Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold78
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: 2238306
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 23262 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:654534 original size:20 final size:20
Alignment explanation
Indices: 654486--654538 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
654476 AATATATTTT
*
654486 TTTAAAATAATATTTTTTAA
1 TTTAAAATAATTTTTTTTAA
**
654506 TTTTTAATAATTTTTTATTAA
1 TTTAAAATAATTTTTT-TTAA
654527 -TTAAAAT-ATTTT
1 TTTAAAATAATTTT
654539 AAACTCATTC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 5 0.19
20 18 0.67
21 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTAAAATAATTTTTTTTAA
Found at i:654736 original size:21 final size:21
Alignment explanation
Indices: 654710--654749 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
654700 ATGAAAATAT
654710 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
654731 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
654750 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:655731 original size:15 final size:17
Alignment explanation
Indices: 655695--655743 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
655685 TTATTATAAT
*
655695 TATATTAAATATTTTATAA
1 TATATT-AATAATTT-TAA
655714 TATA-T-ATAATTTTAA
1 TATATTAATAATTTTAA
655729 TATATTAATAATTTT
1 TATATTAATAATTTT
655744 TAGATAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.26
16 7 0.26
17 8 0.30
18 1 0.04
19 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATATTAATAATTTTAA
Found at i:656324 original size:10 final size:10
Alignment explanation
Indices: 656288--656321 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
656278 ATTTTTATAT
656288 ATTTAAATTAA
1 ATTTAAA-TAA
656299 ATTTAAATAA
1 ATTTAAATAA
656309 ATTTAAA-AA
1 ATTTAAATAA
656318 ATTT
1 ATTT
656322 TAATTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 6 0.26
10 10 0.43
11 7 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATTTAAATAA
Found at i:656493 original size:21 final size:21
Alignment explanation
Indices: 656445--656493 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
656435 TGATAAACTG
656445 TTAGTTTCCCTTTTTTATTTT
1 TTAGTTTCCCTTTTTTATTTT
* **
656466 TTGGTTTCGGTTTTTT-TTTT
1 TTAGTTTCCCTTTTTTATTTT
656486 TATAGTTT
1 T-TAGTTT
656494 ATAGGAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.08, C:0.08, G:0.12, T:0.71
Consensus pattern (21 bp):
TTAGTTTCCCTTTTTTATTTT
Found at i:656920 original size:18 final size:18
Alignment explanation
Indices: 656887--656936 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
656877 AATGTAATAG
656887 AAATATTTAA-TTTTTTT
1 AAATATTTAATTTTTTTT
*
656904 ATATATTTAATTTTTTTT
1 AAATATTTAATTTTTTTT
*
656922 AAAAATTTAAGTTTT
1 AAATATTTAA-TTTT
656937 CATATTTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 9 0.32
18 15 0.54
19 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AAATATTTAATTTTTTTT
Found at i:659567 original size:14 final size:14
Alignment explanation
Indices: 659550--659587 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
659540 CTAATGCTAT
659550 ATTATATGTACATA
1 ATTATATGTACATA
*
659564 ATTATATGT-CATC
1 ATTATATGTACATA
659577 ATTAGTATGTA
1 ATTA-TATGTA
659588 AGAGCTTTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (14 bp):
ATTATATGTACATA
Found at i:660197 original size:32 final size:34
Alignment explanation
Indices: 660160--660223 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
660150 TTAAAAATTA
** *
660160 TTTTATTATTTAAA-AAT-ATTAAAATTAAATAT
1 TTTTATTAAATAAATAATAATTAAAATGAAATAT
660192 TTTTATTAAATAAATAATAATTAAAATGAAAT
1 TTTTATTAAATAAATAATAATTAAAATGAAAT
660224 TAATTTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 12 0.44
33 3 0.11
34 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (34 bp):
TTTTATTAAATAAATAATAATTAAAATGAAATAT
Found at i:660506 original size:9 final size:9
Alignment explanation
Indices: 660492--660531 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
660482 AATTTGAAGC
660492 TTAATTTAA
1 TTAATTTAA
*
660501 TTAATTTAT
1 TTAATTTAA
660510 TTAATTTAA
1 TTAATTTAA
660519 --AATTTAA
1 TTAATTTAA
660526 -TAATTT
1 TTAATTT
660532 TAGTTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 7 0.25
8 5 0.18
9 16 0.57
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TTAATTTAA
Found at i:661036 original size:18 final size:18
Alignment explanation
Indices: 661013--661054 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
661003 TAAAGTAAAT
*
661013 AAAATAAAAAATTTTATA
1 AAAATAAAAAATTATATA
* *
661031 AAAATAAAATATTATATT
1 AAAATAAAAAATTATATA
661049 AAAATA
1 AAAATA
661055 TTTTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAAAAATTATATA
Found at i:661066 original size:32 final size:33
Alignment explanation
Indices: 660987--661074 Score: 94
Period size: 32 Copynumber: 2.8 Consensus size: 33
660977 AATTTACATT
*
660987 AAATA-TTTTTAAAAAATAAAGTAAATAAAATA
1 AAATATTTTTTAAAAAATAAAATAAATAAAATA
* * * * *
661019 AAAAATTTTAT-AAAAATAAAAT-ATTATATTA
1 AAATATTTTTTAAAAAATAAAATAAATAAAATA
661050 AAATATTTTTTAAAAAAT-AAATAAA
1 AAATATTTTTTAAAAAATAAAATAAA
661075 ATATTATTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
31 19 0.43
32 21 0.48
33 4 0.09
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (33 bp):
AAATATTTTTTAAAAAATAAAATAAATAAAATA
Found at i:661079 original size:31 final size:31
Alignment explanation
Indices: 660987--661080 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
