-AGGTGCCACGGAGTTGTGGAC
* *
2898340 TTTAAAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTTA
189 -TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTA
2898379 AAA
1 AAA
2898382 AGGAAAAATA
Statistics
Matches: 408, Mismatches: 32, Indels: 43
0.84 0.07 0.09
Matches are distributed among these distances:
222 18 0.04
223 7 0.02
225 58 0.14
226 12 0.03
227 216 0.53
228 37 0.09
229 30 0.07
230 2 0.00
233 1 0.00
234 26 0.06
235 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.20
Consensus pattern (225 bp):
AAAGAGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGAAGTGTGGACTTTAAAAGG
GAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCTT
AGAAGGAAAAAAGTGCCACGGAGTTGTGGGCTTAAACAGGTGCCACGGAGTTGTGGACTTAGAAG
GAAAAAGAGTGCCACGGAGTTGTGGGCTTA
Found at i:2898164 original size:95 final size:95
Alignment explanation
Indices: 2897990--2898381 Score: 486
Period size: 95 Copynumber: 4.0 Consensus size: 95
2897980 TTAAAAGGGA
* * * *
2897990 AAAAGAGTGCCAC-AGAGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGC-TT
1 AAAAGGGTGCCACGA-AGTCGTGGAC-TTAAAA-GGAAAAA-GGTGCCACGGAGTTGTGGACTTT
* *
2898053 AGAAGGAAAATA-AGTGCCACGGAGTTATGGGCTT
62 AAAAGGAAAA-AGAGTGCCACGGAGTTGTGGGCTT
* * * * *
2898087 AAACGGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGAC-TTAGA
1 AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTTAAA
*
2898151 AGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
65 AGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* *
2898182 AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAA
1 AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
2898247 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
66 -GGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
* * *
2898279 GAAAAGAAGGTGCTACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTA
1 -AAAAG--GGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTA
*
2898344 AAAGGGAAAAGAGTGCCACGGAGTTGTGGGCTTT
63 AAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TT
2898378 AAAA
1 AAAA
2898382 AGGAAAAATA
Statistics
Matches: 266, Mismatches: 20, Indels: 17
0.88 0.07 0.06
Matches are distributed among these distances:
94 18 0.07
95 96 0.36
96 32 0.12
97 23 0.09
98 10 0.04
99 30 0.11
100 57 0.21
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (95 bp):
AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTAAAA
GGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:2898183 original size:261 final size:258
Alignment explanation
Indices: 2897701--2898284 Score: 810
Period size: 261 Copynumber: 2.2 Consensus size: 258
2897691 GGGTGAAAGA
* *
2897701 TGCCACGAAGTTGTGGAC-TTAAAA-GGAACAAG-GTGCCACGAAGTTGTGGACTTTAAAAGGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACG-AGTTGTGGACTTTAAAAGGGA
*
2897763 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAATAGTGCCACGGAGTTGTGGGCTTAG
65 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAATAGTGCCACGGAGTTATGGGCTTAG
* * * *
2897828 AAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAACAGGTGCCACGGAGTTGTGGACTTAGAAGG
130 AACG----AGAGTGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAGAAGG
*
2897893 AAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGGTGCCAC-AGAGTCGTGGACTTAAAAGGAAC
191 AAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACGA-AGTCGTGGACTTAAAAGGAAC
2897957 AAGG
255 AAGG
*
2897961 TGCCACGGAGCTGTGGACTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCAC-GAGTTGTGGACTTTAAAAGGGA
* * * *
2898026 AAAATAGTGCCACGGAGTTGTGGGC-TT-AGAAGG-AAAATAAGTGCCACGGAGTTATGGGCTTA
65 AAAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAT-AGTGCCACGGAGTTATGGGCTTA
2898088 -AACG-G-GTGCCACGAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGACTTAG
129 GAACGAGAGTGCCACGAAGTTGTGGACTT------AAAAAG-GTGCCACGAAGTTGTGGACTTAG
2898150 AAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGG
187 AAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGG
2898215 AACAAGG
252 AACAAGG
* *
2898222 TGCCACGGAGTTATGGACTTTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCAC-GAGTTGTGGACTTT-AAAAG
2898285 AAGGTGCTAC
Statistics
Matches: 293, Mismatches: 17, Indels: 26
0.87 0.05 0.08
Matches are distributed among these distances:
254 20 0.07
255 1 0.00
260 29 0.10
261 177 0.60
262 15 0.05
263 50 0.17
264 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.20
Consensus pattern (258 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGAGTGCCACGAGTTGTGGACTTTAAAAGGGAA
AAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAAAAATAGTGCCACGGAGTTATGGGCTTAGA
ACGAGAGTGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTGTGGACTTAGAAGGAAAAA
GAGTGCCACGAAGTTGTGGGCTTAAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGG
Found at i:2898193 original size:27 final size:27
Alignment explanation
Indices: 2898155--2898214 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
2898145 CTTAGAAGGA
* * *
2898155 AAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGGTGCCACGAAGTCGTGGACTT
2898182 AAAAGGGTGCCACGAAGTCGTGGACTT
1 AAAAGGGTGCCACGAAGTCGTGGACTT
2898209 AAAAGG
1 AAAAGG
2898215 AACAAGGTGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.33, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGAAGTCGTGGACTT
Found at i:2898367 original size:35 final size:33
Alignment explanation
Indices: 2897696--2898412 Score: 516
Period size: 34 Copynumber: 21.8 Consensus size: 33
2897686 GAGAAGGGTG
* *
2897696 AAAGATGCCACGAAGTTGTGGAC-TTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA
*
2897728 ACAAGGTGCCACGAAGTTGTGGACTTTAAAAGGGAA
1 A-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GG-A
*
2897764 AAAGAGTGCCACAGAGTTGTGGACTTTAAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG-A
* * *
2897800 AAATAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
1 AAA-GGTGCCACGGAGTTGTGGACTTTAAAAGG-A
* *
2897834 AAAGAGTGCCACGAAGTTGTGGGC-TT---A--A
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGA
* *
2897862 ACAGGTGCCACGGAGTTGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGG-A
*
2897895 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-G-
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGA
* *
2897926 ---GGTGCCACAGAGTCGTGGAC-TTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA
*
2897955 ACAAGGTGCCACGGAGCTGTGGACTTTAAAAGGGAA
1 A-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GG-A
*
2897991 AAAGAGTGCCACAGAGTTGTGGACTTTAAAAGGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAA-GG-A
* * *
2898027 AAATAGTGCCACGGAGTTGTGGGC-TTAGAAGGAA
1 AAA-GGTGCCACGGAGTTGTGGACTTTAAAAGG-A
* * * *
2898061 AATAAGTGCCACGGAGTTATGGGC-TT-AAACG-
1 AA-AGGTGCCACGGAGTTGTGGACTTTAAAAGGA
* *
2898092 ---GGTGCCACGAAGTTGTGGAC-TTAGAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGG-A
* *
2898122 AAAGAGTGCCACGAAGTTGTGGAC-TTAGAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGG-A
* *
2898156 AAAGAGTGCCACGAAGTTGTGGGC-TTAAAA-G-
1 AAAG-GTGCCACGGAGTTGTGGACTTTAAAAGGA
* *
2898187 ---GGTGCCACGAAGTCGTGGAC-TTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA
*
2898216 ACAAGGTGCCACGGAGTTATGGACTTTAAAAGGGAA
1 A-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GG-A
*
2898252 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA-G-
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGGA
* *
2898285 -AAGGTGCTACGGAGTCGTGGAC-TTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA
2898316 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGA
1 A-AAGGTGCCACGGAGTTGTGGACTTTAAAA-GGA
*
2898351 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
1 AAAG-GTGCCACGGAGTTGTGGACTTT-AAAAGG-A
** * *
2898387 AAATATGCCACAGAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGACTTT
2898413 GAGAAGAAAT
Statistics
Matches: 577, Mismatches: 54, Indels: 105
0.78 0.07 0.14
Matches are distributed among these distances:
27 82 0.14
28 11 0.02
29 4 0.01
30 4 0.01
31 17 0.03
32 4 0.01
33 85 0.15
34 164 0.28
35 71 0.12
36 127 0.22
37 8 0.01
ACGTcount: A:0.34, C:0.14, G:0.33, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTTAAAAGGA
Found at i:2898434 original size:134 final size:133
Alignment explanation
Indices: 2897926--2898442 Score: 424
Period size: 134 Copynumber: 3.9 Consensus size: 133
2897916 GGCTTAAAAG
* * *
2897926 GGTGCCAC-AGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGCTGTGGACTTTAAAAGGGA
1 GGTGCCACGA-AGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAAAGGA
* ** *
2897990 AAAAGAGTGCCACAGAGTTGTGGACTTT-AAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCTTA
65 AAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAA--G---AA-AGTGCCACGGAGTCATGGACTTA
* *
2898054 GAAGGAAAATA
124 AAAGGAACA-A
* * ** * * * * *
2898065 AGTGCCACGGAGTTATGGGCTT---A--AAC-GGGTGCCACGAAGTTGTGGAC-TT-AGAAGGAA
1 GGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAAAGGAA
* * * * ** *
2898122 AAAGAGTGCCAC-GAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAA
66 AAAGAGTGCCACAG-AGTTGTGGGCTTTGAA--AAGAA-AGTGCCACGGAGTCATGGACTTAAAA
2898186 -G-----
127 GGAACAA
*
2898187 GGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAAGGGAA
1 GGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAAAGGAA
* * * *
2898252 AAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCTACGGAGTCGTGGACTTAAAAGGAA
66 AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCATGGACTTAAAAGGAA
2898317 CAA
131 CAA
* * * *
2898320 GGTGCCACGGAGTTGTGGACTTTAAAAGGGAA-AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 GGTGCCACGAAGTCGTGGAC-TTAAAA-GGAACAAG-GTGCCACGGAGTTATGGACTTTAAAAAG
* * * *
2898384 GAAAAATA-TGCCACAGAGTTGTGGGCTTTGAGAAGAAATTGCCACTGAGTCATGGACTT
63 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCATGGACTT
2898443 TAAGAAGGTA
Statistics
Matches: 309, Mismatches: 46, Indels: 51
0.76 0.11 0.13
Matches are distributed among these distances:
122 17 0.06
125 1 0.00
127 24 0.08
128 24 0.08
129 28 0.09
130 33 0.11
131 31 0.10
132 4 0.01
133 36 0.12
134 58 0.19
135 36 0.12
136 1 0.00
139 16 0.05
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (133 bp):
GGTGCCACGAAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTATGGACTTTAAAAAGGAA
AAAGAGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAGTGCCACGGAGTCATGGACTTAAAAGGAA
CAA
Found at i:2899403 original size:13 final size:13
Alignment explanation
Indices: 2899387--2899429 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
2899377 TTTTTCCTTT
2899387 TTTTTTTTGTTTG
1 TTTTTTTTGTTTG
2899400 TTTTTTTTGTTT-
1 TTTTTTTTGTTTG
2899412 TTTTTCCTTT-TTTG
1 TTTTT--TTTGTTTG
2899426 TTTT
1 TTTT
2899430 GTTTCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.19
13 15 0.56
14 7 0.26
ACGTcount: A:0.00, C:0.05, G:0.09, T:0.86
Consensus pattern (13 bp):
TTTTTTTTGTTTG
Found at i:2899406 original size:17 final size:17
Alignment explanation
Indices: 2899379--2899440 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
2899369 AAAAGGGGTT
*
2899379 TTTCCTTTTTTTTTTTG
1 TTTCTTTTTTTTTTTTG
* *
2899396 TTTGTTTTTTTTGTTTTT
1 TTTCTTTTTTTT-TTTTG
* *
2899414 TTTCCTTTTTTGTTTTG
1 TTTCTTTTTTTTTTTTG
2899431 TTTCTTTTTT
1 TTTCTTTTTT
2899441 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTTTTTTTG
Found at i:2899413 original size:26 final size:26
Alignment explanation
Indices: 2899383--2899440 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
2899373 GGGGTTTTTC
*
2899383 CTTTTTTTT--TTTGTTTGTTTTTTTT
1 CTTTTTTTTCCTTT-TTTGTTTTGTTT
*
2899408 GTTTTTTTTCCTTTTTTGTTTTGTTT
1 CTTTTTTTTCCTTTTTTGTTTTGTTT
2899434 CTTTTTT
1 CTTTTTT
2899441 GGAAAAGAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 17 0.61
27 3 0.11
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (26 bp):
CTTTTTTTTCCTTTTTTGTTTTGTTT
Found at i:2904058 original size:20 final size:20
Alignment explanation
Indices: 2904011--2904085 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2904001 AAAAAGACAT
*
2904011 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
2904030 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
2904051 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
2904071 AATGTATCGATACAT
1 AATGTATCGATACAT
2904086 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:2904079 original size:40 final size:39
Alignment explanation
Indices: 2904008--2904085 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
2903998 GGTAAAAAGA
* *
2904008 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
2904047 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
2904086 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:2910158 original size:19 final size:20
Alignment explanation
Indices: 2910134--2910186 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
2910124 ATTTGCCTGC
2910134 ATGTATCGATACATTTGA-A
1 ATGTATCGATACATTTGATA
*
2910153 ATGTATCGATACATTTTATA
1 ATGTATCGATACATTTGATA
*
2910173 GTGTATCGATACAT
1 ATGTATCGATACAT
2910187 CTGGGCAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTGATA
Found at i:2910198 original size:71 final size:71
Alignment explanation
Indices: 2910082--2910257 Score: 248
Period size: 71 Copynumber: 2.5 Consensus size: 71
2910072 ATTTGCCTGC
*
2910082 ATGTATCAATACATTTCATAGTGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTCATAGTGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACA
**
2910147 TTTGA-A
66 -AAGACA
* *
2910153 ATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA
1 ATGTATCGATACATTTCATAGTGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACA
2910218 AAGATCA
66 AAGA-CA
* * *
2910225 GTGTATCGATACATTTGA-AATGTATCGATACAT
1 ATGTATCGATACATTTCATAGTGTATCGATACAT
2910258 TTTTTGGCAG
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
70 2 0.02
71 76 0.80
72 17 0.18
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (71 bp):
ATGTATCGATACATTTCATAGTGTATCGATACATATGGGCAAATTTGCCTGCATGTATCGATACA
AAGACA
Found at i:2910302 original size:19 final size:19
Alignment explanation
Indices: 2910278--2910362 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
2910268 TAGCTTATAT
2910278 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
2910297 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
2910316 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
* *
2910329 TGTATCGATATAACACTTTA
1 TGTATCGATACAAAAC-TTA
2910349 TGTATCGATACAAA
1 TGTATCGATACAAA
2910363 TCGTTGACAT
Statistics
Matches: 55, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
13 10 0.18
14 1 0.02
16 2 0.04
19 30 0.55
20 12 0.22
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:2910338 original size:32 final size:33
Alignment explanation
Indices: 2910297--2910360 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
2910287 ACAAAACTTA
2910297 TGTATCGATACAACAC-TTATGTATCGATACAT
1 TGTATCGATACAACACTTTATGTATCGATACAT
*
2910329 TGTATCGATATAACACTTTATGTATCGATACA
1 TGTATCGATACAACACTTTATGTATCGATACA
2910361 AATCGTTGAC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAACACTTTATGTATCGATACAT
Found at i:2914994 original size:13 final size:13
Alignment explanation
Indices: 2914976--2915032 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
2914966 CATAAAGTGT
2914976 TGTATCGATACAA
1 TGTATCGATACAA
2914989 TGTATCGATACATAAA
1 TGTATCGATAC---AA
2915005 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
2915021 TGTATCGATACA
1 TGTATCGATACA
2915033 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
16 4 0.11
19 11 0.29
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2915013 original size:19 final size:18
Alignment explanation
Indices: 2914953--2915051 Score: 83
Period size: 19 Copynumber: 5.8 Consensus size: 18
2914943 AATTTCAATG
2914953 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
2914971 AGTGTTGTATCGATAC---A
1 A-T-TTGTATCGATACATAA
2914988 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
2915004 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
2915020 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
2915036 GTTTTGTATCGATACA
1 -ATTTGTATCGATACA
2915052 ATGTAAGCTA
Statistics
Matches: 66, Mismatches: 1, Indels: 27
0.70 0.01 0.29
Matches are distributed among these distances:
13 22 0.33
16 5 0.08
17 2 0.03
18 1 0.02
19 24 0.36
20 12 0.18
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:2915014 original size:32 final size:32
Alignment explanation
Indices: 2914956--2915056 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
2914946 TTCAATGATT
2914956 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAA-TGTTGTATCGATACAA
2914989 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
* *
2915021 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
2915053 TGTA
1 TGTA
2915057 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 50 0.76
33 16 0.24
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAATGTTGTATCGATACAA
Found at i:2915077 original size:65 final size:65
Alignment explanation
Indices: 2914956--2915084 Score: 156
Period size: 65 Copynumber: 2.0 Consensus size: 65
2914946 TTCAATGATT
* ***
2914956 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAATGTATCGATACAA
* *
2915021 TGTATCGATACAT-AAGTTTTGTATCGATACAATGTA-AGCTAC-TGCCAAAAAATGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACAT---AAAAAATGTATCGATA
2915083 CA
63 CA
2915085 TTACTCAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
62 1 0.02
63 4 0.07
64 22 0.40
65 28 0.51
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (65 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAAAAAATGTATCGATACAA
Found at i:2915171 original size:52 final size:52
Alignment explanation
Indices: 2915127--2915255 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
2915117 CACTGATCTT
2915127 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * * *
2915179 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATGCACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
2915231 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
2915256 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:2921132 original size:16 final size:16
Alignment explanation
Indices: 2921111--2921145 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2921101 TATTTAACAT
2921111 AAAAAAGATAATAATA
1 AAAAAAGATAATAATA
*
2921127 AAAAAATATAATAATA
1 AAAAAAGATAATAATA
2921143 AAA
1 AAA
2921146 TAATTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (16 bp):
AAAAAAGATAATAATA
Found at i:2921498 original size:94 final size:94
Alignment explanation
Indices: 2921373--2921606 Score: 287
Period size: 94 Copynumber: 2.5 Consensus size: 94
2921363 GAAAAGAAAG
* *
2921373 AAGAAAGAAAGCAAAATAGAAACTAGCAAGCAAGACAAGCAATAACAAACAAGCACCGAA-AAGG
1 AAGAAAGAAAGCAAAATAGAAACCAGCAAGCAAGACAAGCAATAACAAACAAACACC-AACAAGG
* *
2921437 AAAGAAAGAAAGGAACAATAATTAAGCAAA
65 AAAAAAAGAAAGGAACAACAATTAAGCAAA
* * * * *
2921467 AAGAAAGAAAGCAAAATAGTAACCAGCAAGCAAGACAAGGAACAACAAATAAACACCAACAGGGA
1 AAGAAAGAAAGCAAAATAGAAACCAGCAAGCAAGACAAGCAATAACAAACAAACACCAACAAGGA
* * *
2921532 AAAAAAGAAAGTAATAGCAATTAAGCAAA
66 AAAAAAGAAAGGAACAACAATTAAGCAAA
* * *
2921561 AAGAAAGAAAG-AAACA-A-CAACCAGCAAGCAGGACAAGCAATGACAA
1 AAGAAAGAAAGCAAA-ATAGAAACCAGCAAGCAAGACAAGCAATAACAA
2921607 CAGTTGAAGA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
92 24 0.20
93 6 0.05
94 91 0.75
ACGTcount: A:0.61, C:0.15, G:0.18, T:0.06
Consensus pattern (94 bp):
AAGAAAGAAAGCAAAATAGAAACCAGCAAGCAAGACAAGCAATAACAAACAAACACCAACAAGGA
AAAAAAGAAAGGAACAACAATTAAGCAAA
Found at i:2926832 original size:26 final size:26
Alignment explanation
Indices: 2926801--2926852 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2926791 GATCTAGGGG
*
2926801 GGCACCAGTTGAAGGTCTAGGCACTA
1 GGCACCAGTTGAAGGGCTAGGCACTA
2926827 GGCACCAGTTGAAGGGCTAGGCACTA
1 GGCACCAGTTGAAGGGCTAGGCACTA
2926853 ATGCACCACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.33, T:0.17
Consensus pattern (26 bp):
GGCACCAGTTGAAGGGCTAGGCACTA
Found at i:2929406 original size:76 final size:78
Alignment explanation
Indices: 2929297--2929473 Score: 232
Period size: 76 Copynumber: 2.3 Consensus size: 78
2929287 GACTTTTCAC
* * * *
2929297 AATCGGGGATATTCCAACCCTGTTATTTCCGAGGCGACACTCCAACCCCGATTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGCGACACCCCAACCCCGACTTTATTTCTAAAA
2929362 CATCAATTT-T-T
66 CATCAATTTCTAT
* * * * *
2929373 CATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACCCCAACCCCGGCTTTATTTCTAAAA
1 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGCGACACCCCAACCCCGACTTTATTTCTAAAA
* *
2929438 TATTAATTTCTCAT
66 CATCAATTTCT-AT
2929452 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
2929474 GTTTTATTTC
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
76 63 0.73
77 1 0.01
79 22 0.26
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (78 bp):
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGCGACACCCCAACCCCGACTTTATTTCTAAAA
CATCAATTTCTAT
Found at i:2929481 original size:51 final size:51
Alignment explanation
Indices: 2929405--2929524 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 51
2929395 TTATTTTCGA
* * *
2929405 GGGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATC
* * * *
2929456 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATC
*
2929507 GGGGATACTTCAACCCCG
1 GGGGATACTCCAACCCCG
2929525 TTATTTCCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTCTCATAATC
Found at i:2929483 original size:206 final size:207
Alignment explanation
Indices: 2929126--2929657 Score: 595
Period size: 206 Copynumber: 2.5 Consensus size: 207
2929116 TCTCGGGAAG
* * * * * *
2929126 ACTCCAATCCCGGTTTCATTTTTGAAACATCAATTTTTCATAATCAGGGATACTCCAACCCTGTT
1 ACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTC--AATCGGGGATACTCCAACCCCGTT
* * * ** *
2929191 ATTTTCGAGGGGATACTCCAACCCCAGTTTTATTTTTGAAACACCAA-TTCTCCGCAATCGGGGA
64 ATTTTCGAGGGGATACTCCAACCCC-GTTTTATTTCTAAAATATTAATTTCTCCACAATCGGGGA
* * * ** *
2929255 TATTCCAACTCTGATTTTATTTCCAAAACATTGACTTTTCACAATCGGGGATA-TTCCAACCCTG
128 TACTCCAACCCCGATTTTATTTCCAAAACATCAACTTTTCACAATCGGGGATACTT-CAACCCCG
2929319 TTATTTCCGAGGCGAC
192 TTATTTCCGAGGCGAC
*
2929335 ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTC-ATCGGGGATACTCCAACCCCGTTAT
1 ACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCCCGTTAT
* * *
2929399 TTTCGAGGGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAATTTCT-CATAATCGGGGATA
66 TTTCGAGGGGATACTCCAACCCC-GTTTTATTTCTAAAATATTAATTTCTCCACAATCGGGGATA
* * * * * *
2929463 CTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTTCAACCCCGTTA
130 CTCCAACCCCGATTTTATTTCCAAAACATCAACTTTTCACAATCGGGGATACTTCAACCCCGTTA
* *
2929528 TTTCCGAGGGGAT
195 TTTCCGAGGCGAC
* * * * * * *
2929541 GCTCAAATCTCGATTTTATTTCCAAATCATCAATTTTTCACAACCGTGGATACTCCAACCCCGTT
1 ACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTT--CAATCGGGGATACTCCAACCCCGTT
* * *
2929606 ATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATATTAAATTTC
64 ATTTTCGAGGGGATACTCCAACCCCGTT-TTATTTCTAAAATATT-AATTTC
2929658 GCGTCGGGAA
Statistics
Matches: 272, Mismatches: 44, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
206 165 0.61
207 6 0.02
208 3 0.01
209 92 0.34
210 6 0.02
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.34
Consensus pattern (207 bp):
ACTCCAATCCCGATTTTATTTCTAAAACATCAATTTTTCAATCGGGGATACTCCAACCCCGTTAT
TTTCGAGGGGATACTCCAACCCCGTTTTATTTCTAAAATATTAATTTCTCCACAATCGGGGATAC
TCCAACCCCGATTTTATTTCCAAAACATCAACTTTTCACAATCGGGGATACTTCAACCCCGTTAT
TTCCGAGGCGAC
Found at i:2929539 original size:79 final size:79
Alignment explanation
Indices: 2929456--2929646 Score: 222
Period size: 79 Copynumber: 2.4 Consensus size: 79
2929446 TCTCATAATC
* * * * ** *
2929456 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTTCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAACCGGGGATACTCCAAC
*
2929521 CCCGTTATTTCCGA
66 CCCGTTATTTCCAA
* * * * * *
2929535 GGGGATGCTCAAATCTCGATTTTATTTCCAAATCATCAATTTTTCACAACCGTGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAACCGGGGATACTCCAAC
*
2929600 CCCGTTATTTTCAA
66 CCCGTTATTTCCAA
*
2929614 GGGGATACTCCAACCCCG-TTATTATCTCCAAAA
1 GGGGATACTCCAACCCCGATT-TTATTTCCAAAA
2929647 TATTAAATTT
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
78 2 0.02
79 88 0.98
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTTCACAACCGGGGATACTCCAAC
CCCGTTATTTCCAA
Found at i:2929576 original size:130 final size:127
Alignment explanation
Indices: 2929335--2929603 Score: 342
Period size: 130 Copynumber: 2.1 Consensus size: 127
2929325 CCGAGGCGAC
2929335 ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATT
1 ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATT
* * * * * *
2929400 TTCGAGGGGATACCCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGGAT
66 TCCGAGGGGATACCCAAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAACCGGGGAT
* * *
2929462 ACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTTCAACCCCGTT
1 ACTCCAACCCCGATTTTATTTCTAAAACATCAA-TTTTT-CA-TCGGGGATACTCCAACCCCGTT
* * * * * * * *
2929527 ATTTCCGAGGGGATGCTCAAATCTCGATTTTATTTC-CAAATCATCAATTTTTCACAACCGTGGA
63 ATTTCCGAGGGGATACCCAAACCCCGACTTTATTTCTAAAAT-ATCAATTTCTCACAACCGGGGA
2929591 T
127 T
2929592 ACTCCAACCCCG
1 ACTCCAACCCCG
2929604 TTATTTTCAA
Statistics
Matches: 121, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
127 32 0.26
128 5 0.04
129 5 0.04
130 79 0.65
ACGTcount: A:0.27, C:0.26, G:0.13, T:0.33
Consensus pattern (127 bp):
ACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTCCAACCCCGTTATT
TCCGAGGGGATACCCAAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAACCGGGGAT
Found at i:2934232 original size:19 final size:19
Alignment explanation
Indices: 2934187--2934242 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
2934177 CTGCCAGTTT
*
2934187 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAA
*
2934207 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
2934226 CATGTATTGATACAATG
1 CATGTATCGATACAATG
2934243 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:2934412 original size:14 final size:14
Alignment explanation
Indices: 2934377--2934403 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2934367 GATTATTTTT
2934377 ACTTGAAAACATTC
1 ACTTGAAAACATTC
2934391 ACTTGAAAACATT
1 ACTTGAAAACATT
2934404 TATATGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (14 bp):
ACTTGAAAACATTC
Found at i:2935017 original size:48 final size:48
Alignment explanation
Indices: 2934938--2935279 Score: 422
Period size: 48 Copynumber: 7.2 Consensus size: 48
2934928 TATACCTGGC
* ** * * *
2934938 CAAACTCCTTTCTT-CCTTGTTTGACTATATTGGTGTTAAGGCCTGGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
* *
2934985 CAAACTCTTTTTTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTGGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
* * **
2935033 TAAACTCTTTTCTT-CCTCATTTGACTATATCAGTGTTAGGGCCTAGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
*
2935080 CAAACTCTTTTCTTCCCTCATTTAACTGTATTGGTGTTAGGGCCTAGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
* * *
2935128 -AAAATCTTTTCTTCCTTCATTTGATTGTATTGGTGTTAGGGCCTAGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
* * *
2935175 CAAACTCTTTTCTTCCCTCATTTGACTGTATTAGTGTTAAGGCCCAGT
1 CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
* * * * * *
2935223 CAAACTCTTTT-TTCCCTTCGTTTGACTGTATTAGCGCTAGGACCTGGT
1 CAAACTCTTTTCTTCCC-TCATTTGACTGTATTGGTGTTAGGGCCTAGT
2935271 CAAACTCTT
1 CAAACTCTT
2935280 CCCATTTTGG
Statistics
Matches: 257, Mismatches: 34, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
47 102 0.40
48 155 0.60
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (48 bp):
CAAACTCTTTTCTTCCCTCATTTGACTGTATTGGTGTTAGGGCCTAGT
Found at i:2935057 original size:95 final size:96
Alignment explanation
Indices: 2934939--2935279 Score: 422
Period size: 95 Copynumber: 3.6 Consensus size: 96
2934929 ATACCTGGCC
* * * * *
2934939 AAACTCCTTTCTTCCTT-GTTTGACTATATTGGTGTTAAGGCCTGGTCAAACTCTTTTTTTCCCT
1 AAACTCTTTTCTTCCTTCATTTGACTATATTAGTGTTAAGGCCTAGTCAAACTCTTTTCTTCCCT
*
2935003 CATTTGACTGTATTGGTGTTAGGGCCTGGTT
66 CATTTGACTGTATTGGTGTTAGGGCCTAGTT
* *
2935034 AAACTCTTTTCTTCC-TCATTTGACTATATCAGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCT
1 AAACTCTTTTCTTCCTTCATTTGACTATATTAGTGTTAAGGCCTAGTCAAACTCTTTTCTTCCCT
*
2935098 CATTTAACTGTATTGGTGTTAGGGCCTAG-T
66 CATTTGACTGTATTGGTGTTAGGGCCTAGTT
* * * * *
2935128 AAAATCTTTTCTTCCTTCATTTGATTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCTTCCCT
1 AAACTCTTTTCTTCCTTCATTTGACTATATTAGTGTTAAGGCCTAGTCAAACTCTTTTCTTCCCT
* * * *
2935193 CATTTGACTGTATTAGTGTTAAGGCCCAGTC
66 CATTTGACTGTATTGGTGTTAGGGCCTAGTT
* * * * *
2935224 AAACTCTTTT-TTCCCTTCGTTTGACTGTATTAGCGCT-AGGACCTGGTCAAACTCTT
1 AAACTCTTTTCTT-CCTTCATTTGACTATATTAGTGTTAAGG-CCTAGTCAAACTCTT
2935280 CCCATTTTGG
Statistics
Matches: 214, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
94 16 0.07
95 156 0.73
96 42 0.20
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.42
Consensus pattern (96 bp):
AAACTCTTTTCTTCCTTCATTTGACTATATTAGTGTTAAGGCCTAGTCAAACTCTTTTCTTCCCT
CATTTGACTGTATTGGTGTTAGGGCCTAGTT
Found at i:2935316 original size:44 final size:44
Alignment explanation
Indices: 2935265--2935362 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
2935255 AGCGCTAGGA
* *
2935265 CCTGGTCAAACTCTTCCCATTTTGGTTTAACATATGGTTACCAC
1 CCTGGTCAAACTCTTCCCATTCTGATTTAACATATGGTTACCAC
* * * **
2935309 CTTGGTCAGATTCTTTTCATTCTGATTTAACATATGGTTACCAC
1 CCTGGTCAAACTCTTCCCATTCTGATTTAACATATGGTTACCAC
2935353 CCTGGTCAAA
1 CCTGGTCAAA
2935363 TTTGCCTCCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.38
Consensus pattern (44 bp):
CCTGGTCAAACTCTTCCCATTCTGATTTAACATATGGTTACCAC
Found at i:2935830 original size:43 final size:43
Alignment explanation
Indices: 2935783--2935868 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
2935773 TTCAGCTTTT
* *
2935783 GTCTGCCCATCGGCTTAGACTTGGGAGACTTCCTTCATTAATC
1 GTCTGCCCATCAGCTTAGACTCGGGAGACTTCCTTCATTAATC
**** * *
2935826 GTCTGTTTGTCAGTTTAGACTCGGGAGACTTCCTTTATTAATC
1 GTCTGCCCATCAGCTTAGACTCGGGAGACTTCCTTCATTAATC
2935869 ATTTACCCGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (43 bp):
GTCTGCCCATCAGCTTAGACTCGGGAGACTTCCTTCATTAATC
Found at i:2935881 original size:43 final size:43
Alignment explanation
Indices: 2935797--2935888 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
2935787 GCCCATCGGC
* * ****
2935797 TTAGACTTGGGAGACTTCCTTCATTAATCGTCTGTTTGTCAGT
1 TTAGACTCGGGAGACTTCCTTCATTAATCATCTACCCGTCAGT
* *
2935840 TTAGACTCGGGAGACTTCCTTTATTAATCATTTACCCGTCAGT
1 TTAGACTCGGGAGACTTCCTTCATTAATCATCTACCCGTCAGT
2935883 TTAGAC
1 TTAGAC
2935889 CCGAGAGATC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (43 bp):
TTAGACTCGGGAGACTTCCTTCATTAATCATCTACCCGTCAGT
Found at i:2935931 original size:42 final size:43
Alignment explanation
Indices: 2935883--2935984 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
2935873 ACCCGTCAGT
*
2935883 TTAGACCCGAGAGA-TCTT-TTCATCTTTCATCTACCCATTGGC
1 TTAGACCCGAGAGACT-TTCTTCAACTTTCATCTACCCATTGGC
* ** *
2935925 TTAGACCCTAGAGACTTTCTTCAACTTTTGTCTACCCGTTGGC
1 TTAGACCCGAGAGACTTTCTTCAACTTTCATCTACCCATTGGC
**
2935968 TTAGACATGAGAGACTT
1 TTAGACCCGAGAGACTT
2935985 CTTTATCAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 15 0.30
43 35 0.70
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (43 bp):
TTAGACCCGAGAGACTTTCTTCAACTTTCATCTACCCATTGGC
Found at i:2936644 original size:42 final size:42
Alignment explanation
Indices: 2936598--2936683 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 42
2936588 TTTTGTCTGC
* * *
2936598 CCGTCAGCTTAAACCTAGGAGA-TTCTTTTATCAATTGTCTAT
1 CCGTCAGCTCAAACCTAGGAGACTTC-TTCATCAATCGTCTAT
* **
2936640 CCGTCTGCTCAGGCCTAGGAGACTTCTTCATCAATCGTCTAT
1 CCGTCAGCTCAAACCTAGGAGACTTCTTCATCAATCGTCTAT
2936682 CC
1 CC
2936684 ATCGGTTTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (42 bp):
CCGTCAGCTCAAACCTAGGAGACTTCTTCATCAATCGTCTAT
Found at i:2937037 original size:43 final size:42
Alignment explanation
Indices: 2936914--2937038 Score: 101
Period size: 43 Copynumber: 2.9 Consensus size: 42
2936904 CAAACAAAGA
* * * * * *
2936914 AGACTTCCTTTATCAATCATTTGCCTATTGGCTTAGGCCCGAG
1 AGACTTCCTTTATCAATCGTCTACCCATCGGC-TAGTCCCGAG
* * * * *
2936957 AGGCTT-CTTCATCCATCGTCTACCCGTTC-GCTCAGTCCCGTG
1 AGACTTCCTTTATCAATCGTCTACCC-ATCGGCT-AGTCCCGAG
2936999 AGACTTCCTTTATCAATCGTCTACCCATCGGCATAGTCCC
1 AGACTTCCTTTATCAATCGTCTACCCATCGGC-TAGTCCC
2937039 AGTAAACCCT
Statistics
Matches: 62, Mismatches: 15, Indels: 10
0.71 0.17 0.11
Matches are distributed among these distances:
41 1 0.02
42 29 0.47
43 31 0.50
44 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.17, T:0.32
Consensus pattern (42 bp):
AGACTTCCTTTATCAATCGTCTACCCATCGGCTAGTCCCGAG
Found at i:2937078 original size:42 final size:42
Alignment explanation
Indices: 2937025--2937120 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
2937015 TCGTCTACCC
*
2937025 ATCGGCATAGTCCC-AGTAAACCCTTT-ATCCCTTCGTTGACCT
1 ATCGGCTTAGTCCCTAGTAAA-CCTTTCAT-CCTTCGTTGACCT
* * * *
2937067 ATCGGCTTAGTCCCTGGTCAACCTTTCATGCTTTGTTGACCT
1 ATCGGCTTAGTCCCTAGTAAACCTTTCATCCTTCGTTGACCT
*
2937109 ATCAGCTTAGTC
1 ATCGGCTTAGTC
2937121 TTTGGTTAAC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 40 0.87
43 6 0.13
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (42 bp):
ATCGGCTTAGTCCCTAGTAAACCTTTCATCCTTCGTTGACCT
Found at i:2937132 original size:42 final size:41
Alignment explanation
Indices: 2937054--2937141 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
2937044 ACCCTTTATC
* *
2937054 CCTTCGTTGACCTATCGGCTTAGTCCCTGGTCAACCTTTCAT
1 CCTTTGTTGACCTATCAGCTTAGTCCCTGGTCAACC-TTCAT
* ** *
2937096 GCTTTGTTGACCTATCAGCTTAGTCTTTGGTTAACCTTCAT
1 CCTTTGTTGACCTATCAGCTTAGTCCCTGGTCAACCTTCAT
2937137 CCTTT
1 CCTTT
2937142 ATTTACCCGT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 9 0.23
42 30 0.77
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.41
Consensus pattern (41 bp):
CCTTTGTTGACCTATCAGCTTAGTCCCTGGTCAACCTTCAT
Found at i:2937440 original size:84 final size:84
Alignment explanation
Indices: 2937347--2937720 Score: 229
Period size: 84 Copynumber: 4.5 Consensus size: 84
2937337 TCTTTATCCC
*
2937347 TTGTTGACTTGTCGGTTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCCT
1 TTGTTGACTTGTCGATTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCCT
*
2937412 AGGCACTTCCTTTTATCTT
66 AGGTACTTCCTTTTATCTT
* ** * * * * ****
2937431 TTGTTGACTTGTCAATCCAATCCC-AGTTAACTTCTTTATCCTTTGTTTACCTGTCGGCCCAATC
1 TTGTTGACTTGTCGATTTAATCCCGA-TCAACTT-TTTATCCTTTATTCACCTATCGGCTTGGT-
** *
2937495 CCT-GGTAAAT-CTTTTATCCT
63 CCTAGGTACTTCCTTTTATCTT
* ** * * ** *
2937515 TTGTTGACTTATTC-ATTTAATCTTGATCAACTTCTTATTCTCCATTCACTTATCGGCTTGGTCC
1 TTGTTGACTT-GTCGATTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCC
* *
2937579 CAGGTACTTCTTTTTATCTT
65 TAGGTACTTCCTTTTATCTT
* ** * * * * * * * * * *
2937599 TTGTTAACTTGTCGACCTATTCACGGTCAA-TTTCTGTCCTTTGTTTACCTGTCAGCTTAGTCCT
1 TTGTTGACTTGTCGATTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCCT
* ** **
2937663 GGGTAAAT-CTTTTATCCA
66 AGGTACTTCCTTTTATCTT
* * * * *
2937681 TTGTTGGCTCGTCGATTTAGTCTCGATCAACCTTTTATCC
1 TTGTTGACTTGTCGATTTAATCCCGATCAACTTTTTATCC
2937721 CTTGCTTACT
Statistics
Matches: 204, Mismatches: 77, Indels: 19
0.68 0.26 0.06
Matches are distributed among these distances:
82 31 0.15
83 57 0.28
84 84 0.41
85 29 0.14
86 3 0.01
ACGTcount: A:0.17, C:0.25, G:0.14, T:0.44
Consensus pattern (84 bp):
TTGTTGACTTGTCGATTTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCCT
AGGTACTTCCTTTTATCTT
Found at i:2937477 original size:42 final size:42
Alignment explanation
Indices: 2937421--2937524 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 42
2937411 TAGGCACTTC
* * * *
2937421 CTTTTATCTTTTGTTGACTTGTCAATCCAATCCCAGTTAACT
1 CTTTTATCCTTTGTTGACTTGTCAACCCAATCCCAGGTAAAT
* * ** *
2937463 -TCTTTATCCTTTGTTTACCTGTCGGCCCAATCCCTGGTAAAT
1 CT-TTTATCCTTTGTTGACTTGTCAACCCAATCCCAGGTAAAT
2937505 CTTTTATCCTTTGTTGACTT
1 CTTTTATCCTTTGTTGACTT
2937525 ATTCATTTAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.02
42 47 0.96
43 1 0.02
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.46
Consensus pattern (42 bp):
CTTTTATCCTTTGTTGACTTGTCAACCCAATCCCAGGTAAAT
Found at i:2937575 original size:168 final size:167
Alignment explanation
Indices: 2937135--2937720 Score: 573
Period size: 165 Copynumber: 3.5 Consensus size: 167
2937125 GTTAACCTTC
* * **
2937135 ATCCTTTATTTACCCGTCGGCCCAGTCCTTGGTAAATCTTTTATCCCTCATTGACTTGTCGATTT
1 ATCCTTTGTTTA-CCGTCGGCCCAGTCCCTGGTAAATCTTTTATCCCTTGTTGACTTGTCGATTT
* * * * *
2937200 AATCTCGGT-AAATATTTTATCCTTCATTCAATTGTCGGCTTGGTCCTAAGTACTTCCTTTTATC
65 AATCTCGATCAACT-TTTTATCCTTCATTCACTTATCGGCTTGGTCCTAGGTACTTCCTTTTATC
* * * *
2937264 TATTGTTAACTTGTCAGTCCAATCCTAATCAACTTTTTT
129 TTTTGTTAACTTGTCAATCCAATCCCAATCAACTTCTTT
* ** *
2937303 AT-CTTTCGTATACC--CATCCCAGTCCC-GGCTAAAT-TCTTTATCCCTTGTTGACTTGTCGGT
1 ATCCTTT-GTTTACCGTCGGCCCAGTCCCTGG-TAAATCT-TTTATCCCTTGTTGACTTGTCGAT
* * * *
2937363 TTAATCCCGATCAACTTTTTATCCTTTATTCACCTATCGGCTTGGTCCTAGGCACTTCCTTTTAT
63 TTAATCTCGATCAACTTTTTATCCTTCATTCACTTATCGGCTTGGTCCTAGGTACTTCCTTTTAT
* * *
2937428 CTTTTGTTGACTTGTCAATCCAATCCCAGTTAACTTCTTT
128 CTTTTGTTAACTTGTCAATCCAATCCCAATCAACTTCTTT
* * *
2937468 ATCCTTTGTTTACCTGTCGGCCCAATCCCTGGTAAATCTTTTATCCTTTGTTGACTTATTC-ATT
1 ATCCTTTGTTTACC-GTCGGCCCAGTCCCTGGTAAATCTTTTATCCCTTGTTGACTT-GTCGATT
* * * * * *
2937532 TAATCTTGATCAACTTCTTATTCTCCATTCACTTATCGGCTTGGTCCCAGGTACTTCTTTTTATC
64 TAATCTCGATCAACTTTTTATCCTTCATTCACTTATCGGCTTGGTCCTAGGTACTTCCTTTTATC
* * * ** *
2937597 TTTTGTTAACTTGTCGA-CCTATTCACGGTCAA-TT-TCT
129 TTTTGTTAACTTGTCAATCC-AATCCCAATCAACTTCTTT
* * ** * * *
2937634 GTCCTTTGTTTACCTGTCAGCTTAGT-CCTGGGTAAATCTTTTATCCATTGTTGGCTCGTCGATT
1 ATCCTTTGTTTACC-GTCGGCCCAGTCCCT-GGTAAATCTTTTATCCCTTGTTGACTTGTCGATT
* *
2937698 TAGTCTCGATCAACCTTTTATCC
64 TAATCTCGATCAACTTTTTATCC
2937721 CTTGCTTACT
Statistics
Matches: 342, Mismatches: 62, Indels: 30
0.79 0.14 0.07
Matches are distributed among these distances:
164 3 0.01
165 133 0.39
166 75 0.22
167 10 0.03
168 116 0.34
169 5 0.01
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (167 bp):
ATCCTTTGTTTACCGTCGGCCCAGTCCCTGGTAAATCTTTTATCCCTTGTTGACTTGTCGATTTA
ATCTCGATCAACTTTTTATCCTTCATTCACTTATCGGCTTGGTCCTAGGTACTTCCTTTTATCTT
TTGTTAACTTGTCAATCCAATCCCAATCAACTTCTTT
Found at i:2938822 original size:16 final size:17
Alignment explanation
Indices: 2938793--2938825 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2938783 CCATAAGGTA
2938793 TCAATTTATGAATTTTT
1 TCAATTTATGAATTTTT
2938810 TCAATTT-TGAATTTTT
1 TCAATTTATGAATTTTT
2938826 CACGGCATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (17 bp):
TCAATTTATGAATTTTT
Found at i:2939349 original size:166 final size:166
Alignment explanation
Indices: 2939053--2939375 Score: 422
Period size: 166 Copynumber: 1.9 Consensus size: 166
2939043 TTTCAACATC
* * * *
2939053 AAAATTCATCAAATATTATCATTTATTTCATATTAATTTAGTTTTAAAAATATTAATTCATTTTC
1 AAAATTCATCAAACATCATAATTTATTTCATATTAATTCAGTTTTAAAAATATTAATTCATTTTC
** *
2939118 ATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCTAAAATATGGTTTTTCTACTTTGTAAA
66 ATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCTAAAATATGACTTTTCTACTCTGTAAA
*
2939183 TTTTTTCGAGGGAATTTTTCTCAGTTTTCAATCTTT
131 TTTGTTCGAGGGAATTTTTCTCAGTTTTCAATCTTT
2939219 AAAATTCATCAAACATCATAATTTGA-TTCATATTAATTCAGTTTTAAAAA-ATTAATTCATTTT
1 AAAATTCATCAAACATCATAATTT-ATTTCATATTAATTCAGTTTTAAAAATATTAATTCATTTT
* * * * * *
2939282 TATGAG-TTTTGAATTTTTTCGTTGAAA-TTTTCTTTTTTTCAAGAA-ATCGACTTTTCTTCTCT
65 CATGAGTTTTTGAATTTTTTCCTTAAAATTTTTC-TTCTCT-AA-AATAT-GACTTTTCTACTCT
* *
2939344 GTAAATTTGTTCGAGGGGATTTTTCTTAGTTT
126 GTAAATTTGTTCGAGGGAATTTTTCTCAGTTT
2939376 AGAATTTTTA
Statistics
Matches: 136, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
163 5 0.04
164 23 0.17
165 22 0.16
166 85 0.62
167 1 0.01
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (166 bp):
AAAATTCATCAAACATCATAATTTATTTCATATTAATTCAGTTTTAAAAATATTAATTCATTTTC
ATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCTAAAATATGACTTTTCTACTCTGTAAA
TTTGTTCGAGGGAATTTTTCTCAGTTTTCAATCTTT
Found at i:2939430 original size:166 final size:166
Alignment explanation
Indices: 2939092--2939430 Score: 364
Period size: 166 Copynumber: 2.0 Consensus size: 166
2939082 ATATTAATTT
2939092 AGTTTTAAAAATATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCT
1 AGTTTTAAAAATATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCT
** * * *
2939157 AAAATATGGTTTTTCTACTTTGTAAATTTTTTCGAGGGAATTTTTCTCAGTTTTCAATCTTTAAA
66 AAAATATGACTTTTCTACTCTGTAAATTTGTTCGAGGGAATTTTTCTCAGTTTACAATCTTTAAA
** * * * *
2939222 ATTCATCAAACATCATAATTTGATTCATATTAATTC
131 ATTCATCAAACATCATAATTAAACTCACATTAAATA
* * * * *
2939258 AGTTTTAAAAA-ATTAATTCATTTTTATGAG-TTTTGAATTTTTTCGTTGAAA-TTTTCTTTTTT
1 AGTTTTAAAAATATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTTC-TTCTC
* * * * *
2939320 TCAAGAA-ATCGACTTTTCTTCTCTGTAAATTTGTTCGAGGGGATTTTTCTTAGTTTAGAATTTT
65 T-AA-AATAT-GACTTTTCTACTCTGTAAATTTGTTCGAGGGAATTTTTCTCAGTTTACAATCTT
* * * * *
2939384 TAAAACTT-ATCTAATATTATTATTAAACTCCCATTAAATA
127 TAAAA-TTCATCAAACATCATAATTAAACTCACATTAAATA
2939424 AGTTTTA
1 AGTTTTA
2939431 CAATACTCAA
Statistics
Matches: 142, Mismatches: 26, Indels: 10
0.80 0.15 0.06
Matches are distributed among these distances:
163 5 0.04
164 23 0.16
165 22 0.15
166 90 0.63
167 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (166 bp):
AGTTTTAAAAATATTAATTCATTTTCATGAGTTTTTGAATTTTTTCCTTAAAATTTTTCTTCTCT
AAAATATGACTTTTCTACTCTGTAAATTTGTTCGAGGGAATTTTTCTCAGTTTACAATCTTTAAA
ATTCATCAAACATCATAATTAAACTCACATTAAATA
Found at i:2939458 original size:8 final size:8
Alignment explanation
Indices: 2939445--2939475 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
2939435 ACTCAACTTA
2939445 TTTTTTAT
1 TTTTTTAT
2939453 TTTTTTAT
1 TTTTTTAT
*
2939461 TTTTTGAT
1 TTTTTTAT
2939469 TTTTTTA
1 TTTTTTA
2939476 CGTATAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2939462 original size:15 final size:16
Alignment explanation
Indices: 2939442--2939475 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
2939432 AATACTCAAC
2939442 TTATTTTTT-ATTTTT
1 TTATTTTTTGATTTTT
2939457 TTATTTTTTGATTTTT
1 TTATTTTTTGATTTTT
2939473 TTA
1 TTA
2939476 CGTATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (16 bp):
TTATTTTTTGATTTTT
Found at i:2942640 original size:155 final size:153
Alignment explanation
Indices: 2942386--2942747 Score: 336
Period size: 155 Copynumber: 2.4 Consensus size: 153
2942376 TGCTTATATA
* * * * * * *
2942386 CCAAAGGTGTACATTTAGGATAGGTTCAT-CC-T-T-TATCATTTTTAAGTTCTTTAAGGGTATC
1 CCAAAGGTG-GCATTCAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATC
* * * ** * * * * * *
2942447 AAGTACTTTTACGTTGAAGGTATCCTTTAGAGGCATTTTCGTAATTTTTCTAGAGCTAAGTCCTA
65 AAGTACTTCTACATCGAAGGTATCCCCTAGAGGCATTTTAGCAATTTTCCAAAAGC-AACTCCTA
*
2942512 GGTTGTCACCAAGTCTGCTCTTATG
129 GGTTGTCACCAAGTCCGCTCTTATG
* * * *
2942537 TCGAAGGTGGGTATTCAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCTTTTAGGGGTATC
1 CCAAAGGT-GGCATTCAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATC
* * * *
2942602 AGGTACTTCTACATCGAAGGTATCCCCTAGGGGTATTTTAGCAATTTTCCAAAATCAACTCCTAG
65 AAGTACTTCTACATCGAAGGTATCCCCTAGAGGCATTTTAGCAATTTTCCAAAAGCAACTCCTAG
** ** *
2942667 GTTGTCTTCGGGTCCGCTTTTATG
130 GTTGTCACCAAGTCCGCTCTTATG
* ** * *
2942691 CCAAAGGTGGCATTTAGGATAGGTTCATCTTATTTATATCCTTTTTAGGTCCTTTAG
1 CCAAAGGTGGCATTCAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAG
2942748 AATCACTAGG
Statistics
Matches: 165, Mismatches: 41, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
151 22 0.13
152 3 0.02
153 43 0.26
154 33 0.20
155 64 0.39
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (153 bp):
CCAAAGGTGGCATTCAGGATAGGTTCATCCCATCTAAATCCTTTTTAGGTCCTTTAGGGGTATCA
AGTACTTCTACATCGAAGGTATCCCCTAGAGGCATTTTAGCAATTTTCCAAAAGCAACTCCTAGG
TTGTCACCAAGTCCGCTCTTATG
Found at i:2951159 original size:79 final size:79
Alignment explanation
Indices: 2951051--2951225 Score: 235
Period size: 79 Copynumber: 2.2 Consensus size: 79
2951041 TAAAAACGGT
* * * *
2951051 GTTAGAGTATCCCCAATGGTGGAAAATCGATGTTATGGAAGTAAAATCGGGGTTGGAGTAT-CTC
1 GTTAGAGTATCCCCGATGGTGGAAAATCGATGTTATAGAAATAAAACCGGGGTTGGAGTATCCTC
*
2951115 TTTAGAAATAACATG
66 -TTAGAAATAACAGG
* *
2951130 GTTAGAGTATCCCCGATTGTGGAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTC
1 GTTAGAGTATCCCCGATGGTGGAAAATCGATGTTATAGAAATAAAACCGGGGTTGGAGTATCCTC
* **
2951195 TTGGAAATAATGGG
66 TTAGAAATAACAGG
*
2951209 GTTAGGGTATCCCCGAT
1 GTTAGAGTATCCCCGAT
2951226 AAACAAAATT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
79 81 0.96
80 3 0.04
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
GTTAGAGTATCCCCGATGGTGGAAAATCGATGTTATAGAAATAAAACCGGGGTTGGAGTATCCTC
TTAGAAATAACAGG
Found at i:2952606 original size:19 final size:20
Alignment explanation
Indices: 2952555--2952610 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
2952545 AAGTACCCAG
*
2952555 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
2952575 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2952595 ATGTAT-GATACATTCT
1 ATGTATCGATACATTCT
2952611 CTCTTTTTAC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 10 0.29
20 25 0.71
ACGTcount: A:0.30, C:0.16, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2959162 original size:20 final size:20
Alignment explanation
Indices: 2959137--2959191 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
2959127 ATATGCCTGC
*
2959137 ATGTATCGTTACATTGAATA
1 ATGTATCGATACATTGAATA
2959157 ATGTATCGATACATTGAATA
1 ATGTATCGATACATTGAATA
2959177 ATGTATCGATACATT
1 ATGTATCGATACATT
2959192 TCCTTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGAATA
Found at i:2962822 original size:95 final size:97
Alignment explanation
Indices: 2962587--2962824 Score: 336
Period size: 97 Copynumber: 2.5 Consensus size: 97
2962577 AATTTTATTT
* * * * *
2962587 ATCGGGGATACTCCAACCCTATTCTTTCGAGGGGATACTCCACCCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
2962652 GTTTAAATCTTATTCTCACTTAAATGGTCATC
66 GTTTAAATCTTATTCTCACTTAAATGGTCATC
* * *
2962684 ATCGGGGACACTTCAACCCCATTTCTCTGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
* * *
2962749 GTTTAAATTTTA-T-TCACTTAGATTGTCATC
66 GTTTAAATCTTATTCTCACTTAAATGGTCATC
* * *
2962779 ATTGGGGACACTCCACCCCCATTCCTCCGAGAGGATACTCCAACCC
1 ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCC
2962825 TGTTTTTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
95 55 0.44
96 1 0.01
97 68 0.55
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCCTCCGAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAATGGTCATC
Found at i:2964725 original size:52 final size:52
Alignment explanation
Indices: 2964668--2965045 Score: 325
Period size: 52 Copynumber: 7.3 Consensus size: 52
2964658 GATGGTAATA
* * *
2964668 TGCTGATTTAAGGTTAGCGACATTGGACTTTAGCATGATAAGGATGCCACTG
1 TGCTGATTCAAGGCTAGCGACATTGGACTTTAGCATGATAAGGATGCCAATG
* * * * * *
2964720 TGCTGATTCAAGGCCAACGACATTAGACTTGAAG-ATGAGAAGAATGCCAATG
1 TGCTGATTCAAGGCTAGCGACATTGGACTT-TAGCATGATAAGGATGCCAATG
* * * * * * * *
2964772 TACTGATTCAAGGCCAGTGATATTGGGC-TTATGGATG-TTAGAGATGCCAATA
1 TGCTGATTCAAGGCTAGCGACATTGGACTTTA-GCATGATAAG-GATGCCAATG
* * * *
2964824 TGCCGATTCAAGGCTAGCGCCATTGGACTTTAACATGATAAGGATACCAATG
1 TGCTGATTCAAGGCTAGCGACATTGGACTTTAGCATGATAAGGATGCCAATG
* * * * * * *
2964876 TGCTGATTCAAGGCCAACGACATTAGACTTGAAG-ATGAGAAGAATGCTAATG
1 TGCTGATTCAAGGCTAGCGACATTGGACTT-TAGCATGATAAGGATGCCAATG
* * * * * * * *
2964928 TACTTATTCAAGGCTAGTGACATTGGGC-TTAGGGATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCTAGCGACATTGGACTTTA-GCATGATAAGGATGCCAATG
* *
2964980 TGCTGATTCAAGGCTAGCGACATTGGACTTTAACATGATAAGGAAGCCAATG
1 TGCTGATTCAAGGCTAGCGACATTGGACTTTAGCATGATAAGGATGCCAATG
*
2965032 GGCTGATTCAAGGC
1 TGCTGATTCAAGGC
2965046 CAACAGCATT
Statistics
Matches: 248, Mismatches: 68, Indels: 20
0.74 0.20 0.06
Matches are distributed among these distances:
50 2 0.01
51 6 0.02
52 228 0.92
53 12 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (52 bp):
TGCTGATTCAAGGCTAGCGACATTGGACTTTAGCATGATAAGGATGCCAATG
Found at i:2964907 original size:156 final size:156
Alignment explanation
Indices: 2964623--2965165 Score: 706
Period size: 156 Copynumber: 3.5 Consensus size: 156
2964613 TTTTGTGTCC
* ** * *
2964623 TCAAGGCCAGCGATATTGGGCTTAGGGATGTTAAAGATGGTAATATGCTGATTTAAGGTTAGCGA
1 TCAAGGCCAGTGATATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
* * *
2964688 CATTGGACTTTAGCATGATAAGGATGCCACTGTGCTGATTCAAGGCCAACGACATTAGACTTGAA
66 CATTGGACTTTAACATGATAAGGATACCAATGTGCTGATTCAAGGCCAACGACATTAGACTTGAA
2964753 GATGAGAAGAATGCCAATGTACTGAT
131 GATGAGAAGAATGCCAATGTACTGAT
* * * *
2964779 TCAAGGCCAGTGATATTGGGCTTATGGATGTTAGAGATGCCAATATGCCGATTCAAGGCTAGCGC
1 TCAAGGCCAGTGATATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
2964844 CATTGGACTTTAACATGATAAGGATACCAATGTGCTGATTCAAGGCCAACGACATTAGACTTGAA
66 CATTGGACTTTAACATGATAAGGATACCAATGTGCTGATTCAAGGCCAACGACATTAGACTTGAA
* *
2964909 GATGAGAAGAATGCTAATGTACTTAT
131 GATGAGAAGAATGCCAATGTACTGAT
* *
2964935 TCAAGGCTAGTGACATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
1 TCAAGGCCAGTGATATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
*
2965000 CATTGGACTTTAACATGATAAGGA-AGCCAATGGGCTGATTCAAGGCCAAC-AGCATTAGACTT-
66 CATTGGACTTTAACATGATAAGGATA-CCAATGTGCTGATTCAAGGCCAACGA-CATTAGACTTG
* * *
2965062 ACA-ATTG-GCAA-AGGTGCCAATATGCTGAT
129 A-AGA-TGAG-AAGA-ATGCCAATGTACTGAT
* * * * * * *
2965091 TCAAGGCCAGTGATATTGGACTTAAAGG-TGTCAAATG-GGCCCATATGCTGATTCAAGGCCAGT
1 TCAAGGCCAGTGATATTGGGCTT-AGGGATGTTAAA-GATGCCAATATGCTGATTCAAGGCTAGC
*
2965154 GATATTGGACTT
64 GACATTGGACTT
2965166 AAAGGTGCCA
Statistics
Matches: 343, Mismatches: 36, Indels: 16
0.87 0.09 0.04
Matches are distributed among these distances:
155 6 0.02
156 333 0.97
157 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (156 bp):
TCAAGGCCAGTGATATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
CATTGGACTTTAACATGATAAGGATACCAATGTGCTGATTCAAGGCCAACGACATTAGACTTGAA
GATGAGAAGAATGCCAATGTACTGAT
Found at i:2965041 original size:104 final size:104
Alignment explanation
Indices: 2964623--2965113 Score: 361
Period size: 104 Copynumber: 4.7 Consensus size: 104
2964613 TTTTGTGTCC
* * * ** * **
2964623 TCAAGGCCAGCGATATTGGGCTTAGGGATGTTAAAGATGGTAATATGCTGATTTAAGGTTAGCGA
1 TCAAGGCCAGCGACATTGGACTTAGAGATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCGA
* * *
2964688 CATTGGACTTTAGCATGATAAGGATGCCACTGTGCTGAT
66 CATTGGACTTTAACATGATAAGGAAGCCAATGTGCTGAT
* * * *
2964727 TCAAGGCCAACGACATTAGACTT-GAAGATG--AGAAGAATGCCAATGTACTGATTCAAGGCCAG
1 TCAAGGCCAGCGACATTGGACTTAG-AGATGTTA-AAG-ATGCCAATATGCTGATTCAAGGCCAG
* * * ** * * * *
2964789 TGATATTGGGC-TTATGGATG-TTAGAGATGCCAATATGCCGAT
63 CGACATTGGACTTTA-ACATGATAAG-GAAGCCAATGTGCTGAT
* * * * * * * *
2964831 TCAAGGCTAGCGCCATTGGACTTTA-ACATGATAAGGATACCAATGTGCTGATTCAAGGCCAACG
1 TCAAGGCCAGCGACATTGGAC-TTAGAGATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCG
* * * * * * *
2964895 ACATTAGACTTGAAGATGAGAA-GAATGCTAATGTACTTAT
65 ACATTGGACTTTAACATGATAAGGAA-GCCAATGTGCTGAT
* * * * *
2964935 TCAAGGCTAGTGACATTGGGCTTAGGGATGTTAAAGATGCCAATATGCTGATTCAAGGCTAGCGA
1 TCAAGGCCAGCGACATTGGACTTAGAGATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCGA
*
2965000 CATTGGACTTTAACATGATAAGGAAGCCAATGGGCTGAT
66 CATTGGACTTTAACATGATAAGGAAGCCAATGTGCTGAT
* * * ** * *
2965039 TCAAGGCCAAC-AGCATTAGACTTACA-ATTGGCAAAGGTGCCAATATGCTGATTCAAGGCCAGT
1 TCAAGGCCAGCGA-CATTGGACTTAGAGA-TGTTAAAGATGCCAATATGCTGATTCAAGGCCAGC
*
2965102 GATATTGGACTT
64 GACATTGGACTT
2965114 AAAGGTGTCA
Statistics
Matches: 296, Mismatches: 75, Indels: 32
0.73 0.19 0.08
Matches are distributed among these distances:
102 1 0.00
103 17 0.06
104 267 0.90
105 10 0.03
106 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (104 bp):
TCAAGGCCAGCGACATTGGACTTAGAGATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGCGA
CATTGGACTTTAACATGATAAGGAAGCCAATGTGCTGAT
Found at i:2965113 original size:52 final size:50
Alignment explanation
Indices: 2964720--2965168 Score: 189
Period size: 52 Copynumber: 8.7 Consensus size: 50
2964710 GATGCCACTG
** * * *
2964720 TGCTGATTCAAGGCCAACGACATTAGACTTGAAGAT-G-AGAAGAATGCCAATG
1 TGCTGATTCAAGGCCAGTGACATTGGACTT-AA-ATGGCA-AAG-GTGCCAATA
* * * * ** * *
2964772 TACTGATTCAAGGCCAGTGATATTGGGCTTATGGATGTTAGAGATGCCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTA--AATGGCAAAGGTGCCAATA
* * * * * *
2964824 TGCCGATTCAAGGCTAGCGCCATTGGACTTTAACAT-G-ATAAGGATACCAATG
1 TGCTGATTCAAGGCCAGTGACATTGGAC-TTAA-ATGGCA-AAGG-TGCCAATA
** * * * *
2964876 TGCTGATTCAAGGCCAACGACATTAGACTTGAAGAT-G-AGAAGAATGCTAATG
1 TGCTGATTCAAGGCCAGTGACATTGGACTT-AA-ATGGCA-AAG-GTGCCAATA
* * * * * ** *
2964928 TACTTATTCAAGGCTAGTGACATTGGGCTTAGGGATGTTAAAGATGCCAATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTA--AATGGCAAAGGTGCCAATA
* * * *
2964980 TGCTGATTCAAGGCTAGCGACATTGGACTTTAACAT-G-ATAAGGAAGCCAATG
1 TGCTGATTCAAGGCCAGTGACATTGGAC-TTAA-ATGGCA-AAGG-TGCCAATA
* ** *
2965032 GGCTGATTCAAGGCCA-ACAGCATTAGACTTACAATTGGCAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGTGA-CATTGGACTTA-AA-TGGCAAAGGTGCCAATA
* * *
2965084 TGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGTCAAATGG-GCCCATA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAA--TGGCAAA-GGTGCCAATA
*
2965136 TGCTGATTCAAGGCCAGTGATATTGGACTTAAA
1 TGCTGATTCAAGGCCAGTGACATTGGACTTAAA
2965169 GGTGCCAATG
Statistics
Matches: 303, Mismatches: 68, Indels: 52
0.72 0.16 0.12
Matches are distributed among these distances:
50 2 0.01
51 16 0.05
52 263 0.87
53 19 0.06
54 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (50 bp):
TGCTGATTCAAGGCCAGTGACATTGGACTTAAATGGCAAAGGTGCCAATA
Found at i:2965254 original size:32 final size:32
Alignment explanation
Indices: 2965218--2965442 Score: 328
Period size: 32 Copynumber: 7.0 Consensus size: 32
2965208 TAGAAGGAAA
* *
2965218 TGCCACTAACTTGTGTGGGTTTTTGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
* *
2965250 TGCCACCGACTTGTGTGGGC-TTTAAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAA-AAGGT
*
2965282 TGCCACCAACTTGTGTGGGCTTTAGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
* * *
2965314 TGCCACTAACTTGTGTGGCCTTTTGAAGAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
* *
2965346 TGCCACCAACTTGTGTGGGCTTTAGAAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
2965378 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
2965410 TGCCACCAACTTGTGTGGGC-TTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTTGAA-AAGGT
2965442 T
1 T
2965443 TCTCCACTAT
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
31 11 0.06
32 157 0.91
33 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTTGAAAAGGT
Found at i:2966988 original size:19 final size:19
Alignment explanation
Indices: 2966961--2967000 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
2966951 CCTTTTTTGG
*
2966961 TGTTTTTTTTGTTTGTTTTT
1 TGTTTTTTTT-TGTGTTTTT
2966981 TGTTTTTTTTTGTGTTTTT
1 TGTTTTTTTTTGTGTTTTT
2967000 T
1 T
2967001 TTTACGAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (19 bp):
TGTTTTTTTTTGTGTTTTT
Found at i:2967003 original size:12 final size:11
Alignment explanation
Indices: 2966953--2967003 Score: 66
Period size: 11 Copynumber: 4.5 Consensus size: 11
2966943 TTTTCTTCCC
* *
2966953 TTTTTTGGTGT
1 TTTTTTTGTTT
2966964 TTTTTTTGTTT
1 TTTTTTTGTTT
*
2966975 GTTTTTTGTTT
1 TTTTTTTGTTT
2966986 TTTTTTGTGTTT
1 TTTTTT-TGTTT
2966998 TTTTTT
1 TTTTTT
2967004 ACGAAGGATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
11 24 0.69
12 11 0.31
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:2971241 original size:19 final size:19
Alignment explanation
Indices: 2971217--2971278 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
2971207 CAAACAGAAA
2971217 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2971236 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
2971250 -TGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
2971268 TTGTATCGATA
1 TTGTATCGATA
2971279 TAGTGTATCG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 21 0.60
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2971260 original size:32 final size:32
Alignment explanation
Indices: 2971218--2971328 Score: 125
Period size: 32 Copynumber: 3.4 Consensus size: 32
2971208 AAACAGAAAT
2971218 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * *
2971250 TGTATTGATACATAAGTGTTGTATCGATATAG
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* * * *
2971282 TGTATCGCTAC-GAAGCTGAAATGTATCGATACAT
1 TGTATCGATACATAAG-TG--TTGTATCGATACAA
2971316 TGTATCGATACAT
1 TGTATCGATACAT
2971329 TGATCTTTGT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
31 3 0.05
32 40 0.62
34 21 0.33
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2971321 original size:13 final size:13
Alignment explanation
Indices: 2971303--2971330 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2971293 GAAGCTGAAA
2971303 TGTATCGATACAT
1 TGTATCGATACAT
2971316 TGTATCGATACAT
1 TGTATCGATACAT
2971329 TG
1 TG
2971331 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2983032 original size:10 final size:10
Alignment explanation
Indices: 2983017--2983041 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2983007 GAAAAAATAA
2983017 AAAATGAATG
1 AAAATGAATG
2983027 AAAATGAATG
1 AAAATGAATG
2983037 AAAAT
1 AAAAT
2983042 TTGAAAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (10 bp):
AAAATGAATG
Found at i:2983077 original size:165 final size:164
Alignment explanation
Indices: 2982859--2983762 Score: 1179
Period size: 167 Copynumber: 5.4 Consensus size: 164
2982849 TCCAAAACTC
* * * * * *
2982859 ATGAAAATGAATAAATTTTTGAAAACTGAATTAATATTAATTAAATGATGATGTTTGATTAATTA
1 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATTT
** *
2982924 TAAAAATTGAAAACTGAGAAAAATCCCCTCGAAAAAATTTACGGAGTAGAAAATACCATATTGAG
66 TAAAAATTGAAAACCAAGAAAAATCCCC-CGAAAAAATTTACGGAGTAGAAAATACCATATTTAG
* *
2982989 AAAAAAAGGAGTTTTAAGGAAAAAATAAAAAATGA
130 AAAAAAAGAAGTTTCAAGGAAAAAATAAAAAATGA
** * * *
2983024 ATGAAAATGAATGAAAATTTGAAAACTGAATTAATAGGAAATAAATAATGATGTTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATTT
* * *
2983089 TAAAAATTGAAAACAAAGAAAAATCCCCTCGAAAAAATTTACAGACTAGAAAATACCATATTTTA
66 TAAAAATTGAAAACCAAGAAAAATCCCC-CGAAAAAATTTACGGAGTAGAAAATACCATA-TTTA
2983154 GAAAAAAAGAAGTTTCAAGGAAAAAATAAAAAATGA
129 GAAAAAAAGAAGTTTCAAGGAAAAAATAAAAAATGA
* *
2983190 ATG-AAATGAATGAATTTTTAAAAAATGAATTAATATGAAAATAAATGATAATGTTTTGATGAAT
1 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATG-AAATAAATGATAATG-TTTGATGAAT
* * * *
2983254 TTTAAAAATTGAAAACTAAGAAAAATCCTCCCGAAAAAATTTATGGAGTAGAAAATATCGTATTT
64 TTTAAAAATTGAAAACCAAGAAAAATCC-CCCGAAAAAATTTACGGAGTAGAAAATACCATATTT
* * *
2983319 CGAAAAAAAGAAGTTTCAAGGAAAAAACTCAAAAACT-C
128 AGAAAAAAAGAAGTTTCAAGGAAAAAA-T-AAAAAATGA
* * * *
2983357 ATAAAAATGAATGAATTTTTTAGAAAC-GAATTAATATG-AATAAATGATAATGTTTTATAAATT
1 ATGAAAATGAATGAATTTTTGA-AAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATT
* * *
2983420 TTAAAAATTGAAAACCAATAAAATTCTCCCCGAAAAAATTTACGGAGTAGAAAACACCATATTTC
65 TTAAAAATTGAAAACCAAGAAAAATC-CCCCGAAAAAATTTACGGAGTAGAAAATACCATATTT-
* * *
2983485 AAAAAAAAAGAAGTTTCAAAGAAAAAAATTAAAAATGA
128 AGAAAAAAAGAAGTTTC-AAGGAAAAAATAAAAAATGA
* * *
2983523 ATGAAAATGAATGAATTTTTTAAAACTAAATTAATATGAAATAAATGATAATGTTTTATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATTT
* * **
2983588 TAAAAATTGAAAACCAAGAAAAATCCCCCCCAAAAAATTTACGGAGAAGAAAGCACCATATATTA
66 TAAAAATTGAAAACCAAGAAAAAT-CCCCCGAAAAAATTTACGGAGTAGAAAATACCATAT-TTA
*
2983653 -AAAAAAGGGAAGTTTCAAGGAAAAAAATAAAAAATGA
129 GAAAAAA-AGAAGTTTCAAGG-AAAAAATAAAAAATGA
* * * *
2983690 ATGAAAATGAATGGATTTTTGAAAACTGAATTAATATGAAATAAATAAAAATATTTGATGAATTT
1 ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATTT
2983755 TAAAAATT
66 TAAAAATT
2983763 AAAGGGAATT
Statistics
Matches: 653, Mismatches: 68, Indels: 34
0.86 0.09 0.05
Matches are distributed among these distances:
165 214 0.33
166 153 0.23
167 244 0.37
168 39 0.06
169 3 0.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (164 bp):
ATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATGATAATGTTTGATGAATTT
TAAAAATTGAAAACCAAGAAAAATCCCCCGAAAAAATTTACGGAGTAGAAAATACCATATTTAGA
AAAAAAGAAGTTTCAAGGAAAAAATAAAAAATGA
Done.