Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 122 of 133
Found at i:23502976 original size:16 final size:16
Alignment explanation
Indices: 23502949--23502992 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
23502939 AATATTATTT
23502949 TTTAAA-ATATAAATA
1 TTTAAATATATAAATA
*
23502964 TTTAAATATATAATTA
1 TTTAAATATATAAATA
*
23502980 TATAAAATATATA
1 T-TTAAATATATA
23502993 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 6 0.24
16 9 0.36
17 10 0.40
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAAATATATAAATA
Found at i:23502981 original size:8 final size:8
Alignment explanation
Indices: 23502951--23502992 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
23502941 TATTATTTTT
23502951 TAAA-ATA
1 TAAATATA
*
23502958 TAAATATT
1 TAAATATA
23502966 TAAATATA
1 TAAATATA
*
23502974 TAATTATA
1 TAAATATA
23502982 TAAAATATA
1 T-AAATATA
23502991 TA
1 TA
23502993 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
7 4 0.14
8 18 0.62
9 7 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:23503009 original size:31 final size:30
Alignment explanation
Indices: 23502929--23503016 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 30
23502919 ATCTGAATTG
* * *
23502929 AAATTAAT-AAAATATTATTTTTTAAAATAT
1 AAATAAATAAAAATA-TAATTTATAAAATAT
** *
23502959 AAATATTTAAATATATAATTATATAAAATAT
1 AAATAAATAAAAATATAATT-TATAAAATAT
* *
23502990 ATATAAATAAAAATTTAATTTA-AAAAT
1 AAATAAATAAAAATATAATTTATAAAAT
23503017 TATTTTTATA
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
29 5 0.11
30 11 0.24
31 29 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AAATAAATAAAAATATAATTTATAAAATAT
Found at i:23508437 original size:19 final size:20
Alignment explanation
Indices: 23508391--23508439 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
23508381 CATGATTTTT
**
23508391 AATATCAAAATTTTTTTTAAA
1 AATAT-AAAATTAATTTTAAA
*
23508412 AAAATAAAATTAATTTT-AA
1 AATATAAAATTAATTTTAAA
23508431 AATATAAAA
1 AATATAAAA
23508440 AGTAAGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 10 0.42
20 10 0.42
21 4 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATATAAAATTAATTTTAAA
Found at i:23524226 original size:3 final size:3
Alignment explanation
Indices: 23524218--23524243 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23524208 GAGGCTGATT
23524218 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
23524244 TAAAGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:23526291 original size:15 final size:15
Alignment explanation
Indices: 23526271--23526301 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23526261 ATTGCTTATG
23526271 AATTAAGGATGTTTT
1 AATTAAGGATGTTTT
23526286 AATTAAGGATGTTTT
1 AATTAAGGATGTTTT
23526301 A
1 A
23526302 CTTCAGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.45
Consensus pattern (15 bp):
AATTAAGGATGTTTT
Found at i:23528925 original size:12 final size:12
Alignment explanation
Indices: 23528891--23528936 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
23528881 TAAATTTTTG
23528891 AAATTTTAA-AA
1 AAATTTTAATAA
23528902 AAATGATTTAATAA
1 AAAT--TTTAATAA
23528916 AAATTTTAATAA
1 AAATTTTAATAA
*
23528928 AAAATTTAA
1 AAATTTTAA
23528937 GTAGATAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
11 4 0.13
12 16 0.52
13 5 0.16
14 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AAATTTTAATAA
Found at i:23529170 original size:13 final size:13
Alignment explanation
Indices: 23529152--23529177 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23529142 TAATTTATCG
23529152 ATTTTAATTTTTA
1 ATTTTAATTTTTA
23529165 ATTTTAATTTTTA
1 ATTTTAATTTTTA
23529178 TATGATCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTTAATTTTTA
Found at i:23529634 original size:30 final size:30
Alignment explanation
Indices: 23529562--23529650 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
23529552 TTATGTTAAT
* *
23529562 TTATTTAGATACAAATTAAA-ATTTAATAG
1 TTATTTAGATACAAATTAAAGATTAAAAAG
*
23529591 TTTATCTAGATACAAATTAAAGATTAAAAAG
1 -TTATTTAGATACAAATTAAAGATTAAAAAG
* *
23529622 TTATTT-GAATACAAAATAAAGTTTAAAAA
1 TTATTTAG-ATACAAATTAAAGATTAAAAA
23529651 CATATTTGAG
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 43 0.84
31 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.08, T:0.36
Consensus pattern (30 bp):
TTATTTAGATACAAATTAAAGATTAAAAAG
Found at i:23529657 original size:30 final size:30
Alignment explanation
Indices: 23529600--23529659 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
23529590 GTTTATCTAG
* **
23529600 ATACAAATTAAAGATTAAAAAGTTATTTGA
1 ATACAAAATAAAGATTAAAAACATATTTGA
*
23529630 ATACAAAATAAAGTTTAAAAACATATTTGA
1 ATACAAAATAAAGATTAAAAACATATTTGA
23529660 GAAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (30 bp):
ATACAAAATAAAGATTAAAAACATATTTGA
Found at i:23532766 original size:34 final size:34
Alignment explanation
Indices: 23532685--23532767 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
23532675 AGAAAACAGG
*
23532685 CTAAATTAGTGACGTTTTTCTAATACAAACGCCA
1 CTAAATTAGTGACGTTTTTCTAATAAAAACGCCA
* * * * * * *
23532719 CCAAAGTAATGACGTTTTTTTGATAAAAATGTCA
1 CTAAATTAGTGACGTTTTTCTAATAAAAACGCCA
23532753 CTAAATTAGTGACGT
1 CTAAATTAGTGACGT
23532768 CTCAAAGATA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (34 bp):
CTAAATTAGTGACGTTTTTCTAATAAAAACGCCA
Found at i:23532848 original size:34 final size:34
Alignment explanation
Indices: 23532802--23532907 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 34
23532792 ATAGTGACAT
* *
23532802 TTTTTTATATACAAATGTCACTAATATAACGATA
1 TTTTTTAGATACAAATGTCGCTAATATAACGATA
* *
23532836 TTTTTTAGATACAAATGCCGTTAGAT-TAACGATA
1 TTTTTTAGATACAAATGTCGCTA-ATATAACGATA
** *
23532870 TTTTTTAGATACAAACATCGCTAATATAACGGTA
1 TTTTTTAGATACAAATGTCGCTAATATAACGATA
23532904 TTTT
1 TTTT
23532908 ATAAAAAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
33 2 0.03
34 57 0.93
35 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (34 bp):
TTTTTTAGATACAAATGTCGCTAATATAACGATA
Found at i:23535933 original size:12 final size:12
Alignment explanation
Indices: 23535916--23535998 Score: 58
Period size: 12 Copynumber: 6.6 Consensus size: 12
23535906 TTTATCTTAT
23535916 ATATATACATAC
1 ATATATACATAC
* *
23535928 ATATATATATAT
1 ATATATACATAC
* *
23535940 ATATATGTATGTATGC
1 ATATA--TA--CATAC
*
23535956 ATGTATACATAC
1 ATATATACATAC
*
23535968 ATACATACATAC
1 ATATATACATAC
*
23535980 ATACATACATAC
1 ATATATACATAC
*
23535992 AAATATA
1 ATATATA
23535999 TATGTATGGG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
12 45 0.80
14 4 0.07
16 7 0.12
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (12 bp):
ATATATACATAC
Found at i:23535967 original size:4 final size:4
Alignment explanation
Indices: 23535960--23535992 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
23535950 GTATGCATGT
23535960 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
23535993 AATATATATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:23542739 original size:10 final size:9
Alignment explanation
Indices: 23542714--23542738 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
23542704 TTCAAAACAC
23542714 AAAAAAAGA
1 AAAAAAAGA
23542723 AAAAAAAGA
1 AAAAAAAGA
23542732 AAAAAAA
1 AAAAAAA
23542739 ATATTTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:23543173 original size:56 final size:54
Alignment explanation
Indices: 23543108--23543269 Score: 180
Period size: 56 Copynumber: 2.9 Consensus size: 54
23543098 AAGAGAAAAT
*
23543108 ATTTCTAAATTGACTCAAATTGTGAAAAATTTAGAAATCCAACAAAAAAAGAAAGA
1 ATTTCTAAATTG-C-CAAATTGTGAAAAATTTAAAAATCCAACAAAAAAAGAAAGA
* * * *
23543164 ATTTTTAAATATGCCCAAATTGTGAAAAATTTAAAAATCTAACATAAAAAGAGAGA
1 ATTTCTAAAT-TG-CCAAATTGTGAAAAATTTAAAAATCCAACAAAAAAAGAAAGA
* * * * *
23543220 ATTTCTAAATAGGCCTAAATGGTGAAAATTTTAAAAATTCAAAAAAAAAA
1 ATTTCTAAAT-TGCC-AAATTGTGAAAAATTTAAAAATCCAACAAAAAAA
23543270 TTCTAATTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
55 2 0.02
56 85 0.94
57 3 0.03
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.27
Consensus pattern (54 bp):
ATTTCTAAATTGCCAAATTGTGAAAAATTTAAAAATCCAACAAAAAAAGAAAGA
Found at i:23547154 original size:15 final size:14
Alignment explanation
Indices: 23547134--23547230 Score: 51
Period size: 16 Copynumber: 6.9 Consensus size: 14
23547124 CTAATGGATA
23547134 AAAAAATAAGAAAAT
1 AAAAAATAA-AAAAT
23547149 AAAAAATAAAAAAT
1 AAAAAATAAAAAAT
*
23547163 GAGAAGAGA-AAAAAAT
1 -A-AA-AAATAAAAAAT
* *
23547179 GAAAAAT--GAAA-
1 AAAAAATAAAAAAT
*
23547190 AAAAAATAAAAAGGT
1 AAAAAATAAAAA-AT
*
23547205 GAAAAAATGAAAAA-
1 -AAAAAATAAAAAAT
*
23547219 AAAAAAGAAAAA
1 AAAAAATAAAAA
23547231 TGGAAAGAAG
Statistics
Matches: 62, Mismatches: 11, Indels: 20
0.67 0.12 0.22
Matches are distributed among these distances:
11 6 0.10
12 3 0.05
13 14 0.23
14 7 0.11
15 10 0.16
16 20 0.32
17 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (14 bp):
AAAAAATAAAAAAT
Found at i:23547159 original size:6 final size:7
Alignment explanation
Indices: 23547134--23547230 Score: 51
Period size: 7 Copynumber: 13.7 Consensus size: 7
23547124 CTAATGGATA
23547134 AAAAAAT
1 AAAAAAT
23547141 AAGAAAAT
1 AA-AAAAT
23547149 AAAAAAT
1 AAAAAAT
23547156 AAAAAAT
1 AAAAAAT
*
23547163 GAGAAGAGA-
1 -A-AA-AAAT
23547172 AAAAAAT
1 AAAAAAT
*
23547179 GAAAAAT
1 AAAAAAT
*
23547186 --GAAA-
1 AAAAAAT
23547190 AAAAAAT
1 AAAAAAT
*
23547197 AAAAAGGT
1 AAAAA-AT
23547205 GAAAAAAT
1 -AAAAAAT
*
23547213 GAAAAA-
1 AAAAAAT
*
23547219 AAAAAAG
1 AAAAAAT
23547226 AAAAA
1 AAAAA
23547231 TGGAAAGAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 22
0.69 0.09 0.22
Matches are distributed among these distances:
5 3 0.04
6 10 0.14
7 37 0.53
8 11 0.16
9 7 0.10
10 2 0.03
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:23547177 original size:16 final size:16
Alignment explanation
Indices: 23547135--23547193 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
23547125 TAATGGATAA
* *
23547135 AAAAAT-AAGAAAATA
1 AAAAATGAAAAAAATG
23547150 AAAAAT--AAAAAATG
1 AAAAATGAAAAAAATG
*
23547164 AGAAGA-GAAAAAAATG
1 A-AAAATGAAAAAAATG
23547180 AAAAATGAAAAAAA
1 AAAAATGAAAAAAA
23547194 AATAAAAAGG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
14 7 0.19
15 12 0.33
16 17 0.47
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (16 bp):
AAAAATGAAAAAAATG
Found at i:23547191 original size:17 final size:18
Alignment explanation
Indices: 23547171--23547246 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 18
23547161 ATGAGAAGAG
*
23547171 AAAAAAATGAAAAATGAA
1 AAAAAAATGAAAAAGGAA
*
23547189 AAAAAAAT-AAAAAGG-T
1 AAAAAAATGAAAAAGGAA
* **
23547205 GAAAAAATGAAAAAAAAA
1 AAAAAAATGAAAAAGGAA
23547223 AAGAAAAATGGAAAGAAGAGAA
1 AA-AAAAAT-GAAA-AAG-GAA
23547245 AA
1 AA
23547247 GAGATACTCA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
16 7 0.16
17 11 0.26
18 9 0.21
19 6 0.14
20 4 0.09
21 2 0.05
22 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (18 bp):
AAAAAAATGAAAAAGGAA
Found at i:23547192 original size:18 final size:18
Alignment explanation
Indices: 23547171--23547211 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
23547161 ATGAGAAGAG
23547171 AAAAAAATGAAAAA-TGAA
1 AAAAAAAT-AAAAAGTGAA
23547189 AAAAAAATAAAAAGGTGAA
1 AAAAAAATAAAAA-GTGAA
23547208 AAAA
1 AAAA
23547212 TGAAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.24
18 8 0.38
19 8 0.38
ACGTcount: A:0.78, C:0.00, G:0.12, T:0.10
Consensus pattern (18 bp):
AAAAAAATAAAAAGTGAA
Found at i:23548134 original size:6 final size:6
Alignment explanation
Indices: 23548123--23548337 Score: 87
Period size: 6 Copynumber: 34.5 Consensus size: 6
23548113 TTTTTCTTCA
* **
23548123 TTTTAT TTTTAT TTTTAT TTTTTT TTTGTAT GTTACAT TTTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT TTTTAT TTTTAT
* * *
23548172 TTTTAT TTTTAT TATTAT TGTTTTT TTATATAT TTTTTT CTTTTA- TTTT-T
1 TTTTAT TTTTAT TTTTAT T-TTTAT TT-T-TAT TTTTAT -TTTTAT TTTTAT
* * ** * *
23548222 TTTTA- TCTTAGGT ATTTAT GTATTTAT TAATAT GTATATAT CTTTAT
1 TTTTAT TTTTA--T TTTTAT -T-TTTAT TTTTAT -T-TTTAT TTTTAT
* * * * * * * *
23548269 TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * *
23548317 TATTAT TATTAT TATTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
23548338 CTTCTTTTTT
Statistics
Matches: 169, Mismatches: 24, Indels: 32
0.75 0.11 0.14
Matches are distributed among these distances:
5 17 0.10
6 118 0.70
7 16 0.09
8 18 0.11
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:23548148 original size:31 final size:29
Alignment explanation
Indices: 23548111--23548227 Score: 103
Period size: 31 Copynumber: 3.8 Consensus size: 29
23548101 GTCTATGTTC
* *
23548111 TTTTTTTCTTCATTTTATTTTTATTTTTA
1 TTTTTTTTTTTATTTTATTTTTATTTTTA
*
23548140 TTTTTTTTTTGTATGTTACATTTTTA-TTTTA
1 TTTTTTTTTT-TAT-TT-TATTTTTATTTTTA
* *
23548171 TTTTTATTTTTATTATTATTGTTTTTTTATATA
1 TTTTTTTTTTTATT-TTATT-TTTATTT-T-TA
23548204 TTTTTTTCTTTTATTTT-TTTTTAT
1 TTTTTTT-TTTTATTTTATTTTTAT
23548228 CTTAGGTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
29 13 0.18
30 9 0.13
31 22 0.31
32 10 0.14
33 10 0.14
34 7 0.10
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTTTTTTTTATTTTATTTTTATTTTTA
Found at i:23548210 original size:13 final size:12
Alignment explanation
Indices: 23548123--23548227 Score: 58
Period size: 13 Copynumber: 8.5 Consensus size: 12
23548113 TTTTTCTTCA
23548123 TTTTAT-TTTTAT
1 TTTTATATTTT-T
23548135 TTTTAT-TTTTT
1 TTTTATATTTTT
* *
23548146 TTTTGTATGTTACAT
1 TTTTATAT-TT--TT
*
23548161 TTTTAT-TTTAT
1 TTTTATATTTTT
23548172 TTTTAT-TTTTAT
1 TTTTATATTTT-T
*
23548184 TATTAT-TGTTTT
1 TTTTATAT-TTTT
23548196 TTTATATATTTTT
1 TTT-TATATTTTT
*
23548209 TTCTTTTATTTTT
1 TT-TTATATTTTT
23548222 TTTTAT
1 TTTTAT
23548228 CTTAGGTATT
Statistics
Matches: 76, Mismatches: 8, Indels: 18
0.75 0.08 0.18
Matches are distributed among these distances:
11 17 0.22
12 24 0.32
13 26 0.34
14 3 0.04
15 6 0.08
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTATATTTTT
Found at i:23548224 original size:49 final size:49
Alignment explanation
Indices: 23548123--23548293 Score: 134
Period size: 49 Copynumber: 3.4 Consensus size: 49
23548113 TTTTTCTTCA
* *
23548123 TTTTATTTTTATTTTTATTTTTTTTTTGTATGTTACATTTTTATTTTAT
1 TTTTATTTTTATTATTATTTTTTTTTTATATGTTACATTTTTATTTTAT
* * *
23548172 TTTTATTTTTATTATTATTGTTTTTTTATATATT---TTTTTCTTTTAT
1 TTTTATTTTTATTATTATTTTTTTTTTATATGTTACATTTTTATTTTAT
* * * *
23548218 TTTT-TTTTATCTTAGGTATTTATGTATTTATTAATATGTATATATCTTTATTATTAT
1 TTTTATTTT-TATTA-TTATTT-T-T-TTT-TT-ATATGT-TACATTTTTATT-TTAT
* *
23548275 TATTATTATTATTATTATT
1 TTTTATTTTTATTATTATT
23548294 ATTATTATTA
Statistics
Matches: 94, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
45 4 0.04
46 19 0.20
47 4 0.04
48 1 0.01
49 31 0.33
50 3 0.03
51 2 0.02
52 5 0.05
53 1 0.01
56 10 0.11
57 11 0.12
58 3 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (49 bp):
TTTTATTTTTATTATTATTTTTTTTTTATATGTTACATTTTTATTTTAT
Found at i:23548273 original size:3 final size:3
Alignment explanation
Indices: 23548265--23548335 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
23548255 GTATATATCT
23548265 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23548313 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
23548336 TTCTTCTTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23548427 original size:21 final size:23
Alignment explanation
Indices: 23548401--23548449 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
23548391 TTTAATTTTA
23548401 ATTTATCTG-TTAATTTTC-TTG
1 ATTTATCTGATTAATTTTCATTG
*
23548422 ATTTATCTGATTTATTTTCATTTG
1 ATTTATCTGATTAATTTTCA-TTG
23548446 ATTT
1 ATTT
23548450 TTTTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
24 7 0.29
ACGTcount: A:0.20, C:0.08, G:0.08, T:0.63
Consensus pattern (23 bp):
ATTTATCTGATTAATTTTCATTG
Found at i:23549309 original size:20 final size:22
Alignment explanation
Indices: 23549272--23549319 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
23549262 AGGTTTTTTT
23549272 TTTGTTTTTTTATATTTATTTA
1 TTTGTTTTTTTATATTTATTTA
*
23549294 TTTGTTTTTTTGTTTATTTATTTA
1 TTTG-TTTTTT-TATATTTATTTA
23549318 TT
1 TT
23549320 AAATGAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 6 0.26
24 13 0.57
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (22 bp):
TTTGTTTTTTTATATTTATTTA
Found at i:23549359 original size:5 final size:5
Alignment explanation
Indices: 23549344--23549422 Score: 67
Period size: 5 Copynumber: 15.6 Consensus size: 5
23549334 TAATGTTTTA
*
23549344 TTATCT TTATT TTATTT TTATTT TTGTT TTATT TT-TT TTATTT TTAATT
1 TTAT-T TTATT TTA-TT TTA-TT TTATT TTATT TTATT TTA-TT TT-ATT
*
23549393 TTATT TTGTT TTA-- TTATT TTATT TT-TT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTA
23549423 AATAAAACCT
Statistics
Matches: 62, Mismatches: 4, Indels: 15
0.77 0.05 0.19
Matches are distributed among these distances:
3 3 0.05
4 8 0.13
5 28 0.45
6 22 0.35
7 1 0.02
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:23549362 original size:6 final size:6
Alignment explanation
Indices: 23549344--23549418 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
23549334 TAATGTTTTA
* * * *
23549344 TTATCT TTA-TT TTATTT TTATTT TTGTTTT ATTTTTT TTATTT TTAATT
1 TTATTT TTATTT TTATTT TTATTT TT-ATTT -TTATTT TTATTT TTATTT
23549393 TTATTT TGT-TTT ATTA-TT TTATTT TT
1 TTATTT T-TATTT -TTATTT TTATTT TT
23549419 TTTAAATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
5 7 0.12
6 39 0.68
7 9 0.16
8 2 0.04
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:23549368 original size:26 final size:25
Alignment explanation
Indices: 23549339--23549418 Score: 81
Period size: 26 Copynumber: 3.2 Consensus size: 25
23549329 TTATTTAATG
* *
23549339 TTTTATTATCTTTATTTTATTTTTAT
1 TTTTATTTTATTT-TTTTATTTTTAT
* *
23549365 TTTTGTTTTATTTTTTTTATTTTTAA
1 TTTTATTTTA-TTTTTTTATTTTTAT
* *
23549391 TTTTATTTTGTTTTATTA-TTTTAT
1 TTTTATTTTATTTTTTTATTTTTAT
23549415 TTTT
1 TTTT
23549419 TTTAAATAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 9 0.20
25 7 0.16
26 26 0.58
27 3 0.07
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (25 bp):
TTTTATTTTATTTTTTTATTTTTAT
Found at i:23549373 original size:31 final size:29
Alignment explanation
Indices: 23549337--23549421 Score: 109
Period size: 31 Copynumber: 2.8 Consensus size: 29
23549327 GATTATTTAA
23549337 TGTTTTATTATCTTTATTTTATTTTTATTTT
1 TGTTTTATTAT-TTTATTTTATTTTTA-TTT
* *
23549368 TGTTTTATTTTTTTTATTTTTAATTTTATTT
1 TGTTTTA-TTATTTTA-TTTTATTTTTATTT
23549399 TGTTTTATTATTTTATTTT-TTTT
1 TGTTTTATTATTTTATTTTATTTT
23549422 AAATAAAACC
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
28 3 0.06
29 4 0.08
30 7 0.15
31 21 0.44
32 13 0.27
ACGTcount: A:0.15, C:0.01, G:0.04, T:0.80
Consensus pattern (29 bp):
TGTTTTATTATTTTATTTTATTTTTATTT
Found at i:23549409 original size:13 final size:13
Alignment explanation
Indices: 23549339--23549417 Score: 53
Period size: 13 Copynumber: 6.3 Consensus size: 13
23549329 TTATTTAATG
23549339 TTTTATTATCTTTA
1 TTTTATTAT-TTTA
23549353 TTTTA-T-TTTTA
1 TTTTATTATTTTA
*
23549364 -TTT-TTGTTTTA
1 TTTTATTATTTTA
*
23549375 TTTTTTTTATTTT-
1 -TTTTATTATTTTA
* *
23549388 TAATT-TTATTTTG
1 T-TTTATTATTTTA
23549401 TTTTATTATTTTA
1 TTTTATTATTTTA
23549414 TTTT
1 TTTT
23549418 TTTTAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 17
0.72 0.05 0.23
Matches are distributed among these distances:
10 4 0.08
11 9 0.17
12 11 0.21
13 18 0.34
14 11 0.21
ACGTcount: A:0.16, C:0.01, G:0.03, T:0.80
Consensus pattern (13 bp):
TTTTATTATTTTA
Found at i:23549498 original size:59 final size:58
Alignment explanation
Indices: 23549434--23550182 Score: 778
Period size: 58 Copynumber: 12.7 Consensus size: 58
23549424 ATAAAACCTA
* * * * * *
23549434 AAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTTCTTCGAAAATCAAAGAATCTA
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAAT--AA-ATTTTC
*
23549495 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAAAATAAATTTTC
* * *
23549553 AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTT
1 -AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAAAATAAATTTTC
* * *
23549612 AAAAAAATATTTTTCGAAAAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAATTTTC
1 AAAAAAATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAATTTTC
* * * * * * ***
23549671 AAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGAATAAA
1 -AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAAT--AA-ATTTTC
*
23549733 AAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAAAATAAATTTTC
* * * * * *
23549791 TAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAATTTTC
* * *
23549849 AAAAAAATAAATTTTT-ATGAAAAAGTTGAAAGTATTAATTTT-TCTCGAAATTAAAGTTTTC
1 AAAAAAAT--ATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCT-TCAAAAATAAA-TTTTC
* * * * *
23549910 AAAAAAAT-TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAACAAAGTTTC
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTC-AAAAATAAATTTTC
* * * * * *
23549967 CAAAAAGTATTTTTGAAAAAAAGTTGAAAGTATCAATTTTTTTGAAAAATAAATTTTG
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAATTTTC
* *
23550025 TAAAAAATATTTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
1 AAAAAAATA-TTTTTGAGAAAAAGTTGAAAGTATCAATTTT-CTTCAAAAATAAATTTTC
* * * *
23550083 AAAAAAATAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
1 AAAAAAAT--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAATTTTC
* *
23550143 AAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTT
23550183 TCCTGGACAA
Statistics
Matches: 579, Mismatches: 83, Indels: 55
0.81 0.12 0.08
Matches are distributed among these distances:
57 36 0.06
58 184 0.32
59 164 0.28
60 90 0.16
61 98 0.17
62 7 0.01
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (58 bp):
AAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCTTCAAAAATAAATTTTC
Found at i:23549659 original size:118 final size:115
Alignment explanation
Indices: 23549434--23550182 Score: 840
Period size: 118 Copynumber: 6.3 Consensus size: 115
23549424 ATAAAACCTA
* * * * * * *
23549434 AAAAAAATATTTTTGAGAAAAAGTTAAAAATATCAATTTT-CTTCGAAAATCAAAGAATCTAAAA
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAAT--AA-ATTTTCAAA
*
23549498 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
61 AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* *
23549553 AAAAAAAATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTTAAAAAA
1 -AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAA
* * *
23549618 ATATTTTTCGAAAAAAAGTTGAAAATATCAATTTTCTTTAAAAATAAATTTTC
64 ATATTTTT-GAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * ** * ***
23549671 AAAAAAAAAAGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAATCAAAGAATAAAAAA
1 -AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT--AA-ATTTTCAAA
*
23549736 AAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
61 AAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
* * **
23549791 TAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
* * ** *
23549856 TAAATTTTT-ATGAAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAGTTTTC
65 T--ATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTTC
* * * * * *
23549910 AAAAAAAT-TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTCGAAAAACAAAGTTTCCAAAAAG
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCT-TAAAAATAAATTTTCAAAAAAA
* * *
23549974 TATTTTTGAAAAAAAGTTGAAAGTATCAATTTT-TTTGAAAAATAAATTTTG
65 TATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAATTTTC
*
23550025 TAAAAAATATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
1 AAAAAAATA-TTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAA
** * *
23550090 TAAATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
65 T--ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
*
23550143 AAAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTT
1 AAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTT
23550183 TCCTGGACAA
Statistics
Matches: 534, Mismatches: 76, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
115 12 0.02
116 63 0.12
117 86 0.16
118 218 0.41
119 52 0.10
120 84 0.16
121 19 0.04
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (115 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAT
ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
Found at i:23549871 original size:17 final size:17
Alignment explanation
Indices: 23549825--23549872 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
23549815 TGAAAGTATC
* *
23549825 AATTTTTTTTAAAAATA
1 AATTTTTATAAAAAATA
*
23549842 AATTTTCA-AAAAAATA
1 AATTTTTATAAAAAATA
*
23549858 AATTTTTATGAAAAA
1 AATTTTTATAAAAAA
23549873 GTTGAAAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (17 bp):
AATTTTTATAAAAAATA
Found at i:23551099 original size:46 final size:46
Alignment explanation
Indices: 23551045--23551203 Score: 246
Period size: 46 Copynumber: 3.5 Consensus size: 46
23551035 TAAAATTATG
* * *
23551045 AATCCTCAAATGAGAATTTTTTAGTCTTAAATAAGAATCTTTAAAA
1 AATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
* *
23551091 AATTCTCAAGTGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
1 AATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
* * *
23551137 AATCCTCAAATTAGAATCTTTGAGTCTTAAATAATAATATTTAAGA
1 AATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
23551183 AATCCTCAAATGAGAATCTTT
1 AATCCTCAAATGAGAATCTTT
23551204 AAGAAATTCT
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (46 bp):
AATCCTCAAATGAGAATCTTTGAGTCTTAAATAAGAATCTTTAAGA
Found at i:23551129 original size:21 final size:21
Alignment explanation
Indices: 23551103--23551170 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 21
23551093 TTCTCAAGTG
23551103 AGAATCTTTGAGTCTTAAATA
1 AGAATCTTTGAGTCTTAAATA
* * *
23551124 AGAATCTTTAAGAAATCCTCAAATT
1 AGAATCTTT--G-AGT-CTTAAATA
23551149 AGAATCTTTGAGTCTTAAATA
1 AGAATCTTTGAGTCTTAAATA
23551170 A
1 A
23551171 TAATATTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
21 16 0.43
22 2 0.05
23 2 0.05
24 2 0.05
25 15 0.41
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AGAATCTTTGAGTCTTAAATA
Found at i:23551153 original size:25 final size:24
Alignment explanation
Indices: 23551073--23551228 Score: 117
Period size: 25 Copynumber: 6.6 Consensus size: 24
23551063 TTTTAGTCTT
*
23551073 AAATAAGAATCTTTAAAAAATTCTC
1 AAATAAGAATCTTTAAGAAA-TCTC
* * * *
23551098 AAGTGAGAATCTTT--G-AGTCTT
1 AAATAAGAATCTTTAAGAAATCTC
23551119 AAATAAGAATCTTTAAGAAATCCTC
1 AAATAAGAATCTTTAAGAAAT-CTC
* * *
23551144 AAATTAGAATCTTT--G-AGTCTT
1 AAATAAGAATCTTTAAGAAATCTC
* *
23551165 AAATAATAATATTTAAGAAATCCTC
1 AAATAAGAATCTTTAAGAAAT-CTC
*
23551190 AAATGAGAATCTTTAAGAAATTCTC
1 AAATAAGAATCTTTAAGAAA-TCTC
* *
23551215 AATTGAGAATCTTT
1 AAATAAGAATCTTT
23551229 GAGTTCTTAA
Statistics
Matches: 101, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
21 28 0.28
22 3 0.03
23 3 0.03
24 4 0.04
25 62 0.61
26 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.35
Consensus pattern (24 bp):
AAATAAGAATCTTTAAGAAATCTC
Found at i:23551209 original size:71 final size:72
Alignment explanation
Indices: 23551119--23551271 Score: 222
Period size: 71 Copynumber: 2.1 Consensus size: 72
23551109 TTTGAGTCTT
*
23551119 AAATAAGAATCTTTAAGAAATCCTCAAATT-AGAATCTTTGAG-TCTTAAAT-AATAATATTTAA
1 AAATGAGAATCTTTAAGAAATCCTC-AATTGAGAATCTTTGAGTTCTTAAATGAA-AATATTTAA
* *
23551181 GAAATCCTC
64 AAAATCCCC
* *
23551190 AAATGAGAATCTTTAAGAAATTCTCAATTGAGAATCTTTGAGTTCTTAAATGAAAATCTTTAAAA
1 AAATGAGAATCTTTAAGAAATCCTCAATTGAGAATCTTTGAGTTCTTAAATGAAAATATTTAAAA
23551255 AATCCCC
66 AATCCCC
23551262 AAATGAGAAT
1 AAATGAGAAT
23551272 ATTTGAGTTT
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
70 4 0.05
71 35 0.47
72 33 0.45
73 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.33
Consensus pattern (72 bp):
AAATGAGAATCTTTAAGAAATCCTCAATTGAGAATCTTTGAGTTCTTAAATGAAAATATTTAAAA
AATCCCC
Found at i:23551248 original size:47 final size:47
Alignment explanation
Indices: 23551190--23551280 Score: 128
Period size: 47 Copynumber: 1.9 Consensus size: 47
23551180 AGAAATCCTC
* * * * * *
23551190 AAATGAGAATCTTTAAGAAATTCTCAATTGAGAATCTTTGAGTTCTT
1 AAATGAAAATCTTTAAAAAATCCCCAAATGAGAATATTTGAGTTCTT
23551237 AAATGAAAATCTTTAAAAAATCCCCAAATGAGAATATTTGAGTT
1 AAATGAAAATCTTTAAAAAATCCCCAAATGAGAATATTTGAGTT
23551281 TCAAATAAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (47 bp):
AAATGAAAATCTTTAAAAAATCCCCAAATGAGAATATTTGAGTTCTT
Found at i:23551307 original size:22 final size:22
Alignment explanation
Indices: 23551273--23551335 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
23551263 AATGAGAATA
23551273 TTTGAG-TTTCAAATAAGAAAC
1 TTTGAGTTTTCAAATAAGAAAC
23551294 TTTGAGTTTTCAAATGAA-AAAC
1 TTTGAGTTTTCAAAT-AAGAAAC
* *
23551316 TTTAAGTTTTCAAATGAGAA
1 TTTGAGTTTTCAAATAAGAA
23551336 TTTTTGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 7 0.19
22 28 0.76
23 2 0.05
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (22 bp):
TTTGAGTTTTCAAATAAGAAAC
Found at i:23551420 original size:21 final size:21
Alignment explanation
Indices: 23551372--23551412 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23551362 TATTGGATAT
* *
23551372 GAATCTCTAAATTTTGAATGA
1 GAATCTTTAAATGTTGAATGA
23551393 GAATCTTTAAATGTTGAATG
1 GAATCTTTAAATGTTGAATG
23551413 CGAGTCTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (21 bp):
GAATCTTTAAATGTTGAATGA
Found at i:23551466 original size:16 final size:16
Alignment explanation
Indices: 23551433--23551478 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
23551423 AATTTACAAA
23551433 TGCAAATCTTGAAATCT
1 TGCAAAT-TTGAAATCT
*
23551450 TGCAAATTTGAATTCT
1 TGCAAATTTGAAATCT
**
23551466 TGTGAATTTGAAA
1 TGCAAATTTGAAA
23551479 ATTTGAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 18 0.72
17 7 0.28
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (16 bp):
TGCAAATTTGAAATCT
Found at i:23551467 original size:24 final size:24
Alignment explanation
Indices: 23551439--23551484 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
23551429 CAAATGCAAA
*
23551439 TCTTG-AAATCTTGCAAATTTGAAT
1 TCTTGTAAAT-TTGAAAATTTGAAT
*
23551463 TCTTGTGAATTTGAAAATTTGA
1 TCTTGTAAATTTGAAAATTTGA
23551485 GAATCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (24 bp):
TCTTGTAAATTTGAAAATTTGAAT
Found at i:23551648 original size:22 final size:22
Alignment explanation
Indices: 23551620--23551664 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
23551610 TTGTTAAGGA
*
23551620 GCTTTTATTTTTTAAAGTTGTT
1 GCTTTTATTTTTCAAAGTTGTT
23551642 GCTTTTATTTTTCAAAGTTGTT
1 GCTTTTATTTTTCAAAGTTGTT
23551664 G
1 G
23551665 TGCCTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.60
Consensus pattern (22 bp):
GCTTTTATTTTTCAAAGTTGTT
Found at i:23551717 original size:40 final size:39
Alignment explanation
Indices: 23551642--23552059 Score: 290
Period size: 40 Copynumber: 10.3 Consensus size: 39
23551632 TAAAGTTGTT
* *
23551642 GCTTTTATTTTTCAAAGTTGTTGTGCCTTTATTTAGAAGA
1 GCTTTTATTTTTCAAAGTTGTT-AGCCTTTGTTTAGAAGA
* * ** *
23551682 GCATTTATTTTTTCAAAGTTATGTA-CCCATGTTTAGATGA
1 GCTTTTA-TTTTTCAAAGTTGT-TAGCCTTTGTTTAGAAGA
*
23551722 GCCTTTTATTTTTCAAAGTTGTTATGCTTTTGTTTAGAAGA
1 G-CTTTTATTTTTCAAAGTTGTTA-GCCTTTGTTTAGAAGA
*
23551763 GCTTTTATTTTTCAAAGTTGTTATGCCTTTGTTTAGATGA
1 GCTTTTATTTTTCAAAGTTGTTA-GCCTTTGTTTAGAAGA
* * *
23551803 GCTTTTATTTTTCAAAGTTGTT-GTGCTTCTATTTAGAGGA
1 GCTTTTATTTTTCAAAGTTGTTAG-CCTT-TGTTTAGAAGA
* * ** * *
23551843 GCCTTTATTTTTTAAAAGTTGTT-GTGTTTCTGATTAGAGGA
1 GCTTTTA-TTTTTCAAAGTTGTTAG-CCTT-TGTTTAGAAGA
* * * * * *
23551884 GCCTTTATTTTTCAAAGTTTTTGAACTTTTGATTAGAGGA
1 GCTTTTATTTTTCAAAGTTGTT-AGCCTTTGTTTAGAAGA
*
23551924 GTCTTTTATTTTTCAAAGTTGTTGAGCCTCTGTTTAG-AGAA
1 G-CTTTTATTTTTCAAAGTTGTT-AGCCTTTGTTTAGAAG-A
** * *
23551965 GCTTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAAAAGA
1 GC--T-TTTATTTTTCAAAGTTGTT-AGCCTTTGTTTAGAAGA
* * *
23552008 GCTTTATTTATTTTTTAAAGTTATTGAG-CTTCTGTTTAGATGA
1 GC--T-TTTATTTTTCAAAGTTGTT-AGCCTT-TGTTTAGAAGA
23552051 GC-TTTATTT
1 GCTTTTATTT
23552060 ATTTTAAAAA
Statistics
Matches: 319, Mismatches: 42, Indels: 35
0.81 0.11 0.09
Matches are distributed among these distances:
38 1 0.00
39 12 0.04
40 132 0.41
41 100 0.31
42 4 0.01
43 68 0.21
44 2 0.01
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.49
Consensus pattern (39 bp):
GCTTTTATTTTTCAAAGTTGTTAGCCTTTGTTTAGAAGA
Found at i:23551796 original size:81 final size:81
Alignment explanation
Indices: 23551643--23552059 Score: 354
Period size: 81 Copynumber: 5.1 Consensus size: 81
23551633 AAAGTTGTTG
* * *
23551643 CTTTTATTTTTCAAAGTTGTTGTGCCTTTATTTAGAAGAGCATTTATTTTTTCAAAGTTATGTA-
1 CTTTTATTTTTCAAAGTTGTTGTGCTTTTATTTAGAAGAGCTTTTATTTTTTCAAAGTTGT-TAG
**
23551707 CCCATGTTTAGATGAGC
65 CCTTTGTTTAGATGAGC
* *
23551724 CTTTTATTTTTCAAAGTTGTTATGCTTTTGTTTAGAAGAGCTTTTA-TTTTTCAAAGTTGTTATG
1 CTTTTATTTTTCAAAGTTGTTGTGCTTTTATTTAGAAGAGCTTTTATTTTTTCAAAGTTGTTA-G
23551788 CCTTTGTTTAGATGAG-
65 CCTTTGTTTAGATGAGC
* * * *
23551804 CTTTTATTTTTCAAAGTTGTTGTGCTTCTATTTAGAGGAGCCTTTATTTTTTAAAAGTTGTT-GT
1 CTTTTATTTTTCAAAGTTGTTGTGCTTTTATTTAGAAGAGCTTTTATTTTTTCAAAGTTGTTAG-
** * *
23551868 GTTTCTGATTAGAGGAGC
65 CCTT-TGTTTAGATGAGC
* ** *
23551886 C-TTTATTTTTCAAAGTTTTTGAACTTTTGA-TTAGAGGAGTCTTTTA-TTTTTCAAAGTTGTTG
1 CTTTTATTTTTCAAAGTTGTTGTGCTTTT-ATTTAGAAGAG-CTTTTATTTTTTCAAAGTTGTT-
*
23551948 AGCCTCTGTTTAGA-GAAGC
63 AGCCTTTGTTTAGATG-AGC
* ** * * * * * *
23551967 TTTATTTATTTTTCAAAGTCATTGAGCCTCTGTTTAAAAGAGCTTTATTTATTTTTT-AAAGTTA
1 -CT-TTTATTTTTCAAAGTTGTTGTGCTTTTATTTAGAAGAGC--T-TTTATTTTTTCAAAGTTG
23552031 TTGAG-CTTCTGTTTAGATGAG-
61 TT-AGCCTT-TGTTTAGATGAGC
23552052 C-TTTATTT
1 CTTTTATTT
23552060 ATTTTAAAAA
Statistics
Matches: 276, Mismatches: 39, Indels: 41
0.78 0.11 0.12
Matches are distributed among these distances:
79 3 0.01
80 57 0.21
81 136 0.49
82 15 0.05
83 2 0.01
84 29 0.11
85 3 0.01
86 25 0.09
87 6 0.02
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.49
Consensus pattern (81 bp):
CTTTTATTTTTCAAAGTTGTTGTGCTTTTATTTAGAAGAGCTTTTATTTTTTCAAAGTTGTTAGC
CTTTGTTTAGATGAGC
Found at i:23551861 original size:121 final size:119
Alignment explanation
Indices: 23551642--23551973 Score: 368
Period size: 121 Copynumber: 2.7 Consensus size: 119
23551632 TAAAGTTGTT
* * *
23551642 GCTTTTATTTTTCAAAGTTGTTGTGCCTTTATTTAGAAGAGCATTTATTTTTTCAAAGTT-ATGT
1 GCTTTTATTTTTCAAAGTTGTT-TGCCTTTGTTTAGAAGAGCTTTTA-TTTTTCAAAGTTGTTGT
* * * * *
23551706 ACCCATGTTTAGATGAGCCTTT-TATTTTTCAAAGTTGTTATGCTTT-TGTTTAGAAGA
64 GCTC-TGTTTAGAGGAGCCTTTAT-TTTTTAAAAGTTGTTATG-TTTCTGATTAGAAGA
*
23551763 GCTTTTATTTTTCAAAGTTGTTATGCCTTTGTTTAGATGAGCTTTTATTTTTCAAAGTTGTTGTG
1 GCTTTTATTTTTCAAAGTTGTT-TGCCTTTGTTTAGAAGAGCTTTTATTTTTCAAAGTTGTTGTG
* * *
23551828 CTTCTATTTAGAGGAGCCTTTATTTTTTAAAAGTTGTTGTGTTTCTGATTAGAGGA
65 C-TCTGTTTAGAGGAGCCTTTATTTTTTAAAAGTTGTTATGTTTCTGATTAGAAGA
* * * *
23551884 GCCTTTATTTTTCAAAGTT-TTTGAACTTTTGATTAGAGGAGTCTTTTATTTTTCAAAGTTGTTG
1 GCTTTTATTTTTCAAAGTTGTTTG--CCTTTGTTTAGAAGAG-CTTTTATTTTTCAAAGTTGTTG
* *
23551948 AGCCTCTGTTTAGAGAAG-CTTTATTT
63 TG-CTCTGTTTAGAGGAGCCTTTATTT
23551974 ATTTTTCAAA
Statistics
Matches: 183, Mismatches: 20, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
119 2 0.01
120 17 0.09
121 126 0.69
122 37 0.20
123 1 0.01
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.49
Consensus pattern (119 bp):
GCTTTTATTTTTCAAAGTTGTTTGCCTTTGTTTAGAAGAGCTTTTATTTTTCAAAGTTGTTGTGC
TCTGTTTAGAGGAGCCTTTATTTTTTAAAAGTTGTTATGTTTCTGATTAGAAGA
Found at i:23553353 original size:56 final size:55
Alignment explanation
Indices: 23553251--23553469 Score: 223
Period size: 56 Copynumber: 4.0 Consensus size: 55
23553241 AAGACAAAAA
* * *
23553251 AATAAATAAAGAGAGAATATTTCTAAATTGA-CCAAATGGTGAAAAATTTAGAAATCC
1 AATAAA-AAA-AGAGAAAATTTCTAAATAGACCCAAATGGTAAAAAATTTAGAAAT-C
* * *
23553308 AATAAAAAAAGAGAAAATTTCTAAATAGGCCCAAATGGTGAAAAATTTAAAAAT-
1 AATAAAAAAAGAGAAAATTTCTAAATAGACCCAAATGGTAAAAAATTTAGAAATC
* ** * * *
23553362 -TTTGAAAAA-A-AAAATTTTTAAATTGACCCAAATAGTAAAAAATTTAGAAATC
1 AATAAAAAAAGAGAAAATTTCTAAATAGACCCAAATGGTAAAAAATTTAGAAATC
* * *
23553414 TAACAAAAAAAGAGAGAATTTCTAAATAGACCCAAATGGCAAAAAAATTTAGAAAT
1 -AATAAAAAAAGAGAAAATTTCTAAATAGACCCAAATGG-TAAAAAATTTAGAAAT
23553470 TCAAAATTTT
Statistics
Matches: 133, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
51 35 0.26
52 1 0.01
53 6 0.05
54 5 0.04
55 18 0.14
56 47 0.35
57 21 0.16
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.25
Consensus pattern (55 bp):
AATAAAAAAAGAGAAAATTTCTAAATAGACCCAAATGGTAAAAAATTTAGAAATC
Found at i:23553407 original size:107 final size:107
Alignment explanation
Indices: 23553269--23553470 Score: 298
Period size: 107 Copynumber: 1.9 Consensus size: 107
23553259 AAGAGAGAAT
* * *
23553269 ATTTCTAAATTGACCAAATGGTGAAAAATTTAGAAATCCAATAAAAAAAGAGAAAATTTCTAAAT
1 ATTTCTAAATTGACCAAATAGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAAAATTTCTAAAT
* **
23553334 AGGCCCAAATGG-TGAAAAATTTAAAAATTTTGAAAAAAAAA
66 AGACCCAAATGGCAAAAAAATTTAAAAATTTTGAAAAAAAAA
* * *
23553375 ATTTTTAAATTGACCCAAATAGTAAAAAATTTAGAAATCTAACAAAAAAAGAGAGAATTTCTAAA
1 ATTTCTAAATTGA-CCAAATAGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAAAATTTCTAAA
*
23553440 TAGACCCAAATGGCAAAAAAATTTAGAAATT
65 TAGACCCAAATGGCAAAAAAATTTAAAAATT
23553471 CAAAATTTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 12 0.14
107 58 0.69
108 14 0.17
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.26
Consensus pattern (107 bp):
ATTTCTAAATTGACCAAATAGTAAAAAATTTAGAAATCCAACAAAAAAAGAGAAAATTTCTAAAT
AGACCCAAATGGCAAAAAAATTTAAAAATTTTGAAAAAAAAA
Found at i:23560455 original size:3 final size:3
Alignment explanation
Indices: 23560447--23560472 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23560437 GGCAAAGAGA
23560447 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
23560473 GATAGATTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:23562593 original size:2 final size:2
Alignment explanation
Indices: 23562586--23562625 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23562576 TTTACTTCAG
23562586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23562626 GTGTGTGTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23570012 original size:21 final size:21
Alignment explanation
Indices: 23569987--23570028 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23569977 AAAAGTGTTA
23569987 AAACGTGATGACTCTTTCATT
1 AAACGTGATGACTCTTTCATT
23570008 AAACGTGATGACTCTTTCATT
1 AAACGTGATGACTCTTTCATT
23570029 TACAAGTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
AAACGTGATGACTCTTTCATT
Found at i:23575973 original size:21 final size:22
Alignment explanation
Indices: 23575944--23575991 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
23575934 CAACAGCTAG
*
23575944 ATTTCCTTCAACA-AATCTCAAC
1 ATTTTCTTCAACAGAATC-CAAC
*
23575966 -TTTTCTTCATCAGAATCCAAC
1 ATTTTCTTCAACAGAATCCAAC
23575987 ATTTT
1 ATTTT
23575992 ACCTACAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.31, C:0.27, G:0.02, T:0.40
Consensus pattern (22 bp):
ATTTTCTTCAACAGAATCCAAC
Found at i:23577132 original size:15 final size:16
Alignment explanation
Indices: 23577099--23577130 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23577089 TGAAATTTTG
23577099 TTAGTATGTTTATTAT
1 TTAGTATGTTTATTAT
23577115 TTAGTAT-TTTA-TAT
1 TTAGTATGTTTATTAT
23577129 TT
1 TT
23577131 TAAACAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 4 0.25
16 7 0.44
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (16 bp):
TTAGTATGTTTATTAT
Found at i:23580558 original size:25 final size:25
Alignment explanation
Indices: 23580528--23580576 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
23580518 ACAACTTTAG
*
23580528 CTTTTTCATTA-ATTTTAGTTGCTTT
1 CTTTTTC-TTATATATTAGTTGCTTT
*
23580553 CTTTTTCTTATATATTATTTGCTT
1 CTTTTTCTTATATATTAGTTGCTT
23580577 GTGAAAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.16, C:0.12, G:0.06, T:0.65
Consensus pattern (25 bp):
CTTTTTCTTATATATTAGTTGCTTT
Found at i:23581499 original size:2 final size:2
Alignment explanation
Indices: 23581492--23581516 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23581482 AAGGCCCCAC
23581492 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23581517 TTTGGCTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23581788 original size:3 final size:3
Alignment explanation
Indices: 23581782--23581842 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
23581772 GATGATGACG
23581782 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
23581830 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
23581843 AATTTCCAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:23582005 original size:32 final size:33
Alignment explanation
Indices: 23581967--23582031 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
23581957 CAATACAGAC
* * *
23581967 ATTTTTTGTTCAATTATCTTTCTAAAAA-AATAT
1 ATTTTTAGTTAAATTAT-TTTATAAAAATAATAT
23582000 ATTTTTAGTTAAATTATTTTATAAAAATAATA
1 ATTTTTAGTTAAATTATTTTATAAAAATAATA
23582032 ATAATAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.51
Consensus pattern (33 bp):
ATTTTTAGTTAAATTATTTTATAAAAATAATAT
Found at i:23588562 original size:29 final size:28
Alignment explanation
Indices: 23588518--23588576 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
23588508 AAATTAAATA
** *
23588518 TTATATTTTAGTTTTGTTATTTATTAAT
1 TTATATTTTAGTTTTGAAATTTAATAAT
23588546 TTATAATTTTA-TATTTGAAATTTAATAAT
1 TTAT-ATTTTAGT-TTTGAAATTTAATAAT
23588575 TT
1 TT
23588577 TTTTTGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (28 bp):
TTATATTTTAGTTTTGAAATTTAATAAT
Found at i:23592787 original size:3 final size:3
Alignment explanation
Indices: 23592781--23592936 Score: 150
Period size: 3 Copynumber: 53.3 Consensus size: 3
23592771 TATAAGATGC
23592781 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
23592828 TAG TA- TAGT GTAT TAT T-G TAG TA- TAA TAT TA- TAT TGCA- TGT TA-
1 TAT TAT TA-T -TAT TAT TAT TAT TAT TAT TAT TAT TAT T--AT TAT TAT
*
23592871 TAGT T-T T-T TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23592915 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
23592937 TATTTTAGTG
Statistics
Matches: 134, Mismatches: 6, Indels: 26
0.81 0.04 0.16
Matches are distributed among these distances:
2 15 0.11
3 113 0.84
4 3 0.02
5 3 0.02
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:23593975 original size:39 final size:40
Alignment explanation
Indices: 23593932--23594007 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 40
23593922 GGGATATATA
*
23593932 AAAAAAATACA-AAA-AAAAGAAAA-TCTTTTCAAATAAGAC
1 AAAAAAATA-ATAAATAAAA-AAAATTATTTTCAAATAAGAC
*
23593971 AAAAATATAATAAATAAAAAAAATTATTTTCAAATAA
1 AAAAAAATAATAAATAAAAAAAATTATTTTCAAATAA
23594008 AATTCTTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
38 1 0.03
39 15 0.47
40 16 0.50
ACGTcount: A:0.67, C:0.07, G:0.03, T:0.24
Consensus pattern (40 bp):
AAAAAAATAATAAATAAAAAAAATTATTTTCAAATAAGAC
Found at i:23598690 original size:7 final size:8
Alignment explanation
Indices: 23598673--23598719 Score: 67
Period size: 8 Copynumber: 5.6 Consensus size: 8
23598663 AGCAATTGCG
23598673 AAAAATAA
1 AAAAATAA
23598681 AAAAATAA
1 AAAAATAA
23598689 AAAAATAA
1 AAAAATAA
*
23598697 AAAACCTAAA
1 AAAA-AT-AA
23598707 AAAAATAA
1 AAAAATAA
23598715 AAAAA
1 AAAAA
23598720 GCAAGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 27 0.77
9 2 0.06
10 6 0.17
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAAATAA
Found at i:23598691 original size:9 final size:9
Alignment explanation
Indices: 23598673--23598719 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
23598663 AGCAATTGCG
23598673 AAAAAT-AA
1 AAAAATAAA
23598681 AAAAAT-AA
1 AAAAATAAA
23598689 AAAAATAAA
1 AAAAATAAA
**
23598698 AAACCTAAA
1 AAAAATAAA
23598707 AAAAATAAA
1 AAAAATAAA
23598716 AAAA
1 AAAA
23598720 GCAAGAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
8 14 0.41
9 20 0.59
ACGTcount: A:0.85, C:0.04, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAATAAA
Found at i:23598728 original size:18 final size:18
Alignment explanation
Indices: 23598672--23598751 Score: 64
Period size: 18 Copynumber: 4.6 Consensus size: 18
23598662 AAGCAATTGC
*
23598672 GAAAAATAAAAAAA-TAA
1 GAAAAATAAAAAAAGCAA
*
23598689 -AAAAAT-AAAAAACCTAA
1 GAAAAATAAAAAAAGC-AA
*
23598706 AAAAAATAAAAAAAGCAA
1 GAAAAATAAAAAAAGCAA
23598724 GAAAAA-AAAGAAAAG-AA
1 GAAAAATAAA-AAAAGCAA
23598741 GGAAAAA-AAAA
1 -GAAAAATAAAA
23598752 GAAAACTTAA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
15 6 0.11
16 6 0.11
17 8 0.15
18 27 0.50
19 7 0.13
ACGTcount: A:0.81, C:0.04, G:0.09, T:0.06
Consensus pattern (18 bp):
GAAAAATAAAAAAAGCAA
Found at i:23598728 original size:21 final size:20
Alignment explanation
Indices: 23598704--23598756 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
23598694 TAAAAAACCT
*
23598704 AAAAAAAATAAAAAAAGCAA
1 AAAAAAAAGAAAAAAAGCAA
* *
23598724 GAAAAAAAAGAAAAGAAG-GA
1 -AAAAAAAAGAAAAAAAGCAA
23598744 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
23598757 CTTAAATTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 1 0.03
21 15 0.52
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (20 bp):
AAAAAAAAGAAAAAAAGCAA
Found at i:23599845 original size:120 final size:122
Alignment explanation
Indices: 23599529--23599847 Score: 342
Period size: 120 Copynumber: 2.6 Consensus size: 122
23599519 GGTTTCGCTT
* * * * * * *
23599529 TGGTCATTTATTTTTGA-CTTCAACTCGATCTTGGTTGCTTTATCTTTTAAACTCATGATTTCAT
1 TGGTCATTCATTTTCGACCTT-GACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCAT
* * * * * *
23599593 CCTAGTCGTTCGA-TCTCGATTCAATTTAAATCATTTTTTTTACTCATAATTTTACCT
65 CCTAGTCATTCAATTCTAGATTCAATTCAAATCATTTTTTTTACTCACAATTTTACCC
* * * * *
23599650 TGGTCATTCATTTTCGACCTTGACTCAATCTTGATCACTTTATATTTTAGAGTCGTGATTTTAT-
1 TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
* * * **
23599714 CTCAATCATTCAATTTTAG-TTC-ATTCAGATCATTTTTTTTACTTGCAATTTTACCC
66 CT-AGTCATTCAATTCTAGATTCAATTCAAATCATTTTTTTTACTCACAATTTTACCC
* * *
23599770 TGGTCATTCATTTTCGACCTTGACTTAGTCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCGTC
1 TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
*
23599835 CTAGTTATTCAAT
66 CTAGTCATTCAAT
23599848 CTCGGCTCAA
Statistics
Matches: 161, Mismatches: 33, Indels: 9
0.79 0.16 0.04
Matches are distributed among these distances:
120 95 0.59
121 60 0.37
122 6 0.04
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.48
Consensus pattern (122 bp):
TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
CTAGTCATTCAATTCTAGATTCAATTCAAATCATTTTTTTTACTCACAATTTTACCC
Found at i:23599871 original size:120 final size:121
Alignment explanation
Indices: 23599529--23600053 Score: 384
Period size: 121 Copynumber: 4.3 Consensus size: 121
23599519 GGTTTCGCTT
* * * * * * *
23599529 TGGTCATTTATTTTTGA-CTTCAACTCGATCTTGGTTGCTTTATCTTTTAAACTCATGATTTCAT
1 TGGTCATTCATTTTCGACCTT-GACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCAT
* * * * * *
23599593 CCTAGTCGTTCGATCTCGATTCAATTTAAATCATTTTTTTTACTCATAATTTTACCT
65 CCTAGTCATTCAATCTCGGTTCAATCTAAATCATTTTTTTTACTCACAATTTTACCC
* * * * *
23599650 TGGTCATTCATTTTCGACCTTGACTCAATCTTGATCACTTTATATTTTAGAGTCGTGATTTTAT-
1 TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
* * ** * * **
23599714 CTCAATCATTCAATTTTAGTTCATTC-AGATCATTTTTTTTACTTGCAATTTTACCC
66 CT-AGTCATTCAATCTCGGTTCAATCTAAATCATTTTTTTTACTCACAATTTTACCC
* * *
23599770 TGGTCATTCATTTTCGACCTTGACTTAGTCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCGTC
1 TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
* * * * * * *
23599835 CTAGTTATTCAATCTCGGCTCAATCTATATCATTTTTTTGACTCGCGATTTCATA-TC
66 CTAGTCATTCAATCTCGGTTCAATCTAAATCATTTTTTTTACTCACAATTT--TACCC
** ** * * * *
23599892 -GGTTGTTCATTTTTTAACCTTGACTCGATCCTT-GTTGCTTTATCTTTTAGACTCATGATTTTA
1 TGGTCATTCA-TTTTCGACCTTGACTCAAT-CTTGGTCGCTTTATCTTTTAGACTCGTGATTTCA
* * ** * * * * *
23599955 T-CTCGATCATCCAATCTCGACTCAGTCTAGATTATTTTTTTAACTCACAGTTTTATCCC
64 TCCTAG-TCATTCAATCTCGGTTCAATCTAAATCATTTTTTTTACTCACAATTTTA-CCC
* * * * *
23600014 -GATCATTCATCTTT-AACCTCGACTCAGTCTTGGTTGCTTT
1 TGGTCATTCAT-TTTCGACCTTGACTCAATCTTGGTCGCTTT
23600054 GTTCTTGTGA
Statistics
Matches: 316, Mismatches: 75, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
120 104 0.33
121 115 0.36
122 92 0.29
123 5 0.02
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (121 bp):
TGGTCATTCATTTTCGACCTTGACTCAATCTTGGTCGCTTTATCTTTTAGACTCGTGATTTCATC
CTAGTCATTCAATCTCGGTTCAATCTAAATCATTTTTTTTACTCACAATTTTACCC
Found at i:23600980 original size:20 final size:20
Alignment explanation
Indices: 23600932--23600980 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
23600922 TTCATCTAAA
23600932 ATTTTTGGGTTTAGATTAGG
1 ATTTTTGGGTTTAGATTAGG
* *
23600952 GTTTCTGGGTTTAGATTTA-G
1 ATTTTTGGGTTTAGA-TTAGG
23600972 ATTTTTGGG
1 ATTTTTGGG
23600981 AGGTGTCTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.16, C:0.02, G:0.31, T:0.51
Consensus pattern (20 bp):
ATTTTTGGGTTTAGATTAGG
Found at i:23601370 original size:19 final size:17
Alignment explanation
Indices: 23601344--23601388 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
23601334 ATTACGAGTT
*
23601344 TTTTTTTTTTCATTTTCA
1 TTTTTTTTTGCATTTT-A
*
23601362 TTTTATTTTTGGATTTTA
1 TTTT-TTTTTGCATTTTA
23601380 TTTTTTTTT
1 TTTTTTTTT
23601389 AATTATCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 9 0.38
19 10 0.42
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.80
Consensus pattern (17 bp):
TTTTTTTTTGCATTTTA
Found at i:23602357 original size:18 final size:18
Alignment explanation
Indices: 23602334--23602386 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
23602324 AAGACAATTA
*
23602334 TCCACCACAAATGTATCC
1 TCCACCACAAATATATCC
*
23602352 TCCACCTCAAATATATCC
1 TCCACCACAAATATATCC
**
23602370 TTTACCACAAATATATC
1 TCCACCACAAATATATC
23602387 ATTCTCAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (18 bp):
TCCACCACAAATATATCC
Found at i:23603569 original size:5 final size:5
Alignment explanation
Indices: 23603555--23603609 Score: 60
Period size: 5 Copynumber: 11.0 Consensus size: 5
23603545 AAAAAGGTCA
* *
23603555 AAAAT GAAAT AAAAT -AAAT CAAAAT AAAA- AAAAT AAAAT AAAAT GAAAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT
23603605 AAAAT
1 AAAAT
23603610 CTACGATCAG
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
4 8 0.19
5 26 0.62
6 8 0.19
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:23603587 original size:19 final size:20
Alignment explanation
Indices: 23603555--23603607 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
23603545 AAAAAGGTCA
*
23603555 AAAATGAAATAAAAT-AAAT
1 AAAATGAAAAAAAATAAAAT
23603574 CAAAAT-AAAAAAAATAAAAT
1 -AAAATGAAAAAAAATAAAAT
23603594 AAAATGAAAAAAAA
1 AAAATGAAAAAAAA
23603608 ATCTACGATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (20 bp):
AAAATGAAAAAAAATAAAAT
Found at i:23603655 original size:20 final size:20
Alignment explanation
Indices: 23603630--23603668 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23603620 GTCAAGACGC
**
23603630 AGGTTGACGTGCGAATCTTT
1 AGGTTGACACGCGAATCTTT
23603650 AGGTTGACACGCGAATCTT
1 AGGTTGACACGCGAATCTT
23603669 GGCTTACCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (20 bp):
AGGTTGACACGCGAATCTTT
Found at i:23604021 original size:22 final size:22
Alignment explanation
Indices: 23603996--23604038 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23603986 AAAAAACCAA
*
23603996 AAAAAAATCCAAAAAAATCTTT
1 AAAAAAATCAAAAAAAATCTTT
*
23604018 AAAAAATTCAAAAAAAATCTT
1 AAAAAAATCAAAAAAAATCTT
23604039 AGATCATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAAATCAAAAAAAATCTTT
Found at i:23605083 original size:118 final size:117
Alignment explanation
Indices: 23604752--23605206 Score: 409
Period size: 118 Copynumber: 3.9 Consensus size: 117
23604742 GGATTAAGCT
* * * * * *
23604752 ACGAGTCAAATAAAACGACCAGGACCAAGTCGAGGTAAAAAATAAATGATTGAGATGAAATCATG
1 ACGAGTCAAATAAGACGACCAGGACTAAGTCGAGATAAAAAATAAATGATCGAGAAGAAACCATG
* * * * * * *
23604817 AATCATAAAAAATGATCTAGACTGAGCTAAGATTAAGTGATCGTGATGAAATC
66 AATCATAAAAAATGATCTGGACTAAGCCAAGATCAAGCGAT-ATGAAGAAATC
* * * * * ** * * * * *
23604870 ATGAGTCAAATAAGCCGATCAAGA-TCGAGTCGAG-GCAAAAATAAATCATCGGGATGGAACCAC
1 ACGAGTCAAATAAGACGACCAGGACT-AAGTCGAGATAAAAAATAAATGATCGAGAAGAAACCAT
** * * * * * *
23604933 GAATCATAAGGAATGATATGAATTGAGCCAAGATCAAACGACTATGACGAAATC
65 GAATCATAAAAAATGATCTGGACTAAGCCAAGATCAAGCGA-TATGAAGAAATC
* * * *
23604987 ACGAGTCAAATGAGAGGACCAGGACTGAGTCGAGATCAAAAATAAATGATCGAGACAG-AACCAT
1 ACGAGTCAAATAAGACGACCAGGACTAAGTCGAGATAAAAAATAAATGATCGAGA-AGAAACCAT
* * *
23605051 GAATCATAAAAAATGATCTGGACTAAGTCAAGATCAAGCAAT-TAGAAAGAAACC
65 GAATCATAAAAAATGATCTGGACTAAGCCAAGATCAAGCGATAT-G-AAGAAATC
*
23605105 ACGAGTCAAATGAGACGACCAGGACTAAGTCGAGATAAAAAATAAATGATCGA-AATGAAACTC-
1 ACGAGTCAAATAAGACGACCAGGACTAAGTCGAGATAAAAAATAAATGATCGAGAA-GAAAC-CA
*
23605168 TGAATCATAAAAAAATAATCTGGACTAAGCCAAGATCAA
64 TGAATCAT-AAAAAATGATCTGGACTAAGCCAAGATCAA
23605207 TTGAGTGAGA
Statistics
Matches: 272, Mismatches: 54, Indels: 21
0.78 0.16 0.06
Matches are distributed among these distances:
116 2 0.01
117 91 0.33
118 149 0.55
119 30 0.11
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (117 bp):
ACGAGTCAAATAAGACGACCAGGACTAAGTCGAGATAAAAAATAAATGATCGAGAAGAAACCATG
AATCATAAAAAATGATCTGGACTAAGCCAAGATCAAGCGATATGAAGAAATC
Found at i:23606066 original size:16 final size:16
Alignment explanation
Indices: 23606045--23606075 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23606035 AACTTCTCTC
*
23606045 TTTTTTATTTATTTTA
1 TTTTTTATTCATTTTA
23606061 TTTTTTATTCATTTT
1 TTTTTTATTCATTTT
23606076 TTGTGGTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTTATTCATTTTA
Found at i:23614056 original size:6 final size:5
Alignment explanation
Indices: 23614032--23614084 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
23614022 AAAAAGTTTA
*
23614032 AAAAT AAAAT AAAAT -AAAT CAAAAT CAAAAT -ATA- AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT
23614081 AAAA
1 AAAA
23614085 ACCTGCGATC
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 8 0.19
5 24 0.57
6 10 0.24
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:23624233 original size:235 final size:234
Alignment explanation
Indices: 23623809--23624745 Score: 1064
Period size: 235 Copynumber: 4.0 Consensus size: 234
23623799 ATTTTATTGT
* ** * *
23623809 CAAATTTATTTGGTGAGAAAATTT-TTTATGATGTTTTTTATTTTAT-ATGATGTTATAATTTTG
1 CAAATTTATTTGGTGA-AAAATTTATTTGTGACATTTTTTATTTT-TGGTGATGTTATAATTTTA
* * * * * *
23623872 TCACCAACTTAAAATTTTATCTATAACAATTTTTTCTAATA-AATTTAGGTGATGTTGTTAATTC
64 TCACCAATTTAAAATTTTATCTGTGACAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTT
* * * * * *
23623936 TTGTCACAAAATGAACGCTTTAGTTAAATATTAATGACATTGTAATTTCATAACGTTAATGTATG
129 TTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATTAATGTATG
* * *
23624001 GT-TTATATGACGATAACATAAATATCATAAACTTTTACAT
194 GTGTTATATGACGATAACATAAATGTCACAAACTTTTACAC
*
23624041 CAAATTTATTTGGTGAAAAATTTATTTGTGACATTTTTTATTTTTGGTGATGTTATAATTTTTGT
1 CAAATTTATTTGGTGAAAAATTTATTTGTGACATTTTTTATTTTTGGTGATGTTATAA-TTTTAT
* * * * * *
23624106 CATCAATTTAAAATTTTATTTGTGATGAATTTTTAT-TTATAGATTTTAGGTTACGTTATTAATT
65 CACCAATTTAAAATTTTATCTGTGA-CAATTTTT-TCTAATAGATTTTAGGTGATGTTATTAATT
* * * * * * *
23624170 TTTGTTATAAATTGAATATTTTAGTTAACTGTTAATGACATTACAATTTCATCATATTAATGTAT
128 TTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATTAATGTAT
* *
23624235 GGTATTATATGACGATAATATAAATGTCACAAACTTTTACCAC
193 GGTGTTATATGACGATAACATAAATGTCACAAACTTTTA-CAC
* ** * *
23624278 CAAATTTATTTGGTGAAAAATTTTTTTTGTGATGTTTTTTATTTTAGGTGATGTTATAATTTCAT
1 CAAATTTATTTGGTGAAAAA-TTTATTTGTGACATTTTTTATTTTTGGTGATGTTATAATTTTAT
* * *
23624343 CACCAATTTAAAATTTTATTTGTGACAAATTTTTT-T-ATAGATTTTATGTGATGTTATTAATAT
65 CACCAATTTAAAATTTTATCTGTGAC-AATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTT
* * * * ** ** *
23624406 TTGTCATAAATTGAACGCTGTAGTTAACTATTAATGACGTTGCAATTTTGTCATGTTAATGTATA
129 TTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATTAATGTATG
*
23624471 GTGTTATATGACGATGACATAAATGTCACAAACTTTTACTAC
194 GTGTTATATGACGATAACATAAATGTCACAAACTTTTAC-AC
* * * *
23624513 CAAATTTATTTGATGAAAAATTTATTTGTGACATTTTTTTTTGTTTTAAGTAATGTTATAATTTT
1 CAAATTTATTTGGTGAAAAATTTATTTGTGACA-TTTTTTAT-TTTT-GGTGATGTTATAATTTT
* * * * *
23624578 ATCATCAATTTAAAATTTTAACTGTGACGTATTTTTTCTAATAGATTTAAGGTGATGTTATGAAT
63 ATCACCAATTTAAAATTTTATCTGTGAC-AATTTTTTCTAATAGATTTTAGGTGATGTTATTAAT
* * * * * *
23624643 TTTTATTACAAATTGAATATTTTAGTTAACTATTAATGACATTGCTATTTTATCACATTAATGTA
127 TTTTGTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATTAATGTA
*
23624708 TGGTGTTATATGATGATAACATAAATGT--CAAACTTTTA
192 TGGTGTTATATGACGATAACATAAATGTCACAAACTTTTA
23624746 AATGATGTTA
Statistics
Matches: 596, Mismatches: 93, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
231 8 0.01
232 44 0.07
233 26 0.04
234 22 0.04
235 212 0.36
236 37 0.06
237 113 0.19
238 35 0.06
239 99 0.17
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (234 bp):
CAAATTTATTTGGTGAAAAATTTATTTGTGACATTTTTTATTTTTGGTGATGTTATAATTTTATC
ACCAATTTAAAATTTTATCTGTGACAATTTTTTCTAATAGATTTTAGGTGATGTTATTAATTTTT
GTCACAAATTGAACACTTTAGTTAACTATTAATGACATTGCAATTTCATCACATTAATGTATGGT
GTTATATGACGATAACATAAATGTCACAAACTTTTACAC
Found at i:23624734 original size:474 final size:467
Alignment explanation
Indices: 23623809--23624745 Score: 1256
Period size: 474 Copynumber: 2.0 Consensus size: 467
23623799 ATTTTATTGT
* **
23623809 CAAATTTATTTGGTGAGAAAATTTTTTATGATGTTTTTTATTTTATATGATGTTATAATTTTGTC
1 CAAATTTATTTGGTGAGAAAATTTTTTATGATGTTTTTTATTTTAGATGATGTTATAATTTCATC
*
23623874 ACCAACTTAAAATTTTATCTATAACAATTTTTTCTAATAAATTTAGGTGATGTTGTTAATTCTTG
66 ACCAACTTAAAATTTTATCTATAACAATTTTTTCTAATAAATTTAGGTGATGTTATTAATTCTTG
* * *
23623939 TCACAAAATGAACGCTTTAGTTAAATATTAATGACATTGTAATTTCATAACGTTAATGTATGGTT
131 TCACAAAATGAACGCTGTAGTTAAATATTAATGACATTGCAATTTCATAACGTTAATGTATAGTT
* * *
23624004 TATATGACGATAACATAAATATCATAAACTTTTACATCAAATTTATTTGGTGAAAAATTTATTTG
196 TATATGACGATAACATAAATATCACAAACTTTTACACCAAATTTATTTGATGAAAAATTTATTTG
* * * ** *
23624069 TGACATTTTTTATTTTTGGTGATGTTATAATTTTTGTCATCAATTTAAAATTTTATTTGTGATGA
261 TGACATTTTTTATTTTTAGTAATGTTATAATTTTTATCATCAATTTAAAATTTTAACTGTGACGA
* * * * * *
23624134 ATTTTTATTTATAGATTTTAGGTTACGTTATTAATTTTTGTTATAAATTGAATATTTTAGTTAAC
326 ATTTTTATTAATAGATTTAAGGTGACGTTATGAATTTTTATTACAAATTGAATATTTTAGTTAAC
* * *
23624199 TGTTAATGACATTACAATTTCATCATATTAATGTATGGTATTATATGACGATAATATAAATGTCA
391 TATTAATGACATTACAATTTCATCACATTAATGTATGGTATTATATGACGATAACATAAATGT--
23624264 CAAACTTTTACCAC
454 CAAACTTTTACCAC
* *
23624278 CAAATTTATTTGGTGA-AAAATTTTTTTTGTGATGTTTTTTATTTTAGGTGATGTTATAATTTCA
1 CAAATTTATTTGGTGAGAAAA--TTTTTTATGATGTTTTTTATTTTAGATGATGTTATAATTTCA
* * * * * *
23624342 TCACCAATTTAAAATTTTATTTGTGACAAATTTTTT-T-ATAGATTTTATGTGATGTTATTAATA
64 TCACCAACTTAAAATTTTATCTATAAC-AATTTTTTCTAATA-AATTTAGGTGATGTTATTAAT-
* * * * ** * *
23624405 T-TTGTCATAAATTGAACGCTGTAGTTAACTATTAATGACGTTGCAATTTTGTCATGTTAATGTA
126 TCTTGTCACAAAATGAACGCTGTAGTTAAATATTAATGACATTGCAATTTCATAACGTTAATGTA
* *
23624469 TAGTGTTATATGACGATGACATAAATGTCACAAACTTTTACTACCAAATTTATTTGATGAAAAAT
191 TAGT-TTATATGACGATAACATAAATATCACAAACTTTTAC-ACCAAATTTATTTGATGAAAAAT
*
23624534 TTATTTGTGACATTTTTTTTTGTTTTAAGTAATGTTATAA-TTTTATCATCAATTTAAAATTTTA
254 TTATTTGTGACA-TTTTTTAT-TTTT-AGTAATGTTATAATTTTTATCATCAATTTAAAATTTTA
* *
23624598 ACTGTGACGTATTTTT-TCTAATAGATTTAAGGTGATGTTATGAATTTTTATTACAAATTGAATA
316 ACTGTGACGAATTTTTAT-TAATAGATTTAAGGTGACGTTATGAATTTTTATTACAAATTGAATA
* * * * *
23624662 TTTTAGTTAACTATTAATGACATTGCTATTTTATCACATTAATGTATGGTGTTATATGATGATAA
380 TTTTAGTTAACTATTAATGACATTACAATTTCATCACATTAATGTATGGTATTATATGACGATAA
23624727 CATAAATGTCAAACTTTTA
445 CATAAATGTCAAACTTTTA
23624746 AATGATGTTA
Statistics
Matches: 406, Mismatches: 51, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
468 4 0.01
469 19 0.05
470 135 0.33
471 42 0.10
472 43 0.11
473 8 0.02
474 144 0.35
475 11 0.03
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (467 bp):
CAAATTTATTTGGTGAGAAAATTTTTTATGATGTTTTTTATTTTAGATGATGTTATAATTTCATC
ACCAACTTAAAATTTTATCTATAACAATTTTTTCTAATAAATTTAGGTGATGTTATTAATTCTTG
TCACAAAATGAACGCTGTAGTTAAATATTAATGACATTGCAATTTCATAACGTTAATGTATAGTT
TATATGACGATAACATAAATATCACAAACTTTTACACCAAATTTATTTGATGAAAAATTTATTTG
TGACATTTTTTATTTTTAGTAATGTTATAATTTTTATCATCAATTTAAAATTTTAACTGTGACGA
ATTTTTATTAATAGATTTAAGGTGACGTTATGAATTTTTATTACAAATTGAATATTTTAGTTAAC
TATTAATGACATTACAATTTCATCACATTAATGTATGGTATTATATGACGATAACATAAATGTCA
AACTTTTACCAC
Found at i:23624871 original size:121 final size:121
Alignment explanation
Indices: 23624736--23624971 Score: 436
Period size: 121 Copynumber: 2.0 Consensus size: 121
23624726 ACATAAATGT
* *
23624736 CAAACTTTTAAATGATGTTATGATGTTATTTATTCATCACTAATAAGTTCAAATTAATGTATAAT
1 CAAACTTTTAAATGATGTTATGATGTTATTTATTCATCACTAACAAGTTCAAATTAATCTATAAT
* *
23624801 TTATAAGTGACAATTTTACTTAGATTACATATATCTAAATAGAAAAAATTAATGCA
66 TTATAAGTGACAATTTTACTCAGATCACATATATCTAAATAGAAAAAATTAATGCA
23624857 CAAACTTTTAAATGATGTTATGATGTTATTTATTCATCACTAACAAGTTCAAATTAATCTATAAT
1 CAAACTTTTAAATGATGTTATGATGTTATTTATTCATCACTAACAAGTTCAAATTAATCTATAAT
23624922 TTATAAGTGACAATTTTACTCAGATCACATATATCTAAATAGAAAAAATT
66 TTATAAGTGACAATTTTACTCAGATCACATATATCTAAATAGAAAAAATT
23624972 TTAATTACAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 111 1.00
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (121 bp):
CAAACTTTTAAATGATGTTATGATGTTATTTATTCATCACTAACAAGTTCAAATTAATCTATAAT
TTATAAGTGACAATTTTACTCAGATCACATATATCTAAATAGAAAAAATTAATGCA
Found at i:23626535 original size:139 final size:139
Alignment explanation
Indices: 23626282--23626562 Score: 445
Period size: 139 Copynumber: 2.0 Consensus size: 139
23626272 TGCTTATTGG
* * * *
23626282 TAGTGGTTGTCACGGATAAAGGTTGTTTAGAATTTTCTCTTTGCAAAGTATTTTTTGATATAGTT
1 TAGTGGTTGGCACGGATAAAGGCTATATAGAATTTTCTCTTTGCAAAGTATTTTTTGATATAGTT
* * *
23626347 ATATCAGAGTTATAGTAACAGTAAAAGAAAATCTTATATCTTTTGGTATCATAGTTATAGTAACA
66 ATATCAGAGTTATAGTAACAATAAAAGAAAATCTTATATCTTTTAGTATCACAGTTATAGTAACA
*
23626412 GATGTTGTT
131 GATGCTGTT
*
23626421 TAGTGGTTGGCACGGATAAAGGCTATATAGAATTTTCTTTTTGCAAAGTATTTTTTGATATAGTT
1 TAGTGGTTGGCACGGATAAAGGCTATATAGAATTTTCTCTTTGCAAAGTATTTTTTGATATAGTT
* * *
23626486 ATATTAGAGTTATAGTAACAATAAATGAAAATCTTATATCTTTTAGTATCACAGTTATAGTAATA
66 ATATCAGAGTTATAGTAACAATAAAAGAAAATCTTATATCTTTTAGTATCACAGTTATAGTAACA
*
23626551 GGTGCTGTT
131 GATGCTGTT
23626560 TAG
1 TAG
23626563 AATTTTCTCT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
139 129 1.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (139 bp):
TAGTGGTTGGCACGGATAAAGGCTATATAGAATTTTCTCTTTGCAAAGTATTTTTTGATATAGTT
ATATCAGAGTTATAGTAACAATAAAAGAAAATCTTATATCTTTTAGTATCACAGTTATAGTAACA
GATGCTGTT
Found at i:23629853 original size:17 final size:17
Alignment explanation
Indices: 23629831--23629864 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23629821 TGTTACAAGC
23629831 ATTATATATCTAAACTT
1 ATTATATATCTAAACTT
23629848 ATTATATATCTAAACTT
1 ATTATATATCTAAACTT
23629865 TCTTTGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTATATATCTAAACTT
Found at i:23631181 original size:206 final size:205
Alignment explanation
Indices: 23630811--23631336 Score: 626
Period size: 206 Copynumber: 2.6 Consensus size: 205
23630801 TTAATAACAT
* *
23630811 TAATTATGTTACCAATACTTTGATGATTTATCTTTCGTCACTAATATATCAA-A-TTTAGTTATT
1 TAATTATGTTACCAATACTATGAAGATTTATCTTTCGTCACTAATATAT-AAGATTTTA-TTATT
* * * * **
23630874 TATTTTGTAACGATTATAACCTTTAATGATATTTTTTTTATAAATAGCTAATGAAAATTAATGTC
64 TATTTTGTGACGATTATAACCTTTAATGATGTTTTATTTATAAATAGCTTATGAAAATTAACATC
* * *
23630939 ACAAAAAAAAATAAAGCATAATATGATGTTTGATTTTATTGTCACATTTGACGTTATCTTACAAC
129 ACAAAAAAAAATAAAGCATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAAC
**
23631004 CATTTGTGACGA
194 CATTCATGACGA
* * * * *
23631016 TAATTATGTTATCAATACTATGAAGATTTACCTTTCATCATTAATATATTAGATTTTATTATTTA
1 TAATTATGTTACCAATACTATGAAGATTTATCTTTCGTCACTAATATATAAGATTTTATTATTTA
* * * *
23631081 TTTTGTGACAATTATAACCTTCAATGACGTTCTTCTTTATAAATAGCTTATGAAAATTAACATCA
66 TTTTGTGACGATTATAACCTTTAATGATGTT-TTATTTATAAATAGCTTATGAAAATTAACATCA
* * * * * *
23631146 TATAAAAAAAA-AAAGCATAAGATGACGTTTGATTTTATTGTCACGTTTGATATTATTTTATAAT
130 CA-AAAAAAAATAAAGCATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAAC
*
23631210 CATTCATGATGA
194 CATTCATGACGA
* * * * * * * *
23631222 TAATTTTGTCACCAATATTGTGACGATTTATCTTTTGTCACTAATAAATAAGATTTTATCATTTA
1 TAATTATGTTACCAATACTATGAAGATTTATCTTTCGTCACTAATATATAAGATTTTATTATTTA
* * *
23631287 TTTTGTGATGATTATAGCCTTTAATGATGTTTTTATTTATTAATAGCTTA
66 TTTTGTGACGATTATAACCTTTAATGATG-TTTTATTTATAAATAGCTTA
23631337 CATAACGTCA
Statistics
Matches: 268, Mismatches: 48, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
204 1 0.00
205 77 0.29
206 180 0.67
207 10 0.04
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (205 bp):
TAATTATGTTACCAATACTATGAAGATTTATCTTTCGTCACTAATATATAAGATTTTATTATTTA
TTTTGTGACGATTATAACCTTTAATGATGTTTTATTTATAAATAGCTTATGAAAATTAACATCAC
AAAAAAAAATAAAGCATAAGATGACGTTTGATTTTATTGTCACATTTGACATTATCTTACAACCA
TTCATGACGA
Found at i:23631457 original size:198 final size:203
Alignment explanation
Indices: 23630835--23631531 Score: 578
Period size: 206 Copynumber: 3.4 Consensus size: 203
23630825 ATACTTTGAT
* * * * * * *
23630835 GATTTATCTTTCGTCACTAATATATCAA-A-TTTAGTTATTTATTTTGTAACGATTATAACCTTT
1 GATTTACCTTTTGTCACTAATATAT-AAGATTTTA-TCATTTATTTTGTGATGATTATAGCCTTC
** * * ** *
23630898 AATGATATT-TTTTTTATAAATAGCTAATGAAAATTAATGTCACA-AAAAAAAATAAAGCATAAT
64 AATGACGTTCTTATTTATAAATAGCTTAT-AAAATTAACATCA-ATAAAAAAAA-AAAGCATAAG
* * * * *
23630961 ATGATGTTTGATTTTATTGTCACATTTGACGTTATCTTACAACCATTTGTGACGATAATTATGTT
126 ATGATGTTTGATTTTATTGTCACAGTTGACATTATCTTACAATCATTCGTGACGATAATTTTGTT
*
23631026 A-TCAATACTATGAA
191 ACT-AATATTAT-AA
** * * * ** *
23631040 GATTTACCTTTCATCATTAATATATTAGATTTTATTATTTATTTTGTGACAATTATAACCTTCAA
1 GATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTATTTTGTGATGATTATAGCCTTCAA
*
23631105 TGACGTTCTTCTTTATAAATAGCTTATGAAAATTAACATCATATAAAAAAAAAAAGCATAAGATG
66 TGACGTTCTTATTTATAAATAGCTTAT-AAAATTAACATCA-ATAAAAAAAAAAAGCATAAGATG
* * * * * * *
23631170 ACGTTTGATTTTATTGTCAC-GTTTGATATTATTTTATAATCATTCATGATGATAATTTTGTCAC
129 ATGTTTGATTTTATTGTCACAG-TTGACATTATCTTACAATCATTCGTGACGATAATTTTGTTAC
* * *
23631234 CAATATTGTGAC
193 TAATATTAT-AA
* * *
23631246 GATTTATCTTTTGTCACTAATAAATAAGATTTTATCATTTATTTTGTGATGATTATAGCCTTTAA
1 GATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTATTTTGTGATGATTATAGCCTTCAA
* * * * * ** * * *
23631311 TGATGTTTTTATTTATTAATAGC-T-T-ACA-TAACGTC-AT-AAAAATTAACGCATAGGGTGAT
66 TGACGTTCTTATTTATAAATAGCTTATAAAATTAACATCAATAAAAAAAAAAAGCATAAGATGAT
* * * * *
23631370 GTTTGATTTTATTGTCACAGTAGGCATTATCTTACAATCATTGGTGACGCTAATTTTGTTACTAG
131 GTTTGATTTTATTGTCACAGTTGACATTATCTTACAATCATTCGTGACGATAATTTTGTTACTAA
23631435 TATTATAA
196 TATTATAA
* * * *
23631443 TAATTTACCTTTTGTCACTAATATATCAA-ATTTTCTC-TTT-TTTTATGATGAATATAGCCTTC
1 -GATTTACCTTTTGTCACTAATATAT-AAGATTTTATCATTTATTTTGTGATGATTATAGCCTTC
* * * *
23631505 AATAACTTTTTTTTTTCATAAATAGCT
64 AATGACGTTCTTATTT-ATAAATAGCT
23631532 GACAAAAACT
Statistics
Matches: 401, Mismatches: 80, Indels: 29
0.79 0.16 0.06
Matches are distributed among these distances:
196 31 0.08
197 12 0.03
198 101 0.25
199 5 0.01
201 6 0.01
202 2 0.00
204 2 0.00
205 57 0.14
206 177 0.44
207 8 0.02
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.44
Consensus pattern (203 bp):
GATTTACCTTTTGTCACTAATATATAAGATTTTATCATTTATTTTGTGATGATTATAGCCTTCAA
TGACGTTCTTATTTATAAATAGCTTATAAAATTAACATCAATAAAAAAAAAAAGCATAAGATGAT
GTTTGATTTTATTGTCACAGTTGACATTATCTTACAATCATTCGTGACGATAATTTTGTTACTAA
TATTATAA
Found at i:23635364 original size:11 final size:11
Alignment explanation
Indices: 23635348--23635379 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23635338 AAATCCCATA
23635348 AGAGATTTGTT
1 AGAGATTTGTT
23635359 AGAGATTTGTT
1 AGAGATTTGTT
*
23635370 TGAGATTTGT
1 AGAGATTTGT
23635380 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:23635505 original size:51 final size:51
Alignment explanation
Indices: 23635405--23635558 Score: 166
Period size: 51 Copynumber: 3.0 Consensus size: 51
23635395 GGACAAGAAG
* * *
23635405 ACTTGCAAAAGAAGAATTC-CAAAAGAAAGAGGATTCTTAATAGGTAAGTTTA
1 ACTTGCAAGAGAAGAATTCTAAAAAGAAA-A-GATTCTTAATAGGCAAGTTTA
*
23635457 ACTTGCAAGAGAAGAATTCTAAAAAGAAAAGATTCTTAATAGGCAAGTTTG
1 ACTTGCAAGAGAAGAATTCTAAAAAGAAAAGATTCTTAATAGGCAAGTTTA
* * * * * ** *
23635508 ACTTACAGGAGAAGAATTATAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 ACTTGCAAGAGAAGAATTCTAAAAAGA-AAAGATTCTTAATAGGCAAGTTT
23635559 GTATGGTTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
51 41 0.47
52 39 0.44
53 8 0.09
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (51 bp):
ACTTGCAAGAGAAGAATTCTAAAAAGAAAAGATTCTTAATAGGCAAGTTTA
Found at i:23636082 original size:31 final size:31
Alignment explanation
Indices: 23636044--23636128 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
23636034 AGGCTTTTAG
23636044 CCCAACAAATGGTATCAGAGCTGTGGTGTTC
1 CCCAACAAATGGTATCAGAGCTGTGGTGTTC
* *
23636075 CCCAACAAATGGTATCAAAGCTGTGGTGTTT
1 CCCAACAAATGGTATCAGAGCTGTGGTGTTC
* *
23636106 CTCAACAAGTGGTATCAGAGCTG
1 CCCAACAAATGGTATCAGAGCTG
23636129 AAGGTTTGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (31 bp):
CCCAACAAATGGTATCAGAGCTGTGGTGTTC
Found at i:23636195 original size:25 final size:24
Alignment explanation
Indices: 23636162--23636247 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
23636152 TGAAGATTCA
*
23636162 AGATGTGAGAAGAGCCGATGGTTTG
1 AGATATGAGAAGAG-CGATGGTTTG
* * **
23636187 AGACATGAGAAGAGTTGACAGTTTG
1 AGATATGAGAAGAG-CGATGGTTTG
* *
23636212 AGATATGAAAAGAGC-TTGGTTTG
1 AGATATGAGAAGAGCGATGGTTTG
23636235 AGATATGAGAAGA
1 AGATATGAGAAGA
23636248 AGTAAGCTTA
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 17 0.35
25 31 0.65
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (24 bp):
AGATATGAGAAGAGCGATGGTTTG
Found at i:23636197 original size:50 final size:48
Alignment explanation
Indices: 23636142--23636247 Score: 124
Period size: 50 Copynumber: 2.2 Consensus size: 48
23636132 GTTTGAAAGG
* *
23636142 TGAGAAGAGTTGA-AGATTCAAGATGTGAGAAGAGCCGATGGTTTGAGACA
1 TGAGAAGAGTTGACAG-TTCAAGATATGAAAAGAG-C-ATGGTTTGAGACA
** * *
23636192 TGAGAAGAGTTGACAGTTTGAGATATGAAAAGAGCTTGGTTTGAGATA
1 TGAGAAGAGTTGACAGTTCAAGATATGAAAAGAGCATGGTTTGAGACA
23636240 TGAGAAGA
1 TGAGAAGA
23636248 AGTAAGCTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
48 19 0.39
49 1 0.02
50 27 0.55
51 2 0.04
ACGTcount: A:0.37, C:0.06, G:0.33, T:0.25
Consensus pattern (48 bp):
TGAGAAGAGTTGACAGTTCAAGATATGAAAAGAGCATGGTTTGAGACA
Found at i:23636237 original size:23 final size:22
Alignment explanation
Indices: 23636180--23636247 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 22
23636170 GAAGAGCCGA
*
23636180 TGGTTTGAGACATGAGAAGAGT
1 TGGTTTGAGATATGAGAAGAGT
*
23636202 TGACAGTTTGAGATATGAAAAGAGCT
1 TG---GTTTGAGATATGAGAAGAG-T
23636228 TGGTTTGAGATATGAGAAGA
1 TGGTTTGAGATATGAGAAGA
23636248 AGTAAGCTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 2 0.05
23 17 0.44
25 17 0.44
26 3 0.08
ACGTcount: A:0.35, C:0.04, G:0.32, T:0.28
Consensus pattern (22 bp):
TGGTTTGAGATATGAGAAGAGT
Found at i:23636473 original size:11 final size:11
Alignment explanation
Indices: 23636457--23636488 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
23636447 AAATCCCATA
23636457 AGAGATTTGTT
1 AGAGATTTGTT
23636468 AGAGATTTGTT
1 AGAGATTTGTT
*
23636479 TGAGATTTGT
1 AGAGATTTGT
23636489 CAGATATTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (11 bp):
AGAGATTTGTT
Found at i:23636603 original size:51 final size:52
Alignment explanation
Indices: 23636514--23636667 Score: 170
Period size: 51 Copynumber: 3.0 Consensus size: 52
23636504 GGACAAGAAG
* * *
23636514 ACTTGCAAAAGAAGAATTTCAAAAGAAAGAGGATTCTTAATAGGTAAGTTTA
1 ACTTGCAAGAGAAGAATTTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTTA
* *
23636566 ACTTGCAAGAGAAAAATTCTAAAAAGAAA-A-GATTCTTAATAGGCAAGTTTG
1 ACTTGCAAGAGAAGAATT-TAAAAAGAAAGAGGATTCTTAATAGGCAAGTTTA
* * * * * *
23636617 ACTTACAGGAGAAGAATTATAAGAGGAGAG-GGATTCTTAATGGGCAAGTTT
1 ACTTGCAAGAGAAGAATT-TAAAAAGAAAGAGGATTCTTAATAGGCAAGTTT
23636668 GTATGGTTAT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 41 0.48
52 36 0.42
53 9 0.10
ACGTcount: A:0.44, C:0.08, G:0.22, T:0.26
Consensus pattern (52 bp):
ACTTGCAAGAGAAGAATTTAAAAAGAAAGAGGATTCTTAATAGGCAAGTTTA
Found at i:23639221 original size:73 final size:73
Alignment explanation
Indices: 23639102--23639247 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
23639092 TACAGAAAAC
23639102 GTGGAAATTTGACTTTATAACGTTGAAATTCTAAAATAAAACCCAAACAAAGAATATATATATAT
1 GTGGAAATTTGACTTTATAACGTTGAAATTCTAAAATAAAACCCAAACAAAGAATATATATATAT
23639167 ATATATAT
66 ATATATAT
23639175 GTGGAAATTTGACTTTATAACGTTGAAATTCTAAAATAAAACCCAAACAAAGAATATATATATAT
1 GTGGAAATTTGACTTTATAACGTTGAAATTCTAAAATAAAACCCAAACAAAGAATATATATATAT
23639240 ATATATAT
66 ATATATAT
23639248 ATATATATAT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (73 bp):
GTGGAAATTTGACTTTATAACGTTGAAATTCTAAAATAAAACCCAAACAAAGAATATATATATAT
ATATATAT
Found at i:23639235 original size:2 final size:2
Alignment explanation
Indices: 23639228--23639267 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
23639218 CAAACAAAGA
23639228 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23639268 GAAGGGAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23642467 original size:19 final size:18
Alignment explanation
Indices: 23642420--23642467 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
23642410 AATTTAAAAT
**
23642420 TAATAAAATATTATTTTT
1 TAATAAAATATTATTTAG
*
23642438 TTATAAAATATTATTTAG
1 TAATAAAATATTATTTAG
23642456 TAATATAAATAT
1 TAATA-AAATAT
23642468 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATAAAATATTATTTAG
Found at i:23642498 original size:25 final size:24
Alignment explanation
Indices: 23642460--23642521 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 24
23642450 ATTTAGTAAT
* *
23642460 ATAAATATAAAATTAAATAAATAT
1 ATAAATATATAATTAAATAAATAA
*
23642484 ATAATATATATAATTAAATAATTAA
1 ATAA-ATATATAATTAAATAAATAA
*
23642509 TTAAA-A-ATAATTA
1 ATAAATATATAATTA
23642522 TATATAGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.21
23 1 0.03
24 5 0.15
25 20 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
ATAAATATATAATTAAATAAATAA
Found at i:23643311 original size:15 final size:17
Alignment explanation
Indices: 23643283--23643322 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
23643273 TCTTATTTTT
23643283 TATTTTTAAGTTTAA-A
1 TATTTTTAAGTTTAAGA
*
23643299 TATTTTTTA-TTTAAGA
1 TATTTTTAAGTTTAAGA
23643315 TATTTTTA
1 TATTTTTA
23643323 TGAAATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TATTTTTAAGTTTAAGA
Found at i:23644825 original size:22 final size:22
Alignment explanation
Indices: 23644783--23644825 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
23644773 TATAAAAAAT
* *
23644783 TTAGTGGTAAATCAATTATAAC
1 TTAGTAGTAAATCAATAATAAC
23644805 TTAGTAGTAAAT-ATATAATAA
1 TTAGTAGTAAATCA-ATAATAA
23644826 TATAGTAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (22 bp):
TTAGTAGTAAATCAATAATAAC
Found at i:23644903 original size:22 final size:21
Alignment explanation
Indices: 23644856--23644912 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 21
23644846 AATTTTGTTA
23644856 TAAATTAGTGATAATTTAGAC
1 TAAATTAGTGATAATTTAGAC
* * *
23644877 AAAATCAGTGATAACTTTATAC
1 TAAATTAGTGATAA-TTTAGAC
*
23644899 TAAATTAATGATAA
1 TAAATTAGTGATAA
23644913 ATGTATAGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (21 bp):
TAAATTAGTGATAATTTAGAC
Found at i:23644942 original size:22 final size:21
Alignment explanation
Indices: 23644885--23645223 Score: 138
Period size: 22 Copynumber: 15.9 Consensus size: 21
23644875 ACAAAATCAG
* *
23644885 TGATAACTTTATACTAAATTAA
1 TGATAACTTAATAGTAAATT-A
*
23644907 TGATAAATGT-ATAGTAAATTA
1 TGATAACT-TAATAGTAAATTA
*
23644928 TGAATAACTTAATAGTAAAATAA
1 TG-ATAACTTAATAGT-AAATTA
* * *
23644951 TAATAACTTAATAATAAATAAA
1 TGATAACTTAATAGTAAAT-TA
* * * *
23644973 TAATAATTTAGTAGTAAATAA
1 TGATAACTTAATAGTAAATTA
*
23644994 TTGATAA---AATAGT---GTA
1 -TGATAACTTAATAGTAAATTA
* * *
23645010 TGATAACATAATAATAAATACA
1 TGATAACTTAATAGTAAAT-TA
* * * * *
23645032 TAATAACATAGTAGGAAATAA
1 TGATAACTTAATAGTAAATTA
** *
23645053 CAAATAACTTAATAGTAAATCA
1 -TGATAACTTAATAGTAAATTA
* * *
23645075 T-TTATACATAATTGTAAATGTA
1 TGATA-ACTTAATAGTAAAT-TA
* * *
23645097 TAAT-ACATATTAGTAAATTA
1 TGATAACTTAATAGTAAATTA
** ** *
23645117 AAATAACTTAATAAAAAATAAA
1 TGATAACTTAATAGTAAAT-TA
*
23645139 TGATAACTTAATAGTTAATTA
1 TGATAACTTAATAGTAAATTA
* * *
23645160 TTGATAACTTAGTAATAAATCAA
1 -TGATAACTTAATAGTAAAT-TA
*
23645183 TGATAACTTAACAGTAAATTAA
1 TGATAACTTAATAGTAAATT-A
23645205 TGATAACTTAATAGTAAAT
1 TGATAACTTAATAGTAAAT
23645224 AAGATTCAGT
Statistics
Matches: 240, Mismatches: 55, Indels: 44
0.71 0.16 0.13
Matches are distributed among these distances:
15 6 0.03
16 1 0.00
18 5 0.02
19 5 0.02
20 7 0.03
21 46 0.19
22 161 0.67
23 9 0.04
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (21 bp):
TGATAACTTAATAGTAAATTA
Found at i:23644962 original size:11 final size:11
Alignment explanation
Indices: 23644899--23644978 Score: 65
Period size: 11 Copynumber: 7.3 Consensus size: 11
23644889 AACTTTATAC
*
23644899 TAAATTAATGA
1 TAAATTAATAA
*
23644910 TAAATGT-ATAG
1 TAAAT-TAATAA
23644921 TAAATT-ATGAA
1 TAAATTAAT-AA
* *
23644932 TAACTTAATAG
1 TAAATTAATAA
*
23644943 TAAAATAATAA
1 TAAATTAATAA
*
23644954 TAACTTAATAA
1 TAAATTAATAA
*
23644965 TAAATAAATAA
1 TAAATTAATAA
23644976 TAA
1 TAA
23644979 TTTAGTAGTA
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
10 3 0.06
11 48 0.89
12 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (11 bp):
TAAATTAATAA
Found at i:23644969 original size:44 final size:44
Alignment explanation
Indices: 23644927--23645225 Score: 153
Period size: 44 Copynumber: 7.0 Consensus size: 44
23644917 ATAGTAAATT
23644927 ATGAATAACTTAATAGTAAAATAATAATAACTTAATAATAAATAA
1 ATGAATAACTTAATAGT-AAATAATAATAACTTAATAATAAATAA
* * * * **
23644972 AT-AATAATTTAGTAGTAAATAAT--TGA--TAA-AAT-AGTGT
1 ATGAATAACTTAATAGTAAATAATAATAACTTAATAATAAATAA
* * * * **
23645009 ATG-ATAACATAATAATAAATACATAATAACATAGTAGGAAATAA
1 ATGAATAACTTAATAGTAAATA-ATAATAACTTAATAATAAATAA
* * * ** **
23645053 CA--AATAACTTAATAGTAAATCAT-TTATACATAATTGTAAATGT
1 -ATGAATAACTTAATAGTAAATAATAATA-ACTTAATAATAAATAA
* * *
23645096 AT-AAT-ACATATTAGTAAATTAA-AATAACTTAATAAAAAATAA
1 ATGAATAACTTAATAGTAAA-TAATAATAACTTAATAATAAATAA
* * * * *
23645138 ATG-ATAACTTAATAGTTAATTATTGATAACTTAGTAATAAATCA
1 ATGAATAACTTAATAG-TAAATAATAATAACTTAATAATAAATAA
* * *
23645182 ATG-ATAACTTAACAGTAAATTAATGATAACTTAATAGTAAATAA
1 ATGAATAACTTAATAGTAAA-TAATAATAACTTAATAATAAATAA
23645226 GATTCAGTTT
Statistics
Matches: 185, Mismatches: 50, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
37 18 0.10
38 5 0.03
39 3 0.02
40 2 0.01
41 2 0.01
42 30 0.16
43 40 0.22
44 82 0.44
45 3 0.02
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.33
Consensus pattern (44 bp):
ATGAATAACTTAATAGTAAATAATAATAACTTAATAATAAATAA
Found at i:23645022 original size:81 final size:83
Alignment explanation
Indices: 23644926--23645166 Score: 222
Period size: 81 Copynumber: 2.9 Consensus size: 83
23644916 TATAGTAAAT
* * * *
23644926 TATGAATAACTTAATAGTAAAATAATAATAACTTAATAATAAATAAATAATAATTTAGTAGTAAA
1 TATGAATAACATAATAGTAAAATAATAATAACTTAATAAAAAATAAATAATAACTTAATAGTAAA
*
23644991 TAATTGATAA-AATAGTG
66 TAATTGATAATAATAGTA
* * * **
23645008 TATG-ATAACATAATAAT-AAATACATAATAACATAGTAGGAAATAACA-AATAACTTAATAGTA
1 TATGAATAACATAATAGTAAAATA-ATAATAACTTAATAAAAAATAA-ATAATAACTTAATAGTA
* * *
23645070 AATCATTTATACATAATTGTA
64 AATAATTGATA-ATAATAGTA
* * * * * *
23645091 AATGTATAATACATATTAGTAAATTAA-AATAACTTAATAAAAAATAAATGATAACTTAATAGTT
1 TATGAAT-A-ACATAATAGTAAAATAATAATAACTTAATAAAAAATAAATAATAACTTAATAGTA
*
23645155 AATTATTGATAA
64 AATAATTGATAA
23645167 CTTAGTAATA
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
80 5 0.04
81 51 0.40
82 6 0.05
83 8 0.06
84 4 0.03
85 39 0.31
86 9 0.07
87 4 0.03
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (83 bp):
TATGAATAACATAATAGTAAAATAATAATAACTTAATAAAAAATAAATAATAACTTAATAGTAAA
TAATTGATAATAATAGTA
Found at i:23645215 original size:11 final size:11
Alignment explanation
Indices: 23645137--23645216 Score: 56
Period size: 11 Copynumber: 7.3 Consensus size: 11
23645127 ATAAAAAATA
23645137 AATGATAACTT
1 AATGATAACTT
*
23645148 AATAGTTAA-TT
1 AAT-GATAACTT
*
23645159 ATTGATAACTT
1 AATGATAACTT
* * * *
23645170 AGTAATAAATC
1 AATGATAACTT
23645181 AATGATAACTT
1 AATGATAACTT
* *
23645192 AA-CAGTAAATT
1 AATGA-TAACTT
23645203 AATGATAACTT
1 AATGATAACTT
23645214 AAT
1 AAT
23645217 AGTAAATAAG
Statistics
Matches: 50, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
10 5 0.10
11 40 0.80
12 5 0.10
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (11 bp):
AATGATAACTT
Found at i:23645528 original size:19 final size:20
Alignment explanation
Indices: 23645504--23645545 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
23645494 TAATTAATTG
23645504 ATAAAT-TTAGTAATAAATC
1 ATAAATATTAGTAATAAATC
23645523 ATAAATAGCTTAGTAATAAATC
1 ATAAATA--TTAGTAATAAATC
23645545 A
1 A
23645546 ATGAGAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
22 14 0.70
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAATATTAGTAATAAATC
Found at i:23645646 original size:21 final size:22
Alignment explanation
Indices: 23645587--23645647 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
23645577 AAGTAGTAAT
*
23645587 TAATAATTAG-AAATTAA-AAG
1 TAATCATTAGTAAATTAATAAG
* *
23645607 TAAATCAATA-TAACTTAATAA-
1 T-AATCATTAGTAAATTAATAAG
23645628 TAATCATTAGTAAATTAATA
1 TAATCATTAGTAAATTAATA
23645648 GTCAATACGT
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
20 8 0.25
21 22 0.69
22 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (22 bp):
TAATCATTAGTAAATTAATAAG
Found at i:23645719 original size:22 final size:22
Alignment explanation
Indices: 23645685--23645774 Score: 74
Period size: 22 Copynumber: 4.1 Consensus size: 22
23645675 AATTAGAGAT
* *
23645685 ATAACTTAATAGTATATCAATA
1 ATAATTTAATAGTAGATCAATA
* *
23645707 ATAATTTAGTAGTAGATTAATA
1 ATAATTTAATAGTAGATCAATA
* * *
23645729 ATAATATAATAGTCAAAAC-ATA
1 ATAATTTAATAGT-AGATCAATA
* * *
23645751 ATAACTTAATAATAAATCAATA
1 ATAATTTAATAGTAGATCAATA
23645773 AT
1 AT
23645775 GACTTAATTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
21 4 0.08
22 47 0.89
23 2 0.04
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.34
Consensus pattern (22 bp):
ATAATTTAATAGTAGATCAATA
Found at i:23645972 original size:17 final size:17
Alignment explanation
Indices: 23645947--23645983 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23645937 ACTTATAATT
* *
23645947 TAATTATAAATCAGTGA
1 TAATAATAAATCAATGA
23645964 TAATAATAAATCAATGA
1 TAATAATAAATCAATGA
23645981 TAA
1 TAA
23645984 CTTATTAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (17 bp):
TAATAATAAATCAATGA
Found at i:23645998 original size:22 final size:22
Alignment explanation
Indices: 23645964--23646038 Score: 71
Period size: 22 Copynumber: 3.4 Consensus size: 22
23645954 AAATCAGTGA
*
23645964 TAATAATAAATCAATGATAACT
1 TAATAGTAAATCAATGATAACT
* * **
23645986 TATTAGTAAATCAGTTTTAACT
1 TAATAGTAAATCAATGATAACT
* *
23646008 TAGTAGTAAAATCTA-GATAACT
1 TAATAGT-AAATCAATGATAACT
23646030 TAATAGTAA
1 TAATAGTAA
23646039 GTTATTCATA
Statistics
Matches: 41, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
21 2 0.05
22 34 0.83
23 5 0.12
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (22 bp):
TAATAGTAAATCAATGATAACT
Found at i:23660611 original size:60 final size:60
Alignment explanation
Indices: 23660543--23660668 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
23660533 GGAATGAACC
23660543 TTTTAAAAT-GATCATTTAAGGCGTTTTCTATATAGAAACAT-CTTAAATAATTC-TTTTAT-T
1 TTTTAAAATGGATCATTTAAGGCGTTTT-TATAT-GAAA-ATACTTAAATAA-TCATTTTATAT
* * *
23660603 TTTTAAAATGGATTATTTAATGTGTTTTTATATGAAAATACCTTAAATAATCATTTTATAT
1 TTTTAAAATGGATCATTTAAGGCGTTTTTATATGAAAATA-CTTAAATAATCATTTTATAT
23660664 TTTTA
1 TTTTA
23660669 TAAAGAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
58 2 0.03
59 6 0.10
60 29 0.50
61 21 0.36
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (60 bp):
TTTTAAAATGGATCATTTAAGGCGTTTTTATATGAAAATACTTAAATAATCATTTTATAT
Found at i:23660783 original size:63 final size:62
Alignment explanation
Indices: 23660709--23660923 Score: 218
Period size: 63 Copynumber: 3.4 Consensus size: 62
23660699 GAAAACGACA
* * * *
23660709 AAAACGTCTTAAATAAACCTTTTATATTTTTGTAAAGAGATAATTTAAGGTATTTTATATAC
1 AAAACGCCTTAAATAATCCTTTTATATTTTTATAAAGAGATTATTTAAGGTATTTTATATAC
* * * * *
23660771 AGAAACGCCTTAAATAATCTTTTTATATTTTTATAAAAATATTATTTAAGATATTTTTGTATGA-
1 A-AAACGCCTTAAATAATCCTTTTATATTTTTATAAAGAGATTATTTAAGGTA-TTTTATAT-AC
** * * *
23660835 AAAACATCTTAAATAATCTTTTTATATTTTTATAAAGTGATTATTTAATGCGT-TTTTTTATAC
1 AAAACGCCTTAAATAATCCTTTTATATTTTTATAAAGAGATTATTTAA-G-GTATTTTATATAC
* *
23660898 AAAAACGCTTTAAATAATTCTTTTAT
1 -AAAACGCCTTAAATAATCCTTTTAT
23660924 TTTGTTTTAT
Statistics
Matches: 125, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
62 2 0.02
63 92 0.74
64 29 0.23
65 2 0.02
ACGTcount: A:0.39, C:0.08, G:0.07, T:0.46
Consensus pattern (62 bp):
AAAACGCCTTAAATAATCCTTTTATATTTTTATAAAGAGATTATTTAAGGTATTTTATATAC
Found at i:23661624 original size:28 final size:28
Alignment explanation
Indices: 23661572--23661625 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
23661562 TTTATCAATT
*
23661572 AATTATTTATTACCTTTTTGGATAAATC
1 AATTATTTATTACCTTTTTGCATAAATC
*
23661600 AATTATTTATTA-CTTTATTTCATAAA
1 AATTATTTATTACCTTT-TTGCATAAA
23661626 GAAAATGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.52
Consensus pattern (28 bp):
AATTATTTATTACCTTTTTGCATAAATC
Found at i:23661962 original size:13 final size:12
Alignment explanation
Indices: 23661943--23661983 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
23661933 AGTTTTCTTT
23661943 AATATATAT-TA
1 AATATATATATA
23661954 AATATATATATA
1 AATATATATATA
*
23661966 AATAAATA-ATA
1 AATATATATATA
*
23661977 AAAATAT
1 AATATAT
23661984 TAATATTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATATATATATA
Found at i:23662011 original size:13 final size:13
Alignment explanation
Indices: 23661979--23662019 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23661969 AAATAATAAA
*
23661979 AATATTAATATTT
1 AATATTTATATTT
23661992 AATATTTATATTT
1 AATATTTATATTT
23662005 -ATAATTTA-ATTT
1 AAT-ATTTATATTT
23662017 AAT
1 AAT
23662020 TTAATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 6 0.24
13 19 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATATTTATATTT
Found at i:23671673 original size:22 final size:22
Alignment explanation
Indices: 23671647--23671744 Score: 90
Period size: 22 Copynumber: 4.4 Consensus size: 22
23671637 AGTTGATCTG
* * *
23671647 GGCTTAGGTACCAATTAATTTG
1 GGCTTAGGTGCCAACTAATTTA
* *
23671669 GGCTTAGATGCCAGCTAATTTA
1 GGCTTAGGTGCCAACTAATTTA
* * *
23671691 GACTTAAAGTGCTAACTAATTT-
1 GGCTT-AGGTGCCAACTAATTTA
*
23671713 GGGTTAAGGTGCCAACTAATTTA
1 GGCTT-AGGTGCCAACTAATTTA
23671736 GGCTTAGGT
1 GGCTTAGGT
23671745 ACAAGTTAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
22 43 0.73
23 16 0.27
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (22 bp):
GGCTTAGGTGCCAACTAATTTA
Found at i:23671711 original size:23 final size:23
Alignment explanation
Indices: 23671657--23671794 Score: 88
Period size: 22 Copynumber: 6.2 Consensus size: 23
23671647 GGCTTAGGTA
* * *
23671657 CCAATTAATTTGGGCTTAGA-TG
1 CCAACTAATTTAGGCTTAAAGTG
* *
23671679 CCAGCTAATTTAGACTTAAAGTG
1 CCAACTAATTTAGGCTTAAAGTG
* * *
23671702 CTAACTAATTT-GGGTTAAGGTG
1 CCAACTAATTTAGGCTTAAAGTG
*
23671724 CCAACTAATTTAGGCTT-AGGT-
1 CCAACTAATTTAGGCTTAAAGTG
* * *
23671745 ACAAGTTAATCTAGGCTTAAAGTG
1 CCAA-CTAATTTAGGCTTAAAGTG
* * * *
23671769 TCAACTAATATGGGCTTGAA-TG
1 CCAACTAATTTAGGCTTAAAGTG
23671791 CCAA
1 CCAA
23671795 TTGATCCTTC
Statistics
Matches: 89, Mismatches: 22, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
21 3 0.03
22 53 0.60
23 30 0.34
24 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (23 bp):
CCAACTAATTTAGGCTTAAAGTG
Found at i:23671764 original size:67 final size:67
Alignment explanation
Indices: 23671652--23671782 Score: 156
Period size: 67 Copynumber: 2.0 Consensus size: 67
23671642 ATCTGGGCTT
* * * * * *
23671652 AGGTACCAATTAATTTGGGCTTAGATGCCAGCTAATTTAGACTTAAAGTG-CTAACTAATTTGGG
1 AGGTACCAACTAATTTAGGCTTAGATACAAGCTAATCTAGACTTAAAGTGTC-AACTAATATGGG
23671716 TTA
65 TTA
* * * *
23671719 AGGTGCCAACTAATTTAGGCTTAGGTACAAGTTAATCTAGGCTTAAAGTGTCAACTAATATGGG
1 AGGTACCAACTAATTTAGGCTTAGATACAAGCTAATCTAGACTTAAAGTGTCAACTAATATGGG
23671783 CTTGAATGCC
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
67 52 0.98
68 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (67 bp):
AGGTACCAACTAATTTAGGCTTAGATACAAGCTAATCTAGACTTAAAGTGTCAACTAATATGGGT
TA
Found at i:23676395 original size:2 final size:2
Alignment explanation
Indices: 23676390--23676419 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23676380 ACACACAATC
23676390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23676420 ATTTAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.