660977 AATTTACATT
* *
660987 AAATA-TTTTTAAAAAATAAAGTAAATAAAATA
1 AAATATTTTTTAAAAAATAAA-TAAA-ATATTA
* * **
661019 AAAAATTTTAT-AAAAATAAAATATTATATTA
1 AAATATTTTTTAAAAAAT-AAATAAAATATTA
661050 AAATATTTTTTAAAAAATAAATAAAATATTA
1 AAATATTTTTTAAAAAATAAATAAAATATTA
661081 TTAATTTTCA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
31 24 0.49
32 18 0.37
33 7 0.14
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (31 bp):
AAATATTTTTTAAAAAATAAATAAAATATTA
Found at i:661373 original size:29 final size:29
Alignment explanation
Indices: 661340--661415 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
661330 TTTAAATTTG
*
661340 ATTAAAATTAATTTTTAAAAT-GTTTTATT
1 ATTAAAATTAATTTTTAAAATATTTTTA-T
* *
661369 ATTAAAAAT-ATTTTAAAAATATTTTTAT
1 ATTAAAATTAATTTTTAAAATATTTTTAT
661397 ATTAATATATTAATATTTT
1 ATTAA-A-ATTAAT-TTTT
661416 TATAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
28 16 0.43
29 14 0.38
30 2 0.05
31 2 0.05
32 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (29 bp):
ATTAAAATTAATTTTTAAAATATTTTTAT
Found at i:661474 original size:20 final size:20
Alignment explanation
Indices: 661451--661491 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
661441 TTTTTTATCG
661451 ATTAAAATAATTTAAATAAA
1 ATTAAAATAATTTAAATAAA
*
661471 ATTAAATTAATTTAAATAAA
1 ATTAAAATAATTTAAATAAA
661491 A
1 A
661492 ATAATATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATTAAAATAATTTAAATAAA
Found at i:665989 original size:40 final size:44
Alignment explanation
Indices: 665945--666068 Score: 136
Period size: 45 Copynumber: 2.9 Consensus size: 44
665935 TGTTGCATTT
665945 GTTCAGTTATATTTTGAT-T-TG-T-T-TGTTTGATTATTTAATA
1 GTTCAGTTA-ATTTTGATATATGATGTATGTTTGATTATTTAATA
*
665985 GTTCAG-TAATTTTTATATATGACTGTAATGTTTGATTATTTAATA
1 GTTCAGTTAATTTTGATATATGA-TGT-ATGTTTGATTATTTAATA
*
666030 GTTCAG-TAATTTTTATATATGACTGTAATGTTTGATTAT
1 GTTCAGTTAATTTTGATATATGA-TGT-ATGTTTGATTAT
666069 GATTGTATCT
Statistics
Matches: 76, Mismatches: 1, Indels: 9
0.88 0.01 0.10
Matches are distributed among these distances:
38 7 0.09
39 3 0.04
40 8 0.11
42 1 0.01
43 1 0.01
45 56 0.74
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (44 bp):
GTTCAGTTAATTTTGATATATGATGTATGTTTGATTATTTAATA
Found at i:666018 original size:45 final size:45
Alignment explanation
Indices: 665968--666068 Score: 202
Period size: 45 Copynumber: 2.2 Consensus size: 45
665958 TTGATTTGTT
665968 TGTTTGATTATTTAATAGTTCAGTAATTTTTATATATGACTGTAA
1 TGTTTGATTATTTAATAGTTCAGTAATTTTTATATATGACTGTAA
666013 TGTTTGATTATTTAATAGTTCAGTAATTTTTATATATGACTGTAA
1 TGTTTGATTATTTAATAGTTCAGTAATTTTTATATATGACTGTAA
666058 TGTTTGATTAT
1 TGTTTGATTAT
666069 GATTGTATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.52
Consensus pattern (45 bp):
TGTTTGATTATTTAATAGTTCAGTAATTTTTATATATGACTGTAA
Found at i:666391 original size:15 final size:15
Alignment explanation
Indices: 666371--666402 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
666361 TATTTTATTT
666371 ATATCATATATGCTA
1 ATATCATATATGCTA
*
666386 ATATCATATATGTTA
1 ATATCATATATGCTA
666401 AT
1 AT
666403 TATTTATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (15 bp):
ATATCATATATGCTA
Found at i:667481 original size:4 final size:4
Alignment explanation
Indices: 667472--667498 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
667462 TTTTTTAGCA
667472 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
667499 ATTTCCAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:668904 original size:22 final size:22
Alignment explanation
Indices: 668862--668905 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
668852 TGTGTGTATT
*
668862 ATAAAATAAGAGATATTTAAAA
1 ATAAAATAAGAGATATATAAAA
*
668884 ATAAGATAAGAGGATA-ATAAAA
1 ATAAAATAAGA-GATATATAAAA
668906 GAAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAAAATAAGAGATATATAAAA
Found at i:674056 original size:24 final size:25
Alignment explanation
Indices: 674028--674092 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
674018 TAATAAAATA
*
674028 AAAATAATTATCATATGTTAT-AAT
1 AAAATAATTATCATATGATATCAAT
* * * *
674052 TAAATTATTTTTATATGATATCGAAT
1 AAAATAATTATCATATGATATC-AAT
*
674078 AAAATAATCATCATA
1 AAAATAATTATCATA
674093 AATTATATTT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
24 16 0.55
26 13 0.45
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (25 bp):
AAAATAATTATCATATGATATCAAT
Found at i:679297 original size:19 final size:19
Alignment explanation
Indices: 679273--679313 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
679263 CACTCTTTTT
679273 TTTATAAAGTGATAATTAA
1 TTTATAAAGTGATAATTAA
679292 TTTATAAAGTGATAATTAA
1 TTTATAAAGTGATAATTAA
679311 TTT
1 TTT
679314 TCATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTATAAAGTGATAATTAA
Found at i:682595 original size:202 final size:202
Alignment explanation
Indices: 682230--682625 Score: 666
Period size: 202 Copynumber: 2.0 Consensus size: 202
682220 GATATTTAGT
* *
682230 CATTTAATTACGTGTAATTTAAATATAGAAGTATATGTCGGTGATTAAACAAGGAGAATTACTAA
1 CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
*
682295 AATACTTTTTATAAGTCTTTAATTTAGGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
66 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
*
682360 TTAACAACTTTTAAATGTTTGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAAG
131 TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAAG
682425 TGTTTGA
196 TGTTTGA
* * *
682432 CATTTAATTATGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAATAAGGAGAATTATTAA
1 CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
* *
682497 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGGTTAAAAATATGGT
66 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
* * * * *
682562 TTAATAACTTTTAAGTGTTCGACATTGTTTTGATGAATTGAAATTTCAAAAAAGATATATTTAA
131 TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAA
682626 AATAATAAAA
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
202 180 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (202 bp):
CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAAG
TGTTTGA
Found at i:682997 original size:29 final size:29
Alignment explanation
Indices: 682953--683011 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
682943 TCGAATACAA
* * *
682953 AAAATAAATATTATTTTTAAA-AATTAAAT
1 AAAATAAATA-AAATTTTAAATAATAAAAT
682982 AAAATAAATAAAATTTTAAATAATAAAAT
1 AAAATAAATAAAATTTTAAATAATAAAAT
683011 A
1 A
683012 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATAAATAAAATTTTAAATAATAAAAT
Found at i:683196 original size:28 final size:27
Alignment explanation
Indices: 683131--683196 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
683121 CTAAAAGCTT
*
683131 TTTAAATATAAATAATTTAATACAAAA
1 TTTAAATATAAATAATTTAATAAAAAA
*
683158 TATTAATATATTAA-AATTTATATAAAATAA
1 T-TTAA-ATATAAATAATTTA-ATAAAA-AA
683188 TTTAAATAT
1 TTTAAATAT
683197 GATTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 14 0.42
29 15 0.45
30 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTAAATATAAATAATTTAATAAAAAA
Found at i:683791 original size:2 final size:2
Alignment explanation
Indices: 683736--683772 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
683726 GGGTCAATCA
683736 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
683773 ACTAAATTAA
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:684811 original size:7 final size:7
Alignment explanation
Indices: 684799--684825 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
684789 AGGATATATT
684799 AAAAATA
1 AAAAATA
684806 AAAAATA
1 AAAAATA
684813 AAAAATA
1 AAAAATA
684820 AAAAAT
1 AAAAAT
684826 GTGATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:693527 original size:19 final size:19
Alignment explanation
Indices: 693503--693543 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
693493 CACTCTTTTT
693503 TTTATAAAGTGATAATTAA
1 TTTATAAAGTGATAATTAA
693522 TTTATAAAGTGATAATTAA
1 TTTATAAAGTGATAATTAA
693541 TTT
1 TTT
693544 TCATTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTATAAAGTGATAATTAA
Found at i:696823 original size:201 final size:202
Alignment explanation
Indices: 696459--696853 Score: 657
Period size: 201 Copynumber: 2.0 Consensus size: 202
696449 GATATTTAGT
* *
696459 CATTTAATTACGTGTAATTTAAATATAGAAGTATATGTCGGTGATTAAACAAGGAGAATTACTAA
1 CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
*
696524 AATACTTTTTATAAGTCTTTAATTTAGGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
66 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
*
696589 TTAACAACTTTTAAATGTTTGACATTATTTTGATGAATTAAAATGTC-AAAAAGATATATTTAAG
131 TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAAG
696653 TGTTTGA
196 TGTTTGA
* * *
696660 CATTTAATTATGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAATAAGGAGAATTATTAA
1 CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
* *
696725 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGGTTAAAAATATGGT
66 AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
* * * * *
696790 TTAATAACTTTTAAGTGTTCGACATTGTTTTGATGAATTGAAATTTCAAAAAAGATATATTTAA
131 TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAA
696854 AATAATAAAA
Statistics
Matches: 179, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
201 163 0.91
202 16 0.09
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.40
Consensus pattern (202 bp):
CATTTAATTACGTGTAATTTAAATATAAAAGTATATATCGGTGATTAAACAAGGAGAATTACTAA
AATACTTTTTATAAGTCTTTAATTTAAGTTAGAGCGTGTTTAAAAAGTGTGATTAAAAATATGGC
TTAACAACTTTTAAATGTTCGACATTATTTTGATGAATTAAAATGTCAAAAAAGATATATTTAAG
TGTTTGA
Found at i:697225 original size:29 final size:29
Alignment explanation
Indices: 697181--697239 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
697171 TCGAATACAA
* * *
697181 AAAATAAATATTATTTTTAAA-AATTAAAT
1 AAAATAAATA-AAATTTTAAATAATAAAAT
697210 AAAATAAATAAAATTTTAAATAATAAAAT
1 AAAATAAATAAAATTTTAAATAATAAAAT
697239 A
1 A
697240 TGTTAAATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATAAATAAAATTTTAAATAATAAAAT
Found at i:697424 original size:28 final size:27
Alignment explanation
Indices: 697359--697424 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
697349 CTAAAAGCTT
*
697359 TTTAAATATAAATAATTTAATACAAAA
1 TTTAAATATAAATAATTTAATAAAAAA
*
697386 TATTAATATATTAA-AATTTATATAAAATAA
1 T-TTAA-ATATAAATAATTTA-ATAAAA-AA
697416 TTTAAATAT
1 TTTAAATAT
697425 GATTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
27 1 0.03
28 14 0.42
29 15 0.45
30 3 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (27 bp):
TTTAAATATAAATAATTTAATAAAAAA
Found at i:699025 original size:7 final size:7
Alignment explanation
Indices: 699013--699039 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
699003 AGGATATATT
699013 AAAAATA
1 AAAAATA
699020 AAAAATA
1 AAAAATA
699027 AAAAATA
1 AAAAATA
699034 AAAAAT
1 AAAAAT
699040 GTGATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:710945 original size:29 final size:29
Alignment explanation
Indices: 710912--711005 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
710902 TATGGACGGT
* *
710912 AAAATATAATTTATTAAAAGTTATGGATA
1 AAAATATAATTTATTAAAAATTATAGATA
* * *
710941 AAAATGA-AATATTAATAAAATTTATAAATGA
1 AAAAT-ATAAT-TTATTAAAAATTATAGAT-A
* * *
710972 TAAATATAATTT-TTAAAAATTATTGATG
1 AAAATATAATTTATTAAAAATTATAGATA
711000 AAAATA
1 AAAATA
711006 AAAAATCACT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
28 5 0.10
29 19 0.38
30 18 0.36
31 8 0.16
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.37
Consensus pattern (29 bp):
AAAATATAATTTATTAAAAATTATAGATA
Found at i:711403 original size:4 final size:4
Alignment explanation
Indices: 711394--711425 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
711384 TTTTTAGCAA
711394 AAAT AAAT AAAT AAAT AAAT AAAT AAAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAA
711426 AACTAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:712630 original size:29 final size:29
Alignment explanation
Indices: 712586--712644 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
712576 TCGAATACAA
* * *
712586 AAAATAAATATTATTTTTAAA-AATTAAAT
1 AAAATAAATA-AAATTTTAAATAATAAAAT
712615 AAAATAAATAAAATTTTAAATAATAAAAT
1 AAAATAAATAAAATTTTAAATAATAAAAT
712644 A
1 A
712645 TGTTAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
AAAATAAATAAAATTTTAAATAATAAAAT
Found at i:712829 original size:28 final size:29
Alignment explanation
Indices: 712764--712829 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 29
712754 CTGAAAGCTT
712764 TTTAAATATAAATAATTTAATACAAAGTA
1 TTTAAATATAAATAATTTAATACAAAGTA
*
712793 -TTAATATATTAA-AATTTACATA-AAA-TAA
1 TTTAA-ATATAAATAATTTA-ATACAAAGT-A
712821 TTTAAATAT
1 TTTAAATAT
712830 GATTATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
27 1 0.03
28 18 0.56
29 13 0.41
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (29 bp):
TTTAAATATAAATAATTTAATACAAAGTA
Found at i:713372 original size:2 final size:2
Alignment explanation
Indices: 713365--713389 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
713355 TTTCGGGTCA
713365 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
713390 ACTAAATTAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:713735 original size:2 final size:2
Alignment explanation
Indices: 713728--713760 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
713718 ATCATTTCTC
*
713728 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
713761 GAGAGAGAGA
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:715199 original size:50 final size:50
Alignment explanation
Indices: 715121--715252 Score: 192
Period size: 50 Copynumber: 2.6 Consensus size: 50
715111 AGTTGTTGCC
* * * * *
715121 ATTGTTGACTATCCTTCACCAACCTTTGACAATAGAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
* * *
715171 ATTGTTGACGATTCTTCTCCAACTTTTGACAATAGAAAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
715221 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
715253 ATGTGGCCAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
Found at i:719743 original size:50 final size:50
Alignment explanation
Indices: 719665--719796 Score: 194
Period size: 50 Copynumber: 2.6 Consensus size: 50
719655 AGTTGTTGCC
* * * *
719665 ATTGTTGACTATCCTTCACCAACCTTTGACAATA-AAGAGAGGTGGTCGTA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAA-AGAGGTGGCCATA
* *
719715 ATTGTTGACGATTCTTCACCAACTTTTGACAATAGAAAGAGGTGGCCATT
1 ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
719765 ATTGTTGACGATTCTTCACCAACCTTTGACAA
1 ATTGTTGACGATTCTTCACCAACCTTTGACAA
719797 ATGTGGCCAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (50 bp):
ATTGTTGACGATTCTTCACCAACCTTTGACAATAGAAAGAGGTGGCCATA
Found at i:722416 original size:34 final size:34
Alignment explanation
Indices: 722349--722564 Score: 292
Period size: 34 Copynumber: 6.4 Consensus size: 34
722339 GAGACTTAAA
* * *
722349 TGTTGATTAAAT-GGTGATTTAGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
722382 TGTTGATTAAATGGGTGATTTGGTGGTTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
722416 TGTTGACTAAAT-GGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
722449 TGTTGATTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
722483 TGTTGATTAAATGGGTGATTTGGTGGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
722517 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
722551 TGTTGATTAAATGG
1 TGTTGATTAAATGG
722565 TGGTTTTTAC
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 40 0.25
34 122 0.75
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:722530 original size:68 final size:67
Alignment explanation
Indices: 722349--722566 Score: 319
Period size: 67 Copynumber: 3.2 Consensus size: 67
722339 GAGACTTAAA
* * * * *
722349 TGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
722414 AT
66 AT
* * * *
722416 TGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
722481 AT
66 AT
* * *
722483 TGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTTGC
1 TGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGC
722548 CAT
65 CAT
722551 TGTTGATTAAATGGTG
1 TGTTGATTAAATGGTG
722567 GTTTTTACCA
Statistics
Matches: 134, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
67 73 0.54
68 61 0.46
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (67 bp):
TGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTGCC
AT
Found at i:727044 original size:34 final size:34
Alignment explanation
Indices: 726975--727192 Score: 296
Period size: 34 Copynumber: 6.5 Consensus size: 34
726965 AAGTGGGAGA
* * *
726975 ATTGTTGATTAAAT-GGTGATTTAGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
727008 ATTGTTGATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
727042 ATTGTTGACTAAAT-GGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
727075 ATTGTTGATTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
727109 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
727143 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
727177 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
727193 TGGTTTTTAC
Statistics
Matches: 164, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
33 42 0.26
34 122 0.74
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:727158 original size:68 final size:67
Alignment explanation
Indices: 726975--727194 Score: 323
Period size: 67 Copynumber: 3.3 Consensus size: 67
726965 AAGTGGGAGA
* * * * *
726975 ATTGTTGATTAAATGGTGATTTAGTAGTTTACCATTGTTGATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
727040 CC
66 CC
* * * *
727042 ATTGTTGACTAAATGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGAAATTTGGTAGCTTA
1 ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
727107 CC
66 CC
* * *
727109 ATTGTTGATTAAATGGGTGATTTGGTGGCTTACCATTGTTGACTAAATGGGAGATTTGGTAGGTT
1 ATTGTTGATTAAAT-GGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTT
727174 GCC
65 GCC
727177 ATTGTTGATTAAATGGTG
1 ATTGTTGATTAAATGGTG
727195 GTTTTTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
67 75 0.55
68 61 0.45
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (67 bp):
ATTGTTGATTAAATGGTGATTTGGTAGCTTACCATTGTTGATTAAATGGGAGATTTGGTAGCTTG
CC
Found at i:730225 original size:21 final size:21
Alignment explanation
Indices: 730201--730240 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
730191 CATCAATATT
730201 TATTATAAT-TAATTATAATAA
1 TATT-TAATATAATTATAATAA
*
730222 TATTTAATATATTTATAAT
1 TATTTAATATAATTATAAT
730241 CACGATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTAATATAATTATAATAA
Found at i:734574 original size:22 final size:23
Alignment explanation
Indices: 734541--734587 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
734531 TGATAATTTA
**
734541 TTTATTTATATTATTTTTATATT
1 TTTATTTATATTATAATTATATT
734564 TTTA-TTATATTATAATTATATT
1 TTTATTTATATTATAATTATATT
734586 TT
1 TT
734588 AAAATTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTATTTATATTATAATTATATT
Found at i:745796 original size:13 final size:13
Alignment explanation
Indices: 745778--745806 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
745768 TTAACTTCTC
745778 TATTCACTTCAAT
1 TATTCACTTCAAT
745791 TATTCACTTCAAT
1 TATTCACTTCAAT
745804 TAT
1 TAT
745807 GTATGTGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.21, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTCACTTCAAT
Found at i:745837 original size:2 final size:2
Alignment explanation
Indices: 745830--745857 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
745820 TAAATAATTA
745830 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
745858 CAAACATAAA
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:746518 original size:30 final size:33
Alignment explanation
Indices: 746478--746537 Score: 81
Period size: 30 Copynumber: 1.9 Consensus size: 33
746468 TAAATTTTTT
746478 ATTAAATAAATA-ATAATT-TAA-ATTAAATTA
1 ATTAAATAAATATATAATTATAATATTAAATTA
* *
746508 ATTATATAAATATATATTTATAATATTAAA
1 ATTAAATAAATATATAATTATAATATTAAA
746538 AAAATAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 5 0.20
32 3 0.12
33 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
ATTAAATAAATATATAATTATAATATTAAATTA
Found at i:746572 original size:18 final size:19
Alignment explanation
Indices: 746526--746572 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
746516 AATATATATT
* *
746526 TATAATATTAAAAAAATAA
1 TATAAAATTAAAAAAACAA
* *
746545 TATAATATTAAAAAAACCA
1 TATAAAATTAAAAAAACAA
746564 TA-AAAATTA
1 TATAAAATTA
746573 TATAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (19 bp):
TATAAAATTAAAAAAACAA
Found at i:746642 original size:23 final size:24
Alignment explanation
Indices: 746591--746654 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 24
746581 ATAAATAAAT
*
746591 TAAAATTTATATAAATATATATTTT
1 TAAAA-TTATATAAATATATATTTA
*
746616 TAAAATTATATAATTATA-ATTTA
1 TAAAATTATATAAATATATATTTA
*
746639 TAAAATAATATAAATA
1 TAAAATTATATAAATA
746655 CATCACAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 18 0.51
24 12 0.34
25 5 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAAATTATATAAATATATATTTA
Found at i:751331 original size:36 final size:36
Alignment explanation
Indices: 751268--751339 Score: 103
Period size: 38 Copynumber: 2.0 Consensus size: 36
751258 AAATTTTTAA
*
751268 TTTTTAATTTTTAAAAAATATATATTTAATATATTAT
1 TTTTTAAATTTTAAAAAATATATATTTAATA-ATTAT
751305 TTTTTAAAATTTTAAAAAAT-TA-ATTTAATAATTAT
1 TTTTT-AAATTTTAAAAAATATATATTTAATAATTAT
751340 ATATATTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 5 0.15
36 8 0.24
37 7 0.21
38 13 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (36 bp):
TTTTTAAATTTTAAAAAATATATATTTAATAATTAT
Found at i:751626 original size:17 final size:17
Alignment explanation
Indices: 751604--751658 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
751594 ATTAATTATG
751604 TAAATTTAAATATAATA
1 TAAATTTAAATATAATA
**
751621 TAAATTTTAAAATATTTTA
1 TAAA-TTT-AAATATAATA
* *
751640 AAAATTTAAAAATAATA
1 TAAATTTAAATATAATA
751657 TA
1 TA
751659 TTAAATATTT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
17 12 0.41
18 6 0.21
19 11 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATATAATA
Found at i:751635 original size:19 final size:19
Alignment explanation
Indices: 751605--751658 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
751595 TTAATTATGT
751605 AAATTT-AAATATAATATA
1 AAATTTAAAATATAATATA
* **
751623 AATTTTAAAATATTTTA-A
1 AAATTTAAAATATAATATA
751641 AAATTTAAAA-ATAATATA
1 AAATTTAAAATATAATATA
751659 TTAAATATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 4 0.14
18 16 0.57
19 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTTAAAATATAATATA
Found at i:754007 original size:25 final size:25
Alignment explanation
Indices: 753944--753994 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
753934 TATTTTTATG
753944 TCATATCTTAATTAATCTCAAATCT
1 TCATATCTTAATTAATCTCAAATCT
*
753969 TCATATCTTAATTAATTTCAAATCT
1 TCATATCTTAATTAATCTCAAATCT
753994 T
1 T
753995 ACCTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.00, T:0.47
Consensus pattern (25 bp):
TCATATCTTAATTAATCTCAAATCT
Found at i:754740 original size:24 final size:22
Alignment explanation
Indices: 754713--754757 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
754703 AAATTTATTT
*
754713 TTATTTTTATGATTTTTTAAATTA
1 TTATTTTTA-G-TTTTTAAAATTA
754737 TTATTTTTAGTTTTTAAAATT
1 TTATTTTTAGTTTTTAAAATT
754758 TTTTAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 1 0.05
24 9 0.45
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTATTTTTAGTTTTTAAAATTA
Found at i:754741 original size:30 final size:31
Alignment explanation
Indices: 754707--754766 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
754697 TAAAAAAAAT
**
754707 TTATTTTTA-TTTTTATGATTTTTTAAATTA
1 TTATTTTTAGTTTTTAAAATTTTTTAAATTA
754737 TTATTTTTAGTTTTTAAAATTTTTTAAATT
1 TTATTTTTAGTTTTTAAAATTTTTTAAATT
754767 TTGTCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 9 0.33
31 18 0.67
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (31 bp):
TTATTTTTAGTTTTTAAAATTTTTTAAATTA
Found at i:755209 original size:34 final size:33
Alignment explanation
Indices: 755161--755381 Score: 266
Period size: 34 Copynumber: 6.5 Consensus size: 33
755151 TGGTAAAAAC
*
755161 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
755194 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
755228 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** *
755262 TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
755296 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
755330 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
755364 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
755382 TCTCCCACTT
Statistics
Matches: 162, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 23 0.14
34 133 0.82
35 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:755277 original size:68 final size:67
Alignment explanation
Indices: 755163--755381 Score: 296
Period size: 68 Copynumber: 3.2 Consensus size: 67
755153 GTAAAAACCA
* * *
755163 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAATGGTAAGCTACCAAAT
755228 CAC
65 CAC
* * * *
755231 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAATGGTAAGCTACCAAAT
*
755296 CTC
65 CAC
* * * *
755299 CCATTTAGTCAACAATGGCAAACCACCAAATCACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATGGTAAGCTACCAAAT
755364 CA-
65 CAC
755366 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
755382 TCTCCCACTT
Statistics
Matches: 132, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
67 17 0.13
68 114 0.86
69 1 0.01
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (67 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGGTAAGCTACCAAATC
AC
Found at i:755305 original size:102 final size:101
Alignment explanation
Indices: 755161--755381 Score: 352
Period size: 102 Copynumber: 2.2 Consensus size: 101
755151 TGGTAAAAAC
* *
755161 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
755226 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * *
755262 TTCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
755327 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
755364 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
755382 TCTCCCACTT
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 16 0.15
102 92 0.85
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:760207 original size:20 final size:20
Alignment explanation
Indices: 760160--760234 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
760150 AAAAAGACAT
*
760160 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
760179 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
760200 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
760220 AATGTATCGATACAT
1 AATGTATCGATACAT
760235 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:760228 original size:40 final size:39
Alignment explanation
Indices: 760157--760234 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
760147 GGTAAAAAGA
* *
760157 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
760196 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
760235 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:763359 original size:34 final size:33
Alignment explanation
Indices: 763311--763530 Score: 255
Period size: 34 Copynumber: 6.5 Consensus size: 33
763301 TGGTAAAAAC
*
763311 CACCATTTAATCAACAATGGCAACCTACCAAAT
1 CACCATTTAATCAACAATGGTAACCTACCAAAT
*
763344 CTACCATTTAGTCAACAATGGTAAGCC-ACCAAAT
1 C-ACCATTTAATCAACAATGGTAA-CCTACCAAAT
* *
763378 CACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
** * *
763412 TTCTCATTTAATCAATAATGGTAAGCTACCAAAT
1 CAC-CATTTAATCAACAATGGTAACCTACCAAAT
* * *
763446 CTCCCATTTAGTCAACAATGGCAAACC-ACCAAAT
1 C-ACCATTTAATCAACAATGG-TAACCTACCAAAT
*
763480 CACCCATTTAATCAACAATGGTAAACTACCAAAT
1 CA-CCATTTAATCAACAATGGTAACCTACCAAAT
763514 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
763531 AAACTCAATT
Statistics
Matches: 161, Mismatches: 17, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
33 22 0.14
34 133 0.83
35 6 0.04
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAACCTACCAAAT
Found at i:763398 original size:68 final size:68
Alignment explanation
Indices: 763313--763530 Score: 291
Period size: 68 Copynumber: 3.2 Consensus size: 68
763303 GTAAAAACCA
* *
763313 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAATCAACAATGGTAAGCTACCAAAT
763378 CAC
66 CAC
* * * * *
763381 CCATTTAATCAATAATGGTAAGCTACCAAAT-TTCTCATTTAATCAATAATGGTAAGCTACCAAA
1 CCATTTAATCAACAATGGCAACCTACCAAATCTAC-CATTTAATCAACAATGGTAAGCTACCAAA
*
763445 TCTC
65 TCAC
* *
763449 CCATTTAGTCAACAATGGCAAACC-ACCAAATC-ACCCATTTAATCAACAATGGTAAACTACCAA
1 CCATTTAATCAACAATGGC-AACCTACCAAATCTA-CCATTTAATCAACAATGGTAAGCTACCAA
763512 ATCA-
64 ATCAC
763516 CCATTTAATCAACAA
1 CCATTTAATCAACAA
763531 AAACTCAATT
Statistics
Matches: 129, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
67 16 0.12
68 109 0.84
69 4 0.03
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (68 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAATCAACAATGGTAAGCTACCAAAT
CAC
Found at i:763455 original size:102 final size:101
Alignment explanation
Indices: 763311--763530 Score: 341
Period size: 102 Copynumber: 2.2 Consensus size: 101
763301 TGGTAAAAAC
* *
763311 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAA
1 CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
* *
763376 ATCACCCATTTAATCAATAATGGTAAGCTACCAAAT
66 ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
** * * * *
763412 TTCTCATTTAATCAATAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCACCA
1 CAC-CATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCA
763477 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
65 AATCACCCATTTAATCAACAATGGTAAACTACCAAAT
763514 CACCATTTAATCAACAA
1 CACCATTTAATCAACAA
763531 AAACTCAATT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
101 14 0.13
102 91 0.87
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (101 bp):
CACCATTTAATCAACAATGGCAACCTACCAAATCTACCATTTAGTCAACAATGGCAAACCACCAA
ATCACCCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:764247 original size:14 final size:14
Alignment explanation
Indices: 764215--764260 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
764205 TAAATTGTTT
764215 AATCAAATAAAATTAA
1 AATCAAAT-AAATT-A
764231 AATCAAATAAATTA
1 AATCAAATAAATTA
*
764245 AATTAAATAAA-TA
1 AATCAAATAAATTA
764258 AAT
1 AAT
764261 TTTAATCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 11 0.38
15 5 0.17
16 8 0.28
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (14 bp):
AATCAAATAAATTA
Found at i:765151 original size:23 final size:21
Alignment explanation
Indices: 765112--765154 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
765102 AATCATTTTT
*
765112 AATTTTTTATTATTTTTATTA
1 AATTTTTTATTACTTTTATTA
765133 AATTTATTGTATTACTTTTATT
1 AATTT-TT-TATTACTTTTATT
765155 TGATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 2 0.11
23 12 0.63
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
AATTTTTTATTACTTTTATTA
Found at i:767528 original size:20 final size:20
Alignment explanation
Indices: 767499--767551 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
767489 TAAATTAATG
* * *
767499 AAATTTTTTATTTAAAAGTT
1 AAATTATTTAATTAAAAGAT
*
767519 CAATTATTTAATTAAAAGAT
1 AAATTATTTAATTAAAAGAT
767539 AAATTATTTAATT
1 AAATTATTTAATT
767552 TTATGTATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (20 bp):
AAATTATTTAATTAAAAGAT
Found at i:768385 original size:21 final size:22
Alignment explanation
Indices: 768361--768401 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
768351 AAATCCATTG
*
768361 AAAATAATTG-TCTATTATTAA
1 AAAATAAATGTTCTATTATTAA
768382 AAAATAAATGTTCTATTATT
1 AAAATAAATGTTCTATTATT
768402 TTCTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (22 bp):
AAAATAAATGTTCTATTATTAA
Found at i:771484 original size:19 final size:19
Alignment explanation
Indices: 771462--771530 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
771452 AAATTTTAAA
*
771462 ATATTTATATGTTTATTAT
1 ATATTTATATGTATATTAT
* *
771481 ATATATATATATATATTAT
1 ATATTTATATGTATATTAT
* * *
771500 TTTTTTATATCTAATATT-T
1 ATATTTATATGT-ATATTAT
*
771519 ATTTTTATATGT
1 ATATTTATATGT
771531 TAATTATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 35 0.88
20 5 0.12
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (19 bp):
ATATTTATATGTATATTAT
Found at i:771508 original size:21 final size:21
Alignment explanation
Indices: 771484--771541 Score: 61
Period size: 19 Copynumber: 3.0 Consensus size: 21
771474 TTATTATATA
771484 TATATATATATATTATTTTTT
1 TATATATATATATTATTTTTT
* *
771505 TATATCTA-ATATT-TATTTT
1 TATATATATATATTATTTTTT
*
771524 TATATGT-TA-ATTATTTTT
1 TATATATATATATTATTTTT
771542 ACTCCATATC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 3 0.10
19 16 0.52
20 5 0.16
21 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TATATATATATATTATTTTTT
Found at i:771517 original size:17 final size:17
Alignment explanation
Indices: 771497--771562 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 17
771487 ATATATATAT
771497 TATTTTTTTATATCTAA
1 TATTTTTTTATATCTAA
*
771514 TATTTATTTTTATATGTTAA
1 TA-TT-TTTTTATAT-CTAA
*
771534 TTATTTTTACTCCATATCTAA
1 -TATTTTT--T-TATATCTAA
771555 TATTTTTT
1 TATTTTTT
771563 ATCTAATGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 12 0.31
20 12 0.31
21 6 0.15
22 4 0.10
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.64
Consensus pattern (17 bp):
TATTTTTTTATATCTAA
Found at i:771758 original size:2 final size:2
Alignment explanation
Indices: 771751--771784 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
771741 CCCATTTTGA
771751 CT CT CT 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 CT CT CT
771785 TTAACTCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:774482 original size:67 final size:67
Alignment explanation
Indices: 774352--774483 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
774342 ACATTTAATT
* * **
774352 CAATTGTAGGCCTAACTTCGCTATCCTTGACGGTATACCACCACAACGTCTATTGTTGACTGAAA
1 CAATTGTAGGCCTAACTTCGCAATCCTTGACGGGATACCACCACAACGTCTATTAATGACTGAAA
774417 AA
66 AA
* * ** *
774419 CAATTGTGGGCCTAACTTTGCAATCCTTGACGGGATGTCACCACAACGTCTATTAATGGCTGAAA
1 CAATTGTAGGCCTAACTTCGCAATCCTTGACGGGATACCACCACAACGTCTATTAATGACTGAAA
774484 CAAAAAGTCA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (67 bp):
CAATTGTAGGCCTAACTTCGCAATCCTTGACGGGATACCACCACAACGTCTATTAATGACTGAAA
AA
Found at i:775146 original size:24 final size:23
Alignment explanation
Indices: 775107--775162 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
775097 TATATTAGCG
775107 TTTTAATAACAAATATGAATAAATA
1 TTTTAATAACAAATAT-AA-AAATA
*
775132 TTTTAA-AATAAATATAAAAATA
1 TTTTAATAACAAATATAAAAATA
* *
775154 ATATAATAA
1 TTTTAATAA
775163 ATATAATGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 9 0.33
23 4 0.15
24 8 0.30
25 6 0.22
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
TTTTAATAACAAATATAAAAATA
Found at i:775913 original size:22 final size:21
Alignment explanation
Indices: 775883--775953 Score: 54
Period size: 22 Copynumber: 3.3 Consensus size: 21
775873 GATTTCGAAT
*
775883 TATTTTTTAATTATATAATATA
1 TATTATTTAA-TATATAATATA
*
775905 TATTATTT-ATATATATTATA
1 TATTATTTAATATATAATATA
* ** *
775925 CAAAAATTAAATATATAATATTA
1 -TATTATTTAATATATAATA-TA
775948 TATTAT
1 TATTAT
775954 AAATATTAAA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 10 0.28
21 5 0.14
22 19 0.53
23 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (21 bp):
TATTATTTAATATATAATATA
Found at i:775984 original size:35 final size:36
Alignment explanation
Indices: 775945--776016 Score: 87
Period size: 35 Copynumber: 2.0 Consensus size: 36
775935 ATATATAATA
*
775945 TTATATTATAAATA-TT-A-AAAAATATATTAAGTTAT
1 TTATATTATAAA-ACTTAATAAAAAT-TATTAAATTAT
*
775980 TTATATTTTAAAACTTAATAAAAATTATTAAATTAT
1 TTATATTATAAAACTTAATAAAAATTATTAAATTAT
776016 T
1 T
776017 AAAAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
34 1 0.03
35 13 0.41
36 12 0.38
37 6 0.19
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TTATATTATAAAACTTAATAAAAATTATTAAATTAT
Found at i:776007 original size:28 final size:31
Alignment explanation
Indices: 775911--776043 Score: 80
Period size: 28 Copynumber: 4.3 Consensus size: 31
775901 TATATATTAT
* * *
775911 TTATATATATTATACAAAAATTAAATATATAATA
1 TTATTTATATTAT-TAAAAATTAAAT-TA-AAAA
* * * *
775945 TTATATTATAAATATTAAAAAATATATT--AAG
1 TTAT-TTAT-ATTATTAAAAATTAAATTAAAAA
*
775976 TTATTTATATT-TTAAAACTT-AA-TAAAAA
1 TTATTTATATTATTAAAAATTAAATTAAAAA
*
776004 TTA-TTAAATTATTAAAAATTAAATTAAAAA
1 TTATTTATATTATTAAAAATTAAATTAAAAA
*
776034 TATATCTATA
1 T-TATTTATA
776044 AAAAATAAAA
Statistics
Matches: 74, Mismatches: 16, Indels: 20
0.67 0.15 0.18
Matches are distributed among these distances:
26 1 0.01
27 7 0.09
28 20 0.27
29 4 0.05
30 11 0.15
31 7 0.09
32 3 0.04
34 5 0.07
35 12 0.16
36 4 0.05
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (31 bp):
TTATTTATATTATTAAAAATTAAATTAAAAA
Found at i:776450 original size:24 final size:26
Alignment explanation
Indices: 776423--776471 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
776413 GTATGCTCTA
776423 TCATA-CACACAT-ATGTAT-ATGAAC
1 TCATAGCAC-CATCATGTATAATGAAC
776447 TCATAGCACCATCATGTATAATGAA
1 TCATAGCACCATCATGTATAATGAA
776472 AGTTAGAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 8 0.36
25 9 0.41
26 5 0.23
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (26 bp):
TCATAGCACCATCATGTATAATGAAC
Found at i:778624 original size:20 final size:20
Alignment explanation
Indices: 778599--778650 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
778589 AGTTTACGAG
*
778599 TTTAATTAAATTTTTTTATT
1 TTTAATTAAATATTTTTATT
*
778619 TTTAA-TATATATTTTTATT
1 TTTAATTAAATATTTTTATT
778638 TTTAATT-AATATT
1 TTTAATTAAATATT
778651 AAAAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTAATTAAATATTTTTATT
Found at i:782863 original size:25 final size:26
Alignment explanation
Indices: 782835--782885 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
782825 AAAAAAATAT
*
782835 TAATTTCA-TTTTTTCTTTCTTTTTC
1 TAATTTCACTTTTTTCTTTCATTTTC
*
782860 TAATTTCACGTTTTTTTTTTCATTTT
1 TAATTTCAC-TTTTTTCTTTCATTTT
782886 AAGTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 8 0.36
27 14 0.64
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.71
Consensus pattern (26 bp):
TAATTTCACTