Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, 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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 4 of 74
Found at i:710933 original size:23 final size:22
Alignment explanation
Indices: 710874--710937 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 22
710864 TACGTGGTTG
*
710874 ATTGTTGTCTATTACTATATGTTT
1 ATTG-TGTATATTACT-TATGTTT
*
710898 ATTATGATATATTACTTATGTGTT
1 ATTGTG-TATATTACTTATGT-TT
*
710922 ATTGTGTTTATTACTT
1 ATTGTGTATATTACTT
710938 CAAGCTTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
23 16 0.47
24 18 0.53
ACGTcount: A:0.23, C:0.06, G:0.12, T:0.58
Consensus pattern (22 bp):
ATTGTGTATATTACTTATGTTT
Found at i:711123 original size:24 final size:23
Alignment explanation
Indices: 711096--711150 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
711086 ATAAGATTAT
**
711096 TAAAAAATTAACATTTTCTTAGCA
1 TAAAAAATTAA-ATTTTCTTAAAA
* *
711120 TAAAATGATTTAATTTTCTTAAAA
1 TAAAA-AATTAAATTTTCTTAAAA
711144 TAAAAAA
1 TAAAAAA
711151 AATTATTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 1 0.04
24 20 0.80
25 4 0.16
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (23 bp):
TAAAAAATTAAATTTTCTTAAAA
Found at i:716603 original size:2 final size:2
Alignment explanation
Indices: 716596--716635 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
716586 AGTACTTTCA
716596 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
716636 ATACACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:739934 original size:2 final size:2
Alignment explanation
Indices: 739927--739965 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
739917 GATCCTATTG
*
739927 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
739966 ATTATCTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:757238 original size:17 final size:17
Alignment explanation
Indices: 757216--757251 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
757206 GATATGATTA
757216 AATAATATGATAAGAAT
1 AATAATATGATAAGAAT
757233 AATAATATGATAAGAAT
1 AATAATATGATAAGAAT
757250 AA
1 AA
757252 AGGATATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (17 bp):
AATAATATGATAAGAAT
Found at i:758253 original size:13 final size:13
Alignment explanation
Indices: 758235--758277 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
758225 ATATTAAAAT
758235 TTATATATTTATA
1 TTATATATTTATA
758248 TTATAT-TTTATA
1 TTATATATTTATA
758260 TTATA-ATTATATA
1 TTATATATT-TATA
758273 TTATA
1 TTATA
758278 AAATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATATATTTATA
Found at i:759550 original size:20 final size:20
Alignment explanation
Indices: 759505--759550 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
759495 TATATAAATA
* *
759505 ATTTTTTTAATTATTTATTT
1 ATTTTTATAATTATTTATAT
*
759525 AATTTTATAATTATTTATAT
1 ATTTTTATAATTATTTATAT
759545 ATTTTT
1 ATTTTT
759551 TTTATATTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTATAATTATTTATAT
Found at i:759567 original size:12 final size:12
Alignment explanation
Indices: 759510--759572 Score: 69
Period size: 12 Copynumber: 5.3 Consensus size: 12
759500 AAATAATTTT
759510 TTTAATTATT-TA
1 TTTAATT-TTATA
759522 TTTAATTTTATA
1 TTTAATTTTATA
*
759534 ATT-ATTTATATA
1 TTTAATTT-TATA
*
759546 TTT-TTTTTATA
1 TTTAATTTTATA
759557 TTTAATTTTATA
1 TTTAATTTTATA
759569 TTTA
1 TTTA
759573 TATTAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
11 13 0.30
12 31 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:764551 original size:25 final size:24
Alignment explanation
Indices: 764517--764564 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
764507 ATTTTGAATT
764517 TTTATTATTT-TCTTTTTGTATGTA
1 TTTATTATTTAT-TTTTTGTATGTA
764541 TTTATTTATTTATTTTTTGTATGT
1 TTTA-TTATTTATTTTTTGTATGT
764565 TCCTTTCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 4 0.18
25 17 0.77
26 1 0.05
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.73
Consensus pattern (24 bp):
TTTATTATTTATTTTTTGTATGTA
Found at i:764943 original size:2 final size:2
Alignment explanation
Indices: 764936--764969 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
764926 CTTTGCATGA
* *
764936 AT AT AT AT AT AT AT AT AT AT AT TT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
764970 GATGAGAGGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
AT
Found at i:772913 original size:14 final size:14
Alignment explanation
Indices: 772894--772957 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
772884 GTCAAAATAT
772894 TTTTATTACATCTA
1 TTTTATTACATCTA
* *
772908 TTTTATTATATACAA
1 TTTTATTACAT-CTA
* **
772923 TCTT-TTA-AAATA
1 TTTTATTACATCTA
772935 TTTTTATTACATCTA
1 -TTTTATTACATCTA
772950 TTTTATTA
1 TTTTATTA
772958 TATACAATCT
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
12 1 0.03
13 4 0.11
14 24 0.65
15 8 0.22
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (14 bp):
TTTTATTACATCTA
Found at i:772937 original size:42 final size:42
Alignment explanation
Indices: 772887--772970 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
772877 TAAAATGGTC
772887 AAAATATTTTTATTACATCTATTTTATTATATACAATCTTTT
1 AAAATATTTTTATTACATCTATTTTATTATATACAATCTTTT
772929 AAAATATTTTTATTACATCTATTTTATTATATACAATCTTTT
1 AAAATATTTTTATTACATCTATTTTATTATATACAATCTTTT
772971 TTTTAAGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.55
Consensus pattern (42 bp):
AAAATATTTTTATTACATCTATTTTATTATATACAATCTTTT
Found at i:772972 original size:19 final size:19
Alignment explanation
Indices: 772903--772971 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 19
772893 TTTTTATTAC
772903 ATCTATTTTATTATATACA
1 ATCTATTTTATTATATACA
*
772922 ATCT-TTTAAAATATTTTTATTAC-
1 ATCTATTT----TA-TTATA-TACA
772945 ATCTATTTTATTATATACA
1 ATCTATTTTATTATATACA
772964 ATCT-TTTT
1 ATCTATTTT
772972 TTTAAGTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 17
0.68 0.03 0.29
Matches are distributed among these distances:
18 10 0.25
19 12 0.30
20 2 0.05
22 2 0.05
23 8 0.20
24 6 0.15
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (19 bp):
ATCTATTTTATTATATACA
Found at i:781711 original size:30 final size:33
Alignment explanation
Indices: 781648--781712 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
781638 TTTTATTTTT
781648 ATTTTTATTTGACAAATAAATTTAAATAATTTA
1 ATTTTTATTTGACAAATAAATTTAAATAATTTA
781681 ATTTTTATTT-A-AAATAACATTT-AA-AATTTA
1 ATTTTTATTTGACAAATAA-ATTTAAATAATTTA
781711 AT
1 AT
781713 CAAATTCGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
30 8 0.26
31 8 0.26
32 5 0.16
33 10 0.32
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (33 bp):
ATTTTTATTTGACAAATAAATTTAAATAATTTA
Found at i:783516 original size:29 final size:29
Alignment explanation
Indices: 783479--783536 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
783469 TACCAGATAT
783479 ATAATTTTTATATAAAAT-ATAATATAAA
1 ATAATTTTTATATAAAATAATAATATAAA
* *
783507 ATAATGTTTTATATGACATAATAATATAAA
1 ATAAT-TTTTATATAAAATAATAATATAAA
783537 TTATATGATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 5 0.19
29 11 0.42
30 10 0.38
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.41
Consensus pattern (29 bp):
ATAATTTTTATATAAAATAATAATATAAA
Found at i:786428 original size:17 final size:17
Alignment explanation
Indices: 786408--786444 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
786398 TGGAACAAAA
786408 ACATGTGCTAATAAAGC
1 ACATGTGCTAATAAAGC
786425 ACATGTGCTAATAAAGC
1 ACATGTGCTAATAAAGC
786442 ACA
1 ACA
786445 AGTTAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (17 bp):
ACATGTGCTAATAAAGC
Found at i:808064 original size:41 final size:41
Alignment explanation
Indices: 807993--808072 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
807983 GTTTTTTTTT
* * * **
807993 TCGATGTAAATGTATCTTTTTGTGTGTGCTTAAGATTAATC
1 TCGATATAAATGTATCTTATTATGAATGCTTAAGATTAATC
*
808034 TCGATATAAATGTATCTTATTATGAATGCTTGAGATTAA
1 TCGATATAAATGTATCTTATTATGAATGCTTAAGATTAA
808073 CCATGGCTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.30, C:0.09, G:0.17, T:0.44
Consensus pattern (41 bp):
TCGATATAAATGTATCTTATTATGAATGCTTAAGATTAATC
Found at i:821207 original size:9 final size:9
Alignment explanation
Indices: 821193--821227 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
821183 ATATTTTTTA
821193 TTTTTAAAT
1 TTTTTAAAT
821202 TTTTTAAATT
1 TTTTTAAA-T
821212 TTTATTAAAT
1 TTT-TTAAAT
821222 TTTTTA
1 TTTTTA
821228 TTTATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 11 0.46
10 8 0.33
11 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:821221 original size:11 final size:10
Alignment explanation
Indices: 821193--821226 Score: 52
Period size: 11 Copynumber: 3.4 Consensus size: 10
821183 ATATTTTTTA
821193 TTTTTAAA-T
1 TTTTTAAATT
821202 TTTTTAAATT
1 TTTTTAAATT
821212 TTTATTAAATT
1 TTT-TTAAATT
821223 TTTT
1 TTTT
821227 ATTTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 5 0.22
11 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTAAATT
Found at i:821745 original size:34 final size:32
Alignment explanation
Indices: 821672--821745 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
821662 TTTATATAAA
* *
821672 ATTTAATATAAATACATAAATTTTATTATTTT
1 ATTTAATATAAATACATAAATTTAATTATTTC
*
821704 ATATAATATAAATACATAAATATTAAATTA-TTC
1 ATTTAATATAAATACATAAAT-TT-AATTATTTC
821737 ACTTTAATA
1 A-TTTAATA
821746 ATTGAACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
32 20 0.57
33 5 0.14
34 10 0.29
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (32 bp):
ATTTAATATAAATACATAAATTTAATTATTTC
Found at i:824479 original size:30 final size:30
Alignment explanation
Indices: 824439--824499 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
824429 GTAAAATTTT
*
824439 GATAATATAGATAGAAAAGATATGTTCTGA
1 GATAAAATAGATAGAAAAGATATGTTCTGA
*
824469 GATAAAATAGATAGAAAATATATGTTCTGA
1 GATAAAATAGATAGAAAAGATATGTTCTGA
824499 G
1 G
824500 TGTTGAATAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.30
Consensus pattern (30 bp):
GATAAAATAGATAGAAAAGATATGTTCTGA
Found at i:825300 original size:185 final size:188
Alignment explanation
Indices: 824965--825340 Score: 643
Period size: 185 Copynumber: 2.0 Consensus size: 188
824955 TTGAAGATAA
824965 TAGATAATGTAGAGGAACAAATTCAATCACCATTTAATGGTAGTTAATTTTCTCTCTCTCTCTTT
1 TAGATAATGTAGAGGAACAAATTCAATCACCATTTAATGGTAGTTAATTTTCTCTCTCTCTCTTT
*
825030 TATTTTTAAAAAAAAAAAAGCAAATTCATATTTTTTTAACAAAAAAAAATTATACATCAATTATT
66 TA-TTTTAAAAAAAAAAAAGAAAATTCATATTTTTTTAACAAAAAAAAATTATACATCAATTATT
* *
825095 GAATTTTAAAAAATAAGGTAAAAGAAAAAAACGTGCTTCTAAATGTTCCATCCTTTTCT
130 GAATTTTAAAAAACAAGGTAAAAGAAAAAAACGTGCTTCCAAATGTTCCATCCTTTTCT
*
825154 TAGATAATGTAGAGGAACAAATTCAATCACCATTTAATGGTAGTTAATTTTCT-TTTCTCTCTTT
1 TAGATAATGTAGAGGAACAAATTCAATCACCATTTAATGGTAGTTAATTTTCTCTCTCTCTCTTT
* *
825218 TA-TTT-AAAAAAAAAAAGAAAATTCAT-TTTTTTTGACAAAAAAAAAATTATTCATCAATTATT
66 TATTTTAAAAAAAAAAAAGAAAATTCATATTTTTTTAAC-AAAAAAAAATTATACATCAATTATT
*
825280 GAGTTTTAAAAAACAAGGTAAAAGAAAAAAACGTGCTTCCAAATGTTCCATCCTTTTCT
130 GAATTTTAAAAAACAAGGTAAAAGAAAAAAACGTGCTTCCAAATGTTCCATCCTTTTCT
825339 TA
1 TA
825341 CACGTTGCAA
Statistics
Matches: 179, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
184 9 0.05
185 102 0.57
186 3 0.02
188 12 0.07
189 53 0.30
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.36
Consensus pattern (188 bp):
TAGATAATGTAGAGGAACAAATTCAATCACCATTTAATGGTAGTTAATTTTCTCTCTCTCTCTTT
TATTTTAAAAAAAAAAAAGAAAATTCATATTTTTTTAACAAAAAAAAATTATACATCAATTATTG
AATTTTAAAAAACAAGGTAAAAGAAAAAAACGTGCTTCCAAATGTTCCATCCTTTTCT
Found at i:825721 original size:17 final size:18
Alignment explanation
Indices: 825694--825728 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
825684 TATTTTTATT
*
825694 AAAATTATAAAATTAAAA
1 AAAATTATAAAAATAAAA
825712 AAAATT-TAAAAATAAAA
1 AAAATTATAAAAATAAAA
825729 TTAGCAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATTATAAAAATAAAA
Found at i:837485 original size:154 final size:154
Alignment explanation
Indices: 837205--837512 Score: 616
Period size: 154 Copynumber: 2.0 Consensus size: 154
837195 TGTAGAACAG
837205 TACTGAAAAGGAGTAACAAACGAAGAAAAGAAAAAAGCAAGTACAAGGAAATGACGAAGGATGAT
1 TACTGAAAAGGAGTAACAAACGAAGAAAAGAAAAAAGCAAGTACAAGGAAATGACGAAGGATGAT
837270 AAACCAAGTCAAAACCAGTGCATCATAAATGGAAGTGCAGAAACTTTTTAGGGCAAGTAAACCAT
66 AAACCAAGTCAAAACCAGTGCATCATAAATGGAAGTGCAGAAACTTTTTAGGGCAAGTAAACCAT
837335 GGAGAGAGAGCTGTAAACCATATA
131 GGAGAGAGAGCTGTAAACCATATA
837359 TACTGAAAAGGAGTAACAAACGAAGAAAAGAAAAAAGCAAGTACAAGGAAATGACGAAGGATGAT
1 TACTGAAAAGGAGTAACAAACGAAGAAAAGAAAAAAGCAAGTACAAGGAAATGACGAAGGATGAT
837424 AAACCAAGTCAAAACCAGTGCATCATAAATGGAAGTGCAGAAACTTTTTAGGGCAAGTAAACCAT
66 AAACCAAGTCAAAACCAGTGCATCATAAATGGAAGTGCAGAAACTTTTTAGGGCAAGTAAACCAT
837489 GGAGAGAGAGCTGTAAACCATATA
131 GGAGAGAGAGCTGTAAACCATATA
837513 GTATAATGAA
Statistics
Matches: 154, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 154 1.00
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.16
Consensus pattern (154 bp):
TACTGAAAAGGAGTAACAAACGAAGAAAAGAAAAAAGCAAGTACAAGGAAATGACGAAGGATGAT
AAACCAAGTCAAAACCAGTGCATCATAAATGGAAGTGCAGAAACTTTTTAGGGCAAGTAAACCAT
GGAGAGAGAGCTGTAAACCATATA
Found at i:838841 original size:5 final size:5
Alignment explanation
Indices: 838831--838868 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
838821 AGTGAGGCAT
838831 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTT
1 CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTTCC CTT
838869 TGTTTAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
CTTCC
Found at i:839314 original size:24 final size:23
Alignment explanation
Indices: 839286--839332 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
839276 TAATATATAT
839286 GATATGATT-ATATATGTTAACTAA
1 GATATGATTCA-ATATGTT-ACTAA
839310 GATATGATTCAATATGTTACTAA
1 GATATGATTCAATATGTTACTAA
839333 TAATTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 16 0.73
25 1 0.05
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (23 bp):
GATATGATTCAATATGTTACTAA
Found at i:840409 original size:21 final size:20
Alignment explanation
Indices: 840376--840414 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
840366 AACTTTTTTA
840376 ATTTTACATTATATATATTG
1 ATTTTACATTATATATATTG
*
840396 ATTTTTCATATATATATAT
1 ATTTTACAT-TATATATAT
840415 ATATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
ATTTTACATTATATATATTG
Found at i:840668 original size:2 final size:2
Alignment explanation
Indices: 840663--840690 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
840653 TTCTCTCCCC
840663 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
840691 CATCAAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:859161 original size:228 final size:228
Alignment explanation
Indices: 858661--859344 Score: 652
Period size: 228 Copynumber: 3.0 Consensus size: 228
858651 GAGCTTAGAA
* * * * *
858661 ACCACCACGAAGACGCAGGACAAGGTGAAGAGTGGATTCCTTCTGAATATTGTAATCAGCCAAGG
1 ACCACCACGAAGACGCAGGACAAGGTGAAGAGTCGACTCCTTTTGAATGTTGTAATCGGCCAAGG
* ** * * * * *
858726 TCCTTCCATCTTCCAA-TTGCTTCCCAGCAAAAATCAA-CCTTTGCTGATCAGGTGGAATCCCTT
66 TTCGACCGTCTT-CAAGTTGCTTCCCAGCAAAGAT-AAGCCTTTGCTGGTCCGGTGGAATTCCTT
* * * * * * * * *
858789 CTTTGTCCTGAATCTTCGCCTTGACATTATCAATGGTATCCGAGCTCTCCACCTCCAAAGTAATC
129 CCTTGTCTTGGATCTTCGCCTTGACATTGTCAATGGTGTCAGAGCTCTCGACTTCCAAGGTAATC
* * * *
858854 GTCTTCCCAGTCAAAGTCTTGACAAAAATCTGCAT
194 GTCTTGCCGGTCAGAGTCTTGACGAAAATCTGCAT
* * * * * * * * * *
858889 CCCACCACGGAGCCTCAGAACCAGATGAAGGGTCGACTCCTTTTGAATGTTATAATCGGCCAAAG
1 ACCACCACGAAGACGCAGGACAAGGTGAAGAGTCGACTCCTTTTGAATGTTGTAATCGGCCAAGG
*
858954 TTCGACCGTCTTCAAGTTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCCGGTGGGATTCCTTCC
66 TTCGACCGTCTTCAAGTTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCCGGTGGAATTCCTTCC
* * *
859019 TTGTCTTGGATCTTCGCCTTGACATTGTCAATGGTGTCAGAGCTTTCGACTTCCAAGGTTATGGT
131 TTGTCTTGGATCTTCGCCTTGACATTGTCAATGGTGTCAGAGCTCTCGACTTCCAAGGTAATCGT
* * * * *
859084 TTTGCCGGTCAGGGTTTTGACGAAGATTTGCAT
196 CTTGCCGGTCAGAGTCTTGACGAAAATCTGCAT
* * * * * *
859117 ACCACCACGTAGACGGAGGACGAGGTGGAGAGTTGACTCCTTTTGGATGTTGTAATCGGCCAAGG
1 ACCACCACGAAGACGCAGGACAAGGTGAAGAGTCGACTCCTTTTGAATGTTGTAATCGGCCAAGG
* * * * * * * * ** *
859182 TTCGGCCGTCTTCGAGCTGTTTTCCGGCGAAGATAAGACGCTGTTGGTCCGGTGGAATTCCTTCC
66 TTCGACCGTCTTCAAGTTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCCGGTGGAATTCCTTCC
* * * * * * * * * * *
859247 TTGTCTTGGATTTTCGCCTTAACGTTGTCGATCGTGTCGGAACTCTCGACTTCGAGGGTGATTGT
131 TTGTCTTGGATCTTCGCCTTGACATTGTCAATGGTGTCAGAGCTCTCGACTTCCAAGGTAATCGT
* * *
859312 CTTGCCGGTGAGTGTCTTGACGAATATCTGCAT
196 CTTGCCGGTCAGAGTCTTGACGAAAATCTGCAT
859345 CTTGTTTGGC
Statistics
Matches: 365, Mismatches: 89, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
227 5 0.01
228 360 0.99
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.30
Consensus pattern (228 bp):
ACCACCACGAAGACGCAGGACAAGGTGAAGAGTCGACTCCTTTTGAATGTTGTAATCGGCCAAGG
TTCGACCGTCTTCAAGTTGCTTCCCAGCAAAGATAAGCCTTTGCTGGTCCGGTGGAATTCCTTCC
TTGTCTTGGATCTTCGCCTTGACATTGTCAATGGTGTCAGAGCTCTCGACTTCCAAGGTAATCGT
CTTGCCGGTCAGAGTCTTGACGAAAATCTGCAT
Found at i:863920 original size:2 final size:2
Alignment explanation
Indices: 863913--863940 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
863903 TTTTACTCAC
863913 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
863941 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:863945 original size:2 final size:2
Alignment explanation
Indices: 863940--863969 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
863930 TCTCTCTCTC
863940 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
863970 CACACACACA
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
Found at i:864867 original size:26 final size:26
Alignment explanation
Indices: 864833--864885 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
864823 GCTAAGTTTA
864833 TTATGTACAACTATTGTCAAACTCGT
1 TTATGTACAACTATTGTCAAACTCGT
864859 TTATGTACAACTATTGTCAAACTCGT
1 TTATGTACAACTATTGTCAAACTCGT
864885 T
1 T
864886 GTCCTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.40
Consensus pattern (26 bp):
TTATGTACAACTATTGTCAAACTCGT
Found at i:864959 original size:12 final size:12
Alignment explanation
Indices: 864942--864977 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
864932 GGTTCATGAA
*
864942 TACTTATAATTG
1 TACTTAAAATTG
864954 TACTTAAAATTG
1 TACTTAAAATTG
864966 TACTTAAAATTG
1 TACTTAAAATTG
864978 CTGAATCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TACTTAAAATTG
Found at i:874450 original size:20 final size:20
Alignment explanation
Indices: 874421--874469 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
874411 TACTTGTTTA
874421 ATATACATTTAACA-TATATT
1 ATATACATTTAA-ATTATATT
* *
874441 ATATATATTTAAATTTTATT
1 ATATACATTTAAATTATATT
874461 ATATACATT
1 ATATACATT
874470 ACTAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATACATTTAAATTATATT
Found at i:885593 original size:16 final size:15
Alignment explanation
Indices: 885562--885638 Score: 68
Period size: 16 Copynumber: 4.9 Consensus size: 15
885552 AGGTTTATGG
885562 TTTTAGAGTTTT-AGA
1 TTTTAG-GTTTTAAGA
885577 TTTTAGGATTTTAAGA
1 TTTTAGG-TTTTAAGA
*
885593 TTTTAAGGCTTTAAGA
1 TTTT-AGGTTTTAAGA
*
885609 TTTTAGGGCTTT-AGA
1 TTTTA-GGTTTTAAGA
885624 GTTTTAAGGTTTTAA
1 -TTTT-AGGTTTTAA
885639 AGGTTTAGGG
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
14 1 0.02
15 14 0.26
16 33 0.62
17 5 0.09
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (15 bp):
TTTTAGGTTTTAAGA
Found at i:885610 original size:32 final size:32
Alignment explanation
Indices: 885574--885638 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
885564 TTAGAGTTTT
*
885574 AGATTTTAGGATTTTA-AGATTTTAAGGCTTTA
1 AGATTTTAGGACTTTAGAG-TTTTAAGGCTTTA
* *
885606 AGATTTTAGGGCTTTAGAGTTTTAAGGTTTTA
1 AGATTTTAGGACTTTAGAGTTTTAAGGCTTTA
885638 A
1 A
885639 AGGTTTAGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 27 0.93
33 2 0.07
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (32 bp):
AGATTTTAGGACTTTAGAGTTTTAAGGCTTTA
Found at i:885643 original size:9 final size:8
Alignment explanation
Indices: 885496--885644 Score: 55
Period size: 8 Copynumber: 19.2 Consensus size: 8
885486 AGGGTCTCGC
*
885496 TTTAGGGT
1 TTTAAGGT
* *
885504 TTCAAGAT
1 TTTAAGGT
885512 TTTAAGGT
1 TTTAAGGT
*
885520 GTTAA-GT
1 TTTAAGGT
885527 TTTAAGG-
1 TTTAAGGT
*
885534 TTT--GAT
1 TTTAAGGT
* * *
885540 CTTGAGAT
1 TTTAAGGT
*
885548 TTCAAGG-
1 TTTAAGGT
*
885555 TTTATGGT
1 TTTAAGGT
885563 TTT-AGAGT
1 TTTAAG-GT
*
885571 TTT-AGAT
1 TTTAAGGT
885578 TTT-AGGAT
1 TTTAAGG-T
*
885586 TTTAAGAT
1 TTTAAGGT
*
885594 TTTAAGGC
1 TTTAAGGT
*
885602 TTTAAGAT
1 TTTAAGGT
* *
885610 TTTAGGGC
1 TTTAAGGT
885618 TTT-AGAGT
1 TTTAAG-GT
885626 TTTAAGGT
1 TTTAAGGT
885634 TTTAAAGGT
1 TTT-AAGGT
885643 TT
1 TT
885645 AGGGTTTTGA
Statistics
Matches: 102, Mismatches: 28, Indels: 21
0.68 0.19 0.14
Matches are distributed among these distances:
5 1 0.01
6 2 0.02
7 22 0.22
8 66 0.65
9 11 0.11
ACGTcount: A:0.26, C:0.03, G:0.23, T:0.48
Consensus pattern (8 bp):
TTTAAGGT
Found at i:890290 original size:8 final size:8
Alignment explanation
Indices: 890277--890329 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
890267 AATTGTAATA
890277 TTAATATT
1 TTAATATT
890285 TTAATATTTT
1 TTAATA--TT
890295 TTAATATT
1 TTAATATT
890303 TTAAT-TT
1 TTAATATT
*
890310 TAAATATT
1 TTAATATT
*
890318 TTTATAGTT
1 TTAATA-TT
890327 TTA
1 TTA
890330 CTCAAGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.16
8 19 0.51
9 4 0.11
10 8 0.22
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TTAATATT
Found at i:890300 original size:24 final size:24
Alignment explanation
Indices: 890272--890320 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
890262 AAAAAAATTG
*
890272 TAATA-TTAATATTTTAATATTTTT
1 TAATATTTAAT-TTTAAATATTTTT
890296 TAATATTTTAATTTTAAATATTTTT
1 TAATA-TTTAATTTTAAATATTTTT
890321 ATAGTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 12 0.55
26 5 0.23
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TAATATTTAATTTTAAATATTTTT
Found at i:890321 original size:24 final size:24
Alignment explanation
Indices: 890282--890329 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
890272 TAATATTAAT
890282 ATTTTAATATTTTTTAATA-TTTTA
1 ATTTTAATATTTTTT-ATAGTTTTA
890306 ATTTTAA-ATATTTTTATAGTTTTA
1 ATTTTAATAT-TTTTTATAGTTTTA
890330 CTCAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
ATTTTAATATTTTTTATAGTTTTA
Found at i:890625 original size:39 final size:38
Alignment explanation
Indices: 890510--890626 Score: 103
Period size: 42 Copynumber: 3.0 Consensus size: 38
890500 TAAACATAAA
* * *
890510 TATTTTAATATTTCAATATTAAATAGTATTA--TATTAT
1 TATTTTAATAATT-AATATTAAATAATATTATTTTTTAT
* * *
890547 TATTTTAATAATAAATAATAACATATATAATAATATTTTTAT
1 TATTTTAATAATTAATATTAA-ATA-AT-ATTAT-TTTTTAT
*
890589 TATTTTAATAATTAATGTTAAATAATATTACTTTTTTA
1 TATTTTAATAATTAATATTAAATAATATTA-TTTTTTA
890627 ATATGAATAT
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
36 7 0.11
37 14 0.22
38 1 0.02
39 12 0.19
40 3 0.05
41 3 0.05
42 23 0.37
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (38 bp):
TATTTTAATAATTAATATTAAATAATATTATTTTTTAT
Found at i:890811 original size:15 final size:15
Alignment explanation
Indices: 890773--890814 Score: 66
Period size: 17 Copynumber: 2.7 Consensus size: 15
890763 TCAATATAAA
890773 AATAAATATTTTAAT
1 AATAAATATTTTAAT
890788 AGTATAAATATTTTAAT
1 A--ATAAATATTTTAAT
890805 AATAAATATT
1 AATAAATATT
890815 GTTATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
17 15 0.60
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (15 bp):
AATAAATATTTTAAT
Found at i:890982 original size:17 final size:16
Alignment explanation
Indices: 890916--890992 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 16
890906 TTATTTTAAA
* *
890916 TAATTTTTATTAAGA-
1 TAATTATTATTAATAT
890931 TAA-TATT-TTAATAT
1 TAATTATTATTAATAT
*
890945 TAATTATTATTAAAAT
1 TAATTATTATTAATAT
*
890961 ATAATTATTCTTGAATAT
1 -TAATTATTATT-AATAT
*
890979 TAATAATT-TTAATA
1 TAATTATTATTAATA
890993 ATAAATAATT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 5 0.10
14 6 0.12
15 11 0.22
16 8 0.16
17 17 0.33
18 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (16 bp):
TAATTATTATTAATAT
Found at i:891001 original size:16 final size:16
Alignment explanation
Indices: 890892--891008 Score: 55
Period size: 16 Copynumber: 7.2 Consensus size: 16
890882 TAATATAAAG
*
890892 AATAATAAATAGTTTT
1 AATAATAAATAATTTT
**
890908 -ATTTTAAATAATTTTT
1 AATAATAAATAA-TTTT
* *
890924 ATTAAGATAAT-ATTTT
1 AATAATA-AATAATTTT
* *
890940 AAT-ATTAATTATTATT
1 AATAATAAATAATT-TT
*
890956 AA-AATATAATTATTCTT
1 AATAATA-AATAATT-TT
*
890973 GAAT-ATTAATAATTTT
1 -AATAATAAATAATTTT
*
890989 AATAATAAATAATTTC
1 AATAATAAATAATTTT
891005 AATA
1 AATA
891009 TACTTTAATA
Statistics
Matches: 75, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
14 3 0.04
15 15 0.20
16 32 0.43
17 18 0.24
18 7 0.09
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.49
Consensus pattern (16 bp):
AATAATAAATAATTTT
Found at i:891015 original size:26 final size:27
Alignment explanation
Indices: 890986--891037 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
890976 TATTAATAAT
890986 TTTAATAATAAATAA-TTTCAATATAC
1 TTTAATAATAAATAAGTTTCAATATAC
*
891012 TTTAATAATAAATAAGTTTTAATATA
1 TTTAATAATAAATAAGTTTCAATATA
891038 TTAATAGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (27 bp):
TTTAATAATAAATAAGTTTCAATATAC
Found at i:891185 original size:16 final size:17
Alignment explanation
Indices: 891164--891200 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
891154 ATTGTAAACA
891164 TTTAAAAAAATATAT-T
1 TTTAAAAAAATATATAT
*
891180 TTTAAAAAAATTTATAT
1 TTTAAAAAAATATATAT
891197 TTTA
1 TTTA
891201 TACGCTGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAAAAAATATATAT
Found at i:891369 original size:43 final size:43
Alignment explanation
Indices: 891308--891397 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
891298 GGGTAATTTT
891308 TTTAAAAAAATATTAATTTTTATATTTATTTTACGAACTAATA
1 TTTAAAAAAATATTAATTTTTATATTTATTTTACGAACTAATA
* *
891351 TTTAAAAAAATATTAATTTTTATATTTATTTTACGGACTGATA
1 TTTAAAAAAATATTAATTTTTATATTTATTTTACGAACTAATA
891394 TTTA
1 TTTA
891398 CTTAATTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (43 bp):
TTTAAAAAAATATTAATTTTTATATTTATTTTACGAACTAATA
Found at i:895204 original size:8 final size:8
Alignment explanation
Indices: 895191--895242 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
895181 AGATCTTTTT
895191 TTTCTCTC
1 TTTCTCTC
895199 TTTCTCTC
1 TTTCTCTC
895207 --TCTCTC
1 TTTCTCTC
895213 TTATC-CTC
1 TT-TCTCTC
895221 TTTCCTCTC
1 TTT-CTCTC
895230 TTTC-C-C
1 TTTCTCTC
895236 TTTCTCT
1 TTTCTCT
895243 AGAAGCCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
6 11 0.30
7 3 0.08
8 15 0.41
9 8 0.22
ACGTcount: A:0.02, C:0.40, G:0.00, T:0.58
Consensus pattern (8 bp):
TTTCTCTC
Found at i:895318 original size:20 final size:20
Alignment explanation
Indices: 895276--895339 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
895266 TGTTTCACCA
* * * *
895276 AAAACTAAAAAAACCCGTCG
1 AAAACTGAAAAAACTCATTG
*
895296 AAAACTGAAAAAATTCATTG
1 AAAACTGAAAAAACTCATTG
* *
895316 AAAATTGGAAAAACTCATTG
1 AAAACTGAAAAAACTCATTG
895336 AAAA
1 AAAA
895340 ATATGAATGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.56, C:0.14, G:0.11, T:0.19
Consensus pattern (20 bp):
AAAACTGAAAAAACTCATTG
Found at i:895824 original size:4 final size:4
Alignment explanation
Indices: 895815--895856 Score: 66
Period size: 4 Copynumber: 10.5 Consensus size: 4
895805 ATAATCAACC
* *
895815 AAAT AAAT AAAT ACAT AAAT ACAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
895857 TGAATAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:896271 original size:43 final size:43
Alignment explanation
Indices: 896069--896410 Score: 214
Period size: 43 Copynumber: 8.0 Consensus size: 43
896059 AATATAAAAA
* ** *
896069 CTCCTCTAAACAGAAGCTTGA-AACTTTTGAAAAATATATAAGG
1 CTCCTCTAAATAGAAGCTCAACAAC-TTTGAAAAATAAATAAGG
** * * * * * *
896112 CTTTTCGAAACAAAAGCTCAACAATTTTTG-GAAATAAATAAAG
1 CTCCTCTAAATAGAAGCTCAACAA-CTTTGAAAAATAAATAAGG
* * ** **
896155 CTTCC-ATAAATAGACGCTCATGATTTTTTG-AAAATAAATAAGG
1 C-TCCTCTAAATAGAAGCTCAACA-ACTTTGAAAAATAAATAAGG
* ** * * * *
896198 CTTCTCTAAACTCAG--GCTCATGAATTTTTGAAAAGTAGATAAAG
1 CTCCTCTAAA-T-AGAAGCTCAACAA-CTTTGAAAAATAAATAAGG
* * *
896242 CTCCTCTAAATAGAGGTTCAACAACTTTGAAAAAT-AACAAGG
1 CTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAATAAGG
* * * *
896284 CTCCTTTAAGTAG-AGTTTTAACAACTTTGAAAAATAAATAAGG
1 CTCCTCTAAATAGAAG-CTCAACAACTTTGAAAAATAAATAAGG
* *
896327 CTTCTCTAAATAGAAACTCAACAACTTTGAAAAATAAATAAGG
1 CTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAATAAGG
* * * *
896370 TTCCTCTAAACAGAAGCTCAACGACTTCGAAAAATAAATAA
1 CTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAATAA
896411 AACTCCTCAA
Statistics
Matches: 231, Mismatches: 54, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
41 1 0.00
42 37 0.16
43 157 0.68
44 34 0.15
45 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (43 bp):
CTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAATAAGG
Found at i:896665 original size:33 final size:33
Alignment explanation
Indices: 896619--896689 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
896609 TCCTAAATTC
* * *
896619 ATGCACTAGACATTCTCAAATGCAATGCATGTT
1 ATGCACTAAACATTCACAAATGCAATGCATGCT
*
896652 ATGCACTAAACATTCAGAAATGCAATGCATGCT
1 ATGCACTAAACATTCACAAATGCAATGCATGCT
896685 ATGCA
1 ATGCA
896690 AATGTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (33 bp):
ATGCACTAAACATTCACAAATGCAATGCATGCT
Found at i:905094 original size:14 final size:13
Alignment explanation
Indices: 905069--905111 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
905059 AACTTGAGTC
905069 TTCTTTTTTATTT
1 TTCTTTTTTATTT
905082 TTCTTTATTTATTT
1 TTCTTT-TTTATTT
* *
905096 TATTTTTTTTCTTT
1 T-TCTTTTTTATTT
905110 TT
1 TT
905112 TAAGCATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 7 0.27
14 15 0.58
15 4 0.15
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (13 bp):
TTCTTTTTTATTT
Found at i:905105 original size:9 final size:9
Alignment explanation
Indices: 905072--905112 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
905062 TTGAGTCTTC
905072 TTTTTTATT
1 TTTTTTATT
905081 TTTCTTTATT
1 TTT-TTTATT
*
905091 TATTTTATT
1 TTTTTTATT
*
905100 TTTTTTCTT
1 TTTTTTATT
905109 TTTT
1 TTTT
905113 AAGCATAGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.10, C:0.05, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTATT
Found at i:912395 original size:25 final size:25
Alignment explanation
Indices: 912358--912411 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
912348 TTTGAACTTT
*
912358 GAGTACCATAATTGCATTATCATTA
1 GAGTACCACAATTGCATTATCATTA
*
912383 GAGTACGACAATTGCATTATCATTA
1 GAGTACCACAATTGCATTATCATTA
912408 GAGT
1 GAGT
912412 TGCTATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (25 bp):
GAGTACCACAATTGCATTATCATTA
Found at i:916141 original size:3 final size:3
Alignment explanation
Indices: 916128--916159 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
916118 GAAATATAAA
916128 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
916160 GAAACCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:916396 original size:4 final size:4
Alignment explanation
Indices: 916373--916420 Score: 53
Period size: 4 Copynumber: 11.5 Consensus size: 4
916363 AATACTTATA
*
916373 AAAT AAAT ATAAT AACT AAAT AAAT AAAT AAAAT AAAAT AAA- AAAT AA
1 AAAT AAAT A-AAT AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AA
916421 CAAAAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 23 0.59
5 13 0.33
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:916418 original size:21 final size:20
Alignment explanation
Indices: 916372--916420 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
916362 AAATACTTAT
* *
916372 AAAATAAATATAATAACTAA
1 AAAATAAATAAAATAAATAA
916392 ATAAATAAATAAAATAAAATAA
1 A-AAATAAATAAAAT-AAATAA
916414 AAAATAA
1 AAAATAA
916421 CAAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATAAATAAAATAAATAA
Found at i:916428 original size:17 final size:18
Alignment explanation
Indices: 916370--916420 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
916360 AAAAATACTT
916370 ATAAAATAAATATAAT-AA
1 ATAAAATAAATA-AATAAA
*
916388 CT-AAATAAATAAATAAA
1 ATAAAATAAATAAATAAA
916405 ATAAAATAAA-AAATAA
1 ATAAAATAAATAAATAA
916421 CAAAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 3 0.10
17 18 0.62
18 8 0.28
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
ATAAAATAAATAAATAAA
Found at i:917269 original size:21 final size:21
Alignment explanation
Indices: 917227--917269 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
917217 AGCTAAAGAT
*
917227 AAATCAAATGAAAAAAATAAA
1 AAATCAAATGAAAAAAAGAAA
*
917248 AAATCAAAT-ATAAACAAGAAA
1 AAATCAAATGA-AAAAAAGAAA
917269 A
1 A
917270 CAAATAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (21 bp):
AAATCAAATGAAAAAAAGAAA
Found at i:917302 original size:28 final size:27
Alignment explanation
Indices: 917237--917313 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 27
917227 AAATCAAATG
917237 AAAAAAATAAA-AAATCAAAT-ATAAAC
1 AAAAAAATAAATAAAT-AAATAATAAAC
* * * *
917263 AAGAAAACAAATAAATGAATAATCAACC
1 AAAAAAATAAATAAATAAATAAT-AAAC
917291 AAAAAAATAAATAAATAAATAAT
1 AAAAAAATAAATAAATAAATAAT
917314 GAATAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.29
27 6 0.15
28 23 0.56
ACGTcount: A:0.73, C:0.08, G:0.03, T:0.17
Consensus pattern (27 bp):
AAAAAAATAAATAAATAAATAATAAAC
Found at i:919866 original size:4 final size:4
Alignment explanation
Indices: 919859--919889 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
919849 TGTATATATA
919859 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAG
1 TAGT TAGT TAGT TAGT TAGT TAGT TAGT TAG
919890 AGGATATAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
TAGT
Found at i:920239 original size:15 final size:14
Alignment explanation
Indices: 920219--920256 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
920209 AAATTTTGAT
920219 ATATTTTTTAGATAA
1 ATATTTTTTA-ATAA
920234 ATA-TTTTTAATAA
1 ATATTTTTTAATAA
*
920247 AAATTTTTTA
1 ATATTTTTTA
920257 TAGTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 12 0.57
15 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
ATATTTTTTAATAA
Found at i:920438 original size:14 final size:14
Alignment explanation
Indices: 920419--920447 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
920409 AAAAGTTCAC
920419 AAACTTCATTTAAA
1 AAACTTCATTTAAA
920433 AAACTTCATTTAAA
1 AAACTTCATTTAAA
920447 A
1 A
920448 TTTATCCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (14 bp):
AAACTTCATTTAAA
Found at i:923256 original size:30 final size:30
Alignment explanation
Indices: 923214--923273 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
923204 TTTGTCATAC
* *
923214 TTCTTATTTTCAGCCTCTCTATCGAGATGT
1 TTCTTATTTTCAGCCTCGCTATAGAGATGT
923244 TTCTT-TTATTCAGCCTCGCTATAGAGATGT
1 TTCTTATT-TTCAGCCTCGCTATAGAGATGT
923274 GTGGGACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.18, C:0.22, G:0.15, T:0.45
Consensus pattern (30 bp):
TTCTTATTTTCAGCCTCGCTATAGAGATGT
Found at i:925816 original size:2 final size:2
Alignment explanation
Indices: 925811--925843 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
925801 GCAATTCTAC
*
925811 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
925844 TGAGAGATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:933799 original size:2 final size:2
Alignment explanation
Indices: 933794--933830 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
933784 CATATAAATA
933794 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
933831 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:936076 original size:12 final size:12
Alignment explanation
Indices: 936055--936097 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
936045 TATTTAACGA
*
936055 TAAAAATTTTAT
1 TAAAATTTTTAT
936067 TAAAATTTTTAT
1 TAAAATTTTTAT
936079 TAAAATTGTTTAT
1 TAAAATT-TTTAT
936092 CTAAAA
1 -TAAAA
936098 AAAAATCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
12 18 0.64
13 5 0.18
14 5 0.18
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (12 bp):
TAAAATTTTTAT
Found at i:936187 original size:14 final size:13
Alignment explanation
Indices: 936155--936194 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
936145 TTATTGATTT
936155 TAATTTTTAATAA
1 TAATTTTTAATAA
*
936168 TAATTTTTATTCAA
1 TAATTTTTAAT-AA
*
936182 TCATTTTTAATAA
1 TAATTTTTAATAA
936195 AAAAAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATTTTTAATAA
Found at i:942964 original size:26 final size:27
Alignment explanation
Indices: 942934--942984 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
942924 TAAATATCTC
942934 TATTCGAATCTATTT-AATATTTATAA
1 TATTCGAATCTATTTAAATATTTATAA
*
942960 TATTCGAATCTTTTTAAATATTTAT
1 TATTCGAATCTATTTAAATATTTAT
942985 TTAAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (27 bp):
TATTCGAATCTATTTAAATATTTATAA
Found at i:943337 original size:21 final size:22
Alignment explanation
Indices: 943313--943357 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
943303 CCATTATGAA
943313 TAATAAATTT-TTTATTTA-AAT
1 TAAT-AATTTATTTATTTATAAT
*
943334 TAATTATTTATTTATTTATAAT
1 TAATAATTTATTTATTTATAAT
943356 TA
1 TA
943358 TCCGAATCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 12 0.57
22 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TAATAATTTATTTATTTATAAT
Found at i:945987 original size:20 final size:21
Alignment explanation
Indices: 945949--945987 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
945939 TTAACTGTTA
945949 AAAATATTAAATATTTTAAAT
1 AAAATATTAAATATTTTAAAT
945970 AAAAT-TTACAAT-TTTTAA
1 AAAATATTA-AATATTTTAA
945988 TACTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATATTAAATATTTTAAAT
Found at i:946661 original size:20 final size:20
Alignment explanation
Indices: 946638--946675 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
946628 TAATTGTTAA
946638 AAATATTA-AATATTTTAAAT
1 AAATATTACAAT-TTTTAAAT
*
946658 AAATTTTACAATTTTTAA
1 AAATATTACAATTTTTAA
946676 TACTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATATTACAATTTTTAAAT
Found at i:946915 original size:21 final size:21
Alignment explanation
Indices: 946889--946937 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
946879 ATAATTAATT
* *
946889 TTAATTTCAATCTTATACTAA
1 TTAATTTCAATATTATAATAA
* *
946910 TTAATTTTATTATTATAATAA
1 TTAATTTCAATATTATAATAA
946931 TTAATTT
1 TTAATTT
946938 TATTTTTATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAATTTCAATATTATAATAA
Found at i:946938 original size:21 final size:21
Alignment explanation
Indices: 946901--946946 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
946891 AATTTCAATC
*
946901 TTATACTAATTAATTTTATTA
1 TTATAATAATTAATTTTATTA
*
946922 TTATAATAATTAATTTTATTT
1 TTATAATAATTAATTTTATTA
946943 TTAT
1 TTAT
946947 CATTATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
TTATAATAATTAATTTTATTA
Found at i:946962 original size:18 final size:18
Alignment explanation
Indices: 946930--946964 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
946920 TATTATAATA
*
946930 ATTAATTTTATTTTTATC
1 ATTAATTTTAATTTTATC
*
946948 ATTATTTTTAATTTTAT
1 ATTAATTTTAATTTTAT
946965 TAAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTAATTTTAATTTTATC
Found at i:949241 original size:16 final size:16
Alignment explanation
Indices: 949220--949281 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
949210 AAATATTATT
949220 TTTAAAATATTAAATA
1 TTTAAAATATTAAATA
949236 TTT-AAA-A-TAAAT-
1 TTTAAAATATTAAATA
* * *
949248 TTTACAATTTTTAATA
1 TTTAAAATATTAAATA
* *
949264 TTTAAAATTTTAATTA
1 TTTAAAATATTAAATA
949280 TT
1 TT
949282 ATTTTAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 1 0.03
15 7 0.19
16 18 0.50
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTAAAATATTAAATA
Found at i:949511 original size:21 final size:21
Alignment explanation
Indices: 949487--949526 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
949477 AATATCAACA
* *
949487 TTATAGTAATCAATCTCACTG
1 TTATAATAACCAATCTCACTG
949508 TTATAATAACCAATCTCAC
1 TTATAATAACCAATCTCAC
949527 CTCTCACATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.35
Consensus pattern (21 bp):
TTATAATAACCAATCTCACTG
Found at i:951206 original size:55 final size:55
Alignment explanation
Indices: 951115--951220 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
951105 CCTATGCATG
* * *
951115 ATACCTATGTAGATCATCTCAGTCTCTTTCAGTCCACTCAAATATACACACTACC
1 ATACCTATGTAGACCATCTCAGTCTCTTTCAATCCACCCAAATATACACACTACC
* *
951170 ATACCTATGTGGACCATCTCATTCT-TTTCTAATCCACCCAAATATACACAC
1 ATACCTATGTAGACCATCTCAGTCTCTTTC-AATCCACCCAAATATACACAC
951221 CTATAAGGAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
54 4 0.09
55 41 0.91
ACGTcount: A:0.31, C:0.31, G:0.07, T:0.31
Consensus pattern (55 bp):
ATACCTATGTAGACCATCTCAGTCTCTTTCAATCCACCCAAATATACACACTACC
Found at i:951692 original size:883 final size:881
Alignment explanation
Indices: 950547--952273 Score: 1985
Period size: 883 Copynumber: 2.0 Consensus size: 881
950537 CAATCACAAG
* * * *
950547 CAAATTTGTTATGGGATTTAAGTCATTATTCTCAACAATCTCCACCTTGACTCAAATTTCATTAA
1 CAAATCTGTTAGGGGATTTAAGTCACTATTCTCAACAATCTCCACCTTGACTCAAATTTCATCAA
* **
950612 ATCATCTATCTTCATGTTAGATATGCTTGGCTCTACCTATTATGAAAGTCTCACAATCATCTTCT
66 ATCATCTATCTTCATGCTAGATATGCTTGGCTCTACCTACCATGAAAGTCTCACAATCATCTTCT
* ** *
950677 CTTGTGTGCCTTCACGCTTCATACAAACCGATCTTCAAAACACAAACTTGAATTTCTTTCTTAAG
131 CTTGTATGCCTTCACGCTTCATACAAACCGATCTTCAAAACACAAACTCAAACTTCTTTCTTAAG
* * * ** *
950742 TCGAGCTCATCTGAACTTGTCTCTTCCTATTTCTCAAACCATACTTTGATACCACTTGTTAGGGA
196 TCAAGCTCATATGAACTTATCTCTTCCTATGCCTCAAACCATACTTTAATACCACTTGTTAGGGA
* * * * * ** * *
950807 TCACTAAAACTTTGATGCCACTTATTAGGCTAAAAGTTCTAATCCAATCAAATATCAAAGTCAAC
261 TCACCAAAACTCTAATACCACTTATTAAGCTAAAAACTCTAATCCAATCAAACATAAAAGTCAAC
* * * *
950872 ATAAGTAAAATCAAATAATTAATCAATCAATCACATAAGAGA-TAATAATTTAACATGGTTTGGT
326 AGAAGTAAAATCAAATAATTAATCAATCAATCACACAAAAGACT-ATAATTTAACATGGTTTGAT
* * * *
950936 -TCAACTGACTTATA--TCTCA-GGATAAAAAATAAGATCTACTAGTTGTAGAA-AATTACAAAC
390 CT-AA-TCAATT-TACGTC-CATAGATAAAAAATAAGATCTACTAGTTATA-AAGAATTACAAAC
* * ** * *
950996 ATACAAATCATATATTAACCTCACTTAACAATCAATACCCATAAACTTTCTCAATCTCCTTTAGT
450 ATACAAATC--ATATCAACCTCACTCAACAATCAATACCCATAAACCATCTCAATCTCATCTAGT
** * * * * *
951061 TTTATAAAGTATTATCAATCTAAACAAACACATA-CCTATGTGCA-CCTATGCATGATACCTATG
513 CCTATAAAGTATTATCAACCGAAACAAACACATATCC-ATGTGCATAC-ATGCATCATACCTATA
* * * *
951124 TAGATCATCTCAGTCTCTT-TCAGTCCACTCAAATATACACACTACCATACCTATGTGGACCATC
576 TAGATCATCTCAATCTCTTCT-AGTCCACTCAAACATACACACCACCATACCTATGTGGACAATC
* * *
951188 TCATTCTTTTCTAATCCACCCAAATATACACA-CCTATAAGGACATTAAAT-TCTCAGTAGTCCT
640 TCATTCTCTTCTAATCCACCCAAACATACACATCC-ATAAAGACATTAAATCTCT-AGTAGT-CT
*
951251 ATAAGGTATCTATCTCGTAAAACTCTATAACTCTCTTATAT-TTTTTTCTCATATC-TAACCCTA
702 ATAAGGTATCTATCTCATAAAACTCTATAACTCTCTTATATCTTTTTTCTCATA-CATAACCCTA
* *
951314 TAAAGACTTCA-CATATTTATAAGCATACAAATTTACCTAATAAGAAAACCTTTTC-TCTTAAAA
766 TAAAGACTTCATC-TATTTATAAACATACAAACTTACCTAATAA-AAAACCTTTTCTTCTTAAAA
*
951377 TTATTT-TTTTACAAGTTTTCTTGTCTATTAAATAATATCCAACCAAATCTAAA
829 TT-TTTCTTCTACAAGTTTTCTTGTCTATTAAATAATATCCAACCAAATCTAAA
* ** *
951430 CAAATCTGTTAGGGGATTTAAGTCACTATTCTTAACAATCTTTACCTTGGCTCAAATTTCATCAA
1 CAAATCTGTTAGGGGATTTAAGTCACTATTCTCAACAATCTCCACCTTGACTCAAATTTCATCAA
* * ** * * * * * *
951495 ATCATTTATTTTTGTGCTAGATATGTTTGGCTCTACCTACCGTGAAAGTTTTACAATCATTTTTT
66 ATCATCTATCTTCATGCTAGATATGCTTGGCTCTACCTACCATGAAAGTCTCACAATCATCTTCT
* * * * * * * *
951560 CTTGTATGTCTTTACGTTTCATGCAAATCGATTTTTAAAACACAAACTCAAACTTCTTTCTTGAG
131 CTTGTATGCCTTCACGCTTCATACAAACCGATCTTCAAAACACAAACTCAAACTTCTTTCTTAAG
* * * * * ** *
951625 TCAAGCTCATATGGATTTATCCTTTTCC-ATGCCTCGAATCATGTTTTAATATCACTTGTTAGGG
196 TCAAGCTCATATGAACTTAT-CTCTTCCTATGCCTCAAACCATACTTTAATACCACTTGTTAGGG
* * * *
951689 ATCACCATAGCTCTAATACCACTTGTTAAGCTAAAAACTCTAATCTAATCAAACATAAAAGTCAA
260 ATCACCAAAACTCTAATACCACTTATTAAGCTAAAAACTCTAATCCAATCAAACATAAAAGTCAA
** * * *
951754 TGGAAGTAAAATCAAATAATTAATTAATCAATCACACAAAAGACTGTAATTTAACGTGGTTTGAT
325 CAGAAGTAAAATCAAATAATTAATCAATCAATCACACAAAAGACTATAATTTAACATGGTTTGAT
* *
951819 CTAATCAATTTACGTCCATAGATAAAAAATAAGATTTACTAGTTATAAAGAATTACAAACATATA
390 CTAATCAATTTACGTCCATAGATAAAAAATAAGATCTACTAGTTATAAAGAATTACAAACATACA
* ** * * * *
951884 AATCATATCAACCTCACTCAATAATCAATACTTATAGACCATCTTAATCTTATCTAGTCCTATGA
455 AATCATATCAACCTCACTCAACAATCAATACCCATAAACCATCTCAATCTCATCTAGTCCTATAA
* * * *
951949 AGTATTTTCAACCGAAATAAACACATATCCATGTGCATACATGCATCATACTTATATGGATCATC
520 AGTATTATCAACCGAAACAAACACATATCCATGTGCATACATGCATCATACCTATATAGATCATC
* * * *
952014 TCAATTTCTTCTAGTCCATTCAAACATACACACCATCATACCTATGTGGACAATGTCATTCTCTT
585 TCAATCTCTTCTAGTCCACTCAAACATACACACCACCATACCTATGTGGACAATCTCATTCTCTT
* ** * * *
952079 CTAATTCACTTAAACATACACATCCATAAAGACGTTAAATCTCTAGTAGTCTATAGGGTGTCTAT
650 CTAATCCACCCAAACATACACATCCATAAAGACATTAAATCTCTAGTAGTCTATAAGGTATCTAT
* * * * * *
952144 CTCATAAAATTTTATAACTCTCTTATATCTTTTTTTTTATACATAACCTTATACAGACTTCATCT
715 CTCATAAAACTCTATAACTCTCTTATATCTTTTTTCTCATACATAACCCTATAAAGACTTCATCT
* * ** *
952209 ATTTATAAACATACAAACTTGCCTATTAAAAATTCTTTTCTTCTTAGAATTTTTCTTCTACAAGT
780 ATTTATAAACATACAAACTTACCTAATAAAAAACCTTTTCTTCTTAAAATTTTTCTTCTACAAGT
952274 CAAACTTGCC
Statistics
Matches: 696, Mismatches: 131, Indels: 36
0.81 0.15 0.04
Matches are distributed among these distances:
880 51 0.07
881 261 0.38
882 18 0.03
883 358 0.51
884 8 0.01
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.36
Consensus pattern (881 bp):
CAAATCTGTTAGGGGATTTAAGTCACTATTCTCAACAATCTCCACCTTGACTCAAATTTCATCAA
ATCATCTATCTTCATGCTAGATATGCTTGGCTCTACCTACCATGAAAGTCTCACAATCATCTTCT
CTTGTATGCCTTCACGCTTCATACAAACCGATCTTCAAAACACAAACTCAAACTTCTTTCTTAAG
TCAAGCTCATATGAACTTATCTCTTCCTATGCCTCAAACCATACTTTAATACCACTTGTTAGGGA
TCACCAAAACTCTAATACCACTTATTAAGCTAAAAACTCTAATCCAATCAAACATAAAAGTCAAC
AGAAGTAAAATCAAATAATTAATCAATCAATCACACAAAAGACTATAATTTAACATGGTTTGATC
TAATCAATTTACGTCCATAGATAAAAAATAAGATCTACTAGTTATAAAGAATTACAAACATACAA
ATCATATCAACCTCACTCAACAATCAATACCCATAAACCATCTCAATCTCATCTAGTCCTATAAA
GTATTATCAACCGAAACAAACACATATCCATGTGCATACATGCATCATACCTATATAGATCATCT
CAATCTCTTCTAGTCCACTCAAACATACACACCACCATACCTATGTGGACAATCTCATTCTCTTC
TAATCCACCCAAACATACACATCCATAAAGACATTAAATCTCTAGTAGTCTATAAGGTATCTATC
TCATAAAACTCTATAACTCTCTTATATCTTTTTTCTCATACATAACCCTATAAAGACTTCATCTA
TTTATAAACATACAAACTTACCTAATAAAAAACCTTTTCTTCTTAAAATTTTTCTTCTACAAGTT
TTCTTGTCTATTAAATAATATCCAACCAAATCTAAA
Found at i:954150 original size:16 final size:16
Alignment explanation
Indices: 954110--954152 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
954100 AGCAATTGTA
* *
954110 TCACTTTTTCCTTCAT
1 TCACTTTTTTCATCAT
*
954126 TCGATTTTTTTCATCAT
1 TC-ACTTTTTTCATCAT
954143 TCACTTTTTT
1 TCACTTTTTT
954153 TAAAGCAACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.14, C:0.23, G:0.02, T:0.60
Consensus pattern (16 bp):
TCACTTTTTTCATCAT
Found at i:970990 original size:2 final size:2
Alignment explanation
Indices: 970983--971017 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
970973 TATTACACAA
970983 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
971018 TCATGTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:975519 original size:21 final size:21
Alignment explanation
Indices: 975495--975538 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
975485 CCGCATTAAA
975495 ATCAAATTGCAACGATTTCTC
1 ATCAAATTGCAACGATTTCTC
*
975516 ATCAAATTGCAATGATTTCTC
1 ATCAAATTGCAACGATTTCTC
975537 AT
1 AT
975539 GACTCCTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (21 bp):
ATCAAATTGCAACGATTTCTC
Found at i:1002867 original size:10 final size:11
Alignment explanation
Indices: 1002803--1002861 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 11
1002793 TACTAATATT
1002803 TTTATTAAAAA
1 TTTATTAAAAA
*
1002814 TATCTATAAAAAAA
1 T-T-TAT-TAAAAA
1002828 TTTATATATCAAAA
1 TTTAT-TA--AAAA
1002842 TTTATTAAAAA
1 TTTATTAAAAA
1002853 TTTATTAAA
1 TTTATTAAA
1002862 TTTTATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 14 0.34
12 6 0.15
13 6 0.15
14 15 0.37
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
TTTATTAAAAA
Found at i:1002911 original size:14 final size:14
Alignment explanation
Indices: 1002892--1002923 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1002882 TAATAAAACT
1002892 TTTTAATTTATTAA
1 TTTTAATTTATTAA
*
1002906 TTTTAATTTATTTA
1 TTTTAATTTATTAA
1002920 TTTT
1 TTTT
1002924 TTATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTAATTTATTAA
Found at i:1012458 original size:22 final size:23
Alignment explanation
Indices: 1012433--1012477 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
1012423 AGAAATAAAG
*
1012433 TTAGTCCATTCAATATG-CCCAC
1 TTAGTCCATTCAACATGACCCAC
1012455 TTAGTCCATTCAACATGACCCAC
1 TTAGTCCATTCAACATGACCCAC
1012478 CAACTAGTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.33, G:0.09, T:0.29
Consensus pattern (23 bp):
TTAGTCCATTCAACATGACCCAC
Found at i:1021231 original size:15 final size:15
Alignment explanation
Indices: 1021207--1021236 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1021197 TGTTATGGAA
1021207 AAAATAAAAAAAATT
1 AAAATAAAAAAAATT
*
1021222 AAAATGAAAAAAATT
1 AAAATAAAAAAAATT
1021237 GGCTCAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (15 bp):
AAAATAAAAAAAATT
Found at i:1029719 original size:40 final size:40
Alignment explanation
Indices: 1029664--1029744 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
1029654 GCACTGCCGG
*
1029664 TGATATAAAACCACACATGATTGATTTCTTATTGGTAAAT
1 TGATAGAAAACCACACATGATTGATTTCTTATTGGTAAAT
1029704 TGATAGAAAACCACACATGATTGATTTCTTATTGGTAAAT
1 TGATAGAAAACCACACATGATTGATTTCTTATTGGTAAAT
1029744 T
1 T
1029745 ATATATAGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (40 bp):
TGATAGAAAACCACACATGATTGATTTCTTATTGGTAAAT
Found at i:1030796 original size:24 final size:24
Alignment explanation
Indices: 1030769--1030815 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1030759 ATTATAACCA
*
1030769 TTTGTTCTGTATTTTACTATGTTT
1 TTTGTTCTGTATTTTAATATGTTT
1030793 TTTGTTCTGTATTTTAATATGTT
1 TTTGTTCTGTATTTTAATATGTT
1030816 GCAGTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.15, C:0.06, G:0.13, T:0.66
Consensus pattern (24 bp):
TTTGTTCTGTATTTTAATATGTTT
Found at i:1033391 original size:28 final size:28
Alignment explanation
Indices: 1033338--1033391 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
1033328 TATTTTGGTA
* *
1033338 TTTTTATTTTTTTGTTTTCCTTTTTAAT
1 TTTTTATTTTATTGATTTCCTTTTTAAT
*
1033366 TTTTTA-TTTATTGATTTGCTTATTTA
1 TTTTTATTTTATTGATTTCCTT-TTTA
1033392 TTAATTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTTTATTTTATTGATTTCCTTTTTAAT
Found at i:1034041 original size:34 final size:34
Alignment explanation
Indices: 1033971--1034061 Score: 83
Period size: 34 Copynumber: 2.7 Consensus size: 34
1033961 AGATTAATTG
* ** *
1033971 ATACTATCTTTGGATGGACCTTATGAGAGTGCTA
1 ATACTATCTTTGGATGAAAATTATGAGAGTACTA
* * *
1034005 ATACTATTTTTGGATGAAAATTGTGAGAGTATTA
1 ATACTATCTTTGGATGAAAATTATGAGAGTACTA
* * **
1034039 ATATTTTCTTTACATGAAAATTA
1 ATACTATCTTTGGATGAAAATTA
1034062 ATAATATAAT
Statistics
Matches: 44, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
34 44 1.00
ACGTcount: A:0.33, C:0.09, G:0.18, T:0.41
Consensus pattern (34 bp):
ATACTATCTTTGGATGAAAATTATGAGAGTACTA
Found at i:1034401 original size:29 final size:29
Alignment explanation
Indices: 1034369--1034427 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
1034359 AAAATAAAAT
*
1034369 AAAATATATAA-TAATAAA-TAAAAACATAA
1 AAAATATAAAAGTAA-AAATTAAAAA-ATAA
1034398 AAAATATAAAAGTAAAAATTAAAAAATAA
1 AAAATATAAAAGTAAAAATTAAAAAATAA
1034427 A
1 A
1034428 TTATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (29 bp):
AAAATATAAAAGTAAAAATTAAAAAATAA
Found at i:1034413 original size:15 final size:14
Alignment explanation
Indices: 1034362--1034427 Score: 55
Period size: 15 Copynumber: 4.7 Consensus size: 14
1034352 ATCAAATAAA
*
1034362 ATAAAATAAAATAT
1 ATAAAATAAAAAAT
*
1034376 ATAATAATAAATAA-
1 ATAA-AATAAAAAAT
*
1034390 A-AACATAAAAAAT
1 ATAAAATAAAAAAT
*
1034403 ATAAAAGTAAAAATT
1 ATAAAA-TAAAAAAT
*
1034418 AAAAAATAAA
1 ATAAAATAAA
1034428 TTATTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
12 7 0.17
13 3 0.07
14 12 0.29
15 19 0.46
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
ATAAAATAAAAAAT
Found at i:1035973 original size:26 final size:26
Alignment explanation
Indices: 1035914--1035967 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
1035904 AGATTTTGAT
1035914 TTCAATTTAAATAATTATCTAAAATA
1 TTCAATTTAAATAATTATCTAAAATA
1035940 TTCAATTTAAATAATTTAT-TAAAATA
1 TTCAATTTAAATAA-TTATCTAAAATA
1035966 TT
1 TT
1035968 TTATTTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (26 bp):
TTCAATTTAAATAATTATCTAAAATA
Found at i:1036370 original size:17 final size:16
Alignment explanation
Indices: 1036344--1036402 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
1036334 TGAATTAATA
*
1036344 TTTTTATTTTTATTTT
1 TTTTTGTTTTTATTTT
*
1036360 GTTTTTGTTTTTCTTTT
1 -TTTTTGTTTTTATTTT
* *
1036377 AATTTTGATTTTATTTT
1 -TTTTTGTTTTTATTTT
1036394 TTATTTGTT
1 TT-TTTGTT
1036403 GATTTGCTCA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
16 1 0.03
17 32 0.97
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTGTTTTTATTTT
Found at i:1036376 original size:23 final size:23
Alignment explanation
Indices: 1036342--1036399 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
1036332 TTTGAATTAA
* *
1036342 TATTTTTATTTTTATTTTGTTTT
1 TATTTTTATTTTAATTTTGATTT
* *
1036365 TGTTTTTCTTTTAATTTTGATTT
1 TATTTTTATTTTAATTTTGATTT
1036388 TATTTTTTATTT
1 TA-TTTTTATTT
1036400 GTTGATTTGC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (23 bp):
TATTTTTATTTTAATTTTGATTT
Found at i:1037715 original size:13 final size:13
Alignment explanation
Indices: 1037699--1037723 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1037689 TAATAAATAC
1037699 AATAAAAAAATTT
1 AATAAAAAAATTT
1037712 AATAAAAAAATT
1 AATAAAAAAATT
1037724 ATCACCCCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAAAAAATTT
Found at i:1038863 original size:15 final size:15
Alignment explanation
Indices: 1038841--1038884 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
1038831 ATATTCATAA
1038841 ATAA-TAAATAAATT
1 ATAATTAAATAAATT
1038855 ATAATTAAATAAATT
1 ATAATTAAATAAATT
*
1038870 TTAAATTAACATAAA
1 AT-AATTAA-ATAAA
1038885 AGAATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 4 0.15
15 11 0.42
16 6 0.23
17 5 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATTAAATAAATT
Found at i:1038983 original size:11 final size:11
Alignment explanation
Indices: 1038952--1038985 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1038942 TAATATTATT
*
1038952 ATAAATAAACA
1 ATAAATAAATA
*
1038963 GTAAATAAATA
1 ATAAATAAATA
1038974 ATAAATAAATA
1 ATAAATAAATA
1038985 A
1 A
1038986 ATTTTAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (11 bp):
ATAAATAAATA
Found at i:1042808 original size:20 final size:19
Alignment explanation
Indices: 1042783--1042825 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1042773 AATAAAATAT
*
1042783 TATTTTTTAAAATATAAAA
1 TATTTTTTTAAATATAAAA
1042802 TATTTTTTTAAATATAAAA
1 TATTTTTTTAAATATAAAA
1042821 TATTT
1 TATTT
1042826 AAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTTTTTAAATATAAAA
Found at i:1042831 original size:8 final size:8
Alignment explanation
Indices: 1042810--1042859 Score: 57
Period size: 8 Copynumber: 6.4 Consensus size: 8
1042800 AATATTTTTT
1042810 TAAATATA
1 TAAATATA
*
1042818 -AAATATT
1 TAAATATA
1042825 TAAATATA
1 TAAATATA
*
1042833 TAATTATA
1 TAAATATA
*
1042841 TATATATA
1 TAAATATA
*
1042849 TAAATAAA
1 TAAATATA
1042857 TAA
1 TAA
1042860 TTTAAAAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
7 6 0.18
8 28 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:1047697 original size:14 final size:15
Alignment explanation
Indices: 1047678--1047710 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1047668 ACATGATTAG
1047678 AAAAAATAATTAT-T
1 AAAAAATAATTATAT
*
1047692 AAAAAATGATTATAT
1 AAAAAATAATTATAT
1047707 AAAA
1 AAAA
1047711 TTAATAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (15 bp):
AAAAAATAATTATAT
Found at i:1048354 original size:108 final size:105
Alignment explanation
Indices: 1048102--1048352 Score: 240
Period size: 108 Copynumber: 2.4 Consensus size: 105
1048092 CAAATTTGTA
* * * * *
1048102 ATTTTCATATAAATATAGATA-TTTTTTATTAA-TTTTACATGCAAACATTTCTTTTTTACTAGT
1 ATTTTCCTATAAATATAGAAACTTTTTTATTAATTTTTACATACAAACATTTCTTTTTCACTAAT
* * * *
1048165 TGTTTTTTTATAATAGTATTAAATAATTAATTTTTTTTATT
66 TG-TTATTTATAATAGCATCAAATAATTAATTCTTTTTATT
* * * ** * *
1048206 AATTTCCAATATATATGAGCATCTCTTTTTTATT-ATTTTTACATATAGACATTTCTTTTTCACT
1 ATTTTCCTATAAATAT-AG-A-AACTTTTTTATTAATTTTTACATACAAACATTTCTTTTTCACT
* * *
1048270 AATTAG-TATTTATTATGGCATCAAATAGTTAATTCTTTTTATT
63 AATT-GTTATTTATAATAGCATCAAATAATTAATTCTTTTTATT
1048313 ATTTTTCCTATAAATATAGAAACTTTTTTAATTAATTTTT
1 A-TTTTCCTATAAATATAGAAACTTTTTT-ATTAATTTTT
1048353 TATAATATTA
Statistics
Matches: 115, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
104 12 0.10
105 9 0.08
106 5 0.04
107 40 0.35
108 48 0.42
109 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.54
Consensus pattern (105 bp):
ATTTTCCTATAAATATAGAAACTTTTTTATTAATTTTTACATACAAACATTTCTTTTTCACTAAT
TGTTATTTATAATAGCATCAAATAATTAATTCTTTTTATT
Found at i:1053374 original size:19 final size:18
Alignment explanation
Indices: 1053350--1053390 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
1053340 AATAAAATAT
*
1053350 TATTTTTAAAATATAAAA
1 TATTTTTTAAATATAAAA
1053368 TATTTTTTAAATATAAAA
1 TATTTTTTAAATATAAAA
1053386 TATTT
1 TATTT
1053391 AAATATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTTTAAATATAAAA
Found at i:1053424 original size:30 final size:31
Alignment explanation
Indices: 1053375--1053432 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
1053365 AAATATTTTT
** *
1053375 TAAATATAAAATATTTAAATATATAATTATA
1 TAAATATAAAATAAATAAATAAATAATTATA
1053406 TAAATA-AAAATAAATAAATAAATAATT
1 TAAATATAAAATAAATAAATAAATAATT
1053433 TAAAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (31 bp):
TAAATATAAAATAAATAAATAAATAATTATA
Found at i:1062321 original size:10 final size:11
Alignment explanation
Indices: 1062295--1062322 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1062285 AAAACTAGAA
1062295 CAAAAATGAAG
1 CAAAAATGAAG
1062306 CAAAAATGAAG
1 CAAAAATGAAG
1062317 CAAAAA
1 CAAAAA
1062323 CAGAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.11, G:0.14, T:0.07
Consensus pattern (11 bp):
CAAAAATGAAG
Found at i:1062754 original size:4 final size:5
Alignment explanation
Indices: 1062726--1062751 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1062716 GCCTAATGAA
1062726 TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTATT TTATT TTATT TTATT T
1062752 ATTAACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:1089945 original size:12 final size:12
Alignment explanation
Indices: 1089928--1089952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1089918 ATCCAATTTC
1089928 TCTTTTTTTTTT
1 TCTTTTTTTTTT
1089940 TCTTTTTTTTTT
1 TCTTTTTTTTTT
1089952 T
1 T
1089953 TGATGTATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:1089948 original size:13 final size:14
Alignment explanation
Indices: 1089924--1089953 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1089914 TTTGATCCAA
1089924 TTTCTCTTTTTTTT
1 TTTCTCTTTTTTTT
1089938 TTTCT-TTTTTTTT
1 TTTCTCTTTTTTTT
1089951 TTT
1 TTT
1089954 GATGTATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTCTCTTTTTTTT
Found at i:1092461 original size:33 final size:33
Alignment explanation
Indices: 1092419--1092487 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
1092409 AGTAATCTTG
1092419 AATGAATGAGTTTTTTTAGTTTATTTTCTGGAC
1 AATGAATGAGTTTTTTTAGTTTATTTTCTGGAC
1092452 AATGAATGAGTTTTTTTAGTTTATTTTCTGGAC
1 AATGAATGAGTTTTTTTAGTTTATTTTCTGGAC
1092485 AAT
1 AAT
1092488 CATCACGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.26, C:0.06, G:0.17, T:0.51
Consensus pattern (33 bp):
AATGAATGAGTTTTTTTAGTTTATTTTCTGGAC
Found at i:1099076 original size:18 final size:19
Alignment explanation
Indices: 1099032--1099081 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
1099022 TTGAAAAAAA
* *
1099032 ATTAAATTATATAT-TTTT
1 ATTAAATTTTATATATATT
*
1099050 ATTAGATTTTATATATATT
1 ATTAAATTTTATATATATT
1099069 -TTAAATTTT-TATA
1 ATTAAATTTTATATA
1099082 AAATAACATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 20 0.74
19 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
ATTAAATTTTATATATATT
Found at i:1099268 original size:31 final size:30
Alignment explanation
Indices: 1099210--1099271 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
1099200 ATAGAATTCG
1099210 ATTCAAATTAAATCAATTTAAAAAAAATTTA
1 ATTCAAATTAAATCAATTT-AAAAAAATTTA
*
1099241 ATTCAAATTCGAATCAAATTT-AAAAAATTTA
1 ATTCAAATT-AAATC-AATTTAAAAAAATTTA
1099272 TAATATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 19 0.68
32 4 0.14
33 5 0.18
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (30 bp):
ATTCAAATTAAATCAATTTAAAAAAATTTA
Found at i:1107590 original size:16 final size:17
Alignment explanation
Indices: 1107569--1107604 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1107559 ATTTCTATTA
1107569 AATTTTTAA-TTAAATT
1 AATTTTTAAGTTAAATT
1107585 AA-TTTTAAGTTAAATT
1 AATTTTTAAGTTAAATT
1107601 AATT
1 AATT
1107605 AAAACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.33
16 11 0.61
17 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AATTTTTAAGTTAAATT
Found at i:1107643 original size:19 final size:19
Alignment explanation
Indices: 1107621--1107678 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
1107611 AAAATTATTT
1107621 TTTAATTAATCAAAATTAA
1 TTTAATTAATCAAAATTAA
*
1107640 TTTAA-TGATCAATCAATTAA
1 TTTAATTAATCAA--AATTAA
*
1107660 TTAAATTAAAATCAAAATT
1 TTTAATT--AATCAAAATT
1107679 TGAATATCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 6 0.19
19 5 0.16
20 10 0.32
21 5 0.16
23 5 0.16
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
TTTAATTAATCAAAATTAA
Found at i:1107920 original size:25 final size:26
Alignment explanation
Indices: 1107892--1107948 Score: 66
Period size: 24 Copynumber: 2.3 Consensus size: 26
1107882 TTTTTTTTTA
*
1107892 TTTTATTAAATTTATA-TATAATTAT-
1 TTTTATTAAATTTAAATTAT-ATTATG
*
1107917 TTTTA-TAATTTTAAATTATATTATG
1 TTTTATTAAATTTAAATTATATTATG
1107942 TTTTATT
1 TTTTATT
1107949 TTTATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 13 0.48
25 13 0.48
26 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTTATTAAATTTAAATTATATTATG
Found at i:1107929 original size:24 final size:25
Alignment explanation
Indices: 1107892--1107947 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
1107882 TTTTTTTTTA
*
1107892 TTTTATTAAATTTATA-TATAATTAT-
1 TTTTA-TAAATTTAAATTAT-ATTATG
*
1107917 TTTTATAATTTTAAATTATATTATG
1 TTTTATAAATTTAAATTATATTATG
1107942 TTTTAT
1 TTTTAT
1107948 TTTTATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTATAAATTTAAATTATATTATG
Found at i:1109560 original size:2 final size:2
Alignment explanation
Indices: 1109553--1109581 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1109543 GATAGGTATC
1109553 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1109582 GCATCAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1114040 original size:17 final size:18
Alignment explanation
Indices: 1114001--1114044 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
1113991 TCAAATTTTT
*
1114001 CTTTCTCTCTCTCTCTTT
1 CTTTCTCTCTCTCTCTTC
* *
1114019 TTTTCTCT-TTTCTCTTC
1 CTTTCTCTCTCTCTCTTC
1114036 CTTTCTCTC
1 CTTTCTCTC
1114045 CAGAATCTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (18 bp):
CTTTCTCTCTCTCTCTTC
Found at i:1115180 original size:108 final size:108
Alignment explanation
Indices: 1115062--1115325 Score: 327
Period size: 108 Copynumber: 2.4 Consensus size: 108
1115052 TTCAGGATTT
* * * * *
1115062 CATCCAAAGTTTTAAAACTTCTCATTCGA-TTCAAAGATTCATATTCGAA-AGATTTTAAAGTTT
1 CATCCAAAG-TTCAAAGCTTCTCATTCGAGTTCAAAGATTCACATTCGAATAAAATTTAAAGTTT
* * * *
1115125 CAAATCTAAATTCAAAGGTTCTCTTTCAAAAAATTTGGGGTTCA
65 CAAATATAAATTCAAAGGATCTCATTCAAAAAACTTGGGGTTCA
* * * *
1115169 TATCCAGAAGTTCAAAGCTTATCATTCGAGTTCAAATATTCACATTC-AATAAAATTTAGAGTTT
1 CATCCA-AAGTTCAAAGCTTCTCATTCGAGTTCAAAGATTCACATTCGAATAAAATTTAAAGTTT
*
1115233 CACATATAAATTCAAAGGATCTCATTCAAAAAACTTGGGGTTCA
65 CAAATATAAATTCAAAGGATCTCATTCAAAAAACTTGGGGTTCA
** *
1115277 CATCCAAAAGTTCAAAGCTTCTCATTTAAGTTCAAAGATTTACATTCGA
1 CATCC-AAAGTTCAAAGCTTCTCATTCGAGTTCAAAGATTCACATTCGA
1115326 TGCTTCAAAG
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
107 23 0.17
108 107 0.81
109 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (108 bp):
CATCCAAAGTTCAAAGCTTCTCATTCGAGTTCAAAGATTCACATTCGAATAAAATTTAAAGTTTC
AAATATAAATTCAAAGGATCTCATTCAAAAAACTTGGGGTTCA
Found at i:1115437 original size:24 final size:24
Alignment explanation
Indices: 1115401--1115675 Score: 345
Period size: 24 Copynumber: 11.5 Consensus size: 24
1115391 ACTCAAAAAC
*
1115401 AAAGATTCTCATTTAAAACACCTT
1 AAAGATTCTCATTTAAAACTCCTT
* * *
1115425 AAAAATTCTCATTTAAAATTTCTT
1 AAAGATTCTCATTTAAAACTCCTT
*
1115449 AAAGATTCTAATTTAAAACTCCTT
1 AAAGATTCTCATTTAAAACTCCTT
* *
1115473 AATGATTCTAATTTAAAACTCCTT
1 AAAGATTCTCATTTAAAACTCCTT
* * *
1115497 AATGATTTTCATTTAAAACTTCTT
1 AAAGATTCTCATTTAAAACTCCTT
* *
1115521 AAAGATTCTCATTTAAAATTTCTT
1 AAAGATTCTCATTTAAAACTCCTT
*
1115545 AAAGATTCTCATTTAAAATTCCTT
1 AAAGATTCTCATTTAAAACTCCTT
* *
1115569 AAAAATTCTCATTTAAAACCCCTT
1 AAAGATTCTCATTTAAAACTCCTT
* *
1115593 AACA-ATTTTCATTTAAAACTTCTT
1 AA-AGATTCTCATTTAAAACTCCTT
*
1115617 AAAGATTCTCATTTAAAACTCATT
1 AAAGATTCTCATTTAAAACTCCTT
* * *
1115641 GAAGATTCTCACTTAGAACTCCTT
1 AAAGATTCTCATTTAAAACTCCTT
1115665 AAAGATTCTCA
1 AAAGATTCTCA
1115676 AAATTTTTAA
Statistics
Matches: 219, Mismatches: 30, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
23 1 0.00
24 217 0.99
25 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (24 bp):
AAAGATTCTCATTTAAAACTCCTT
Done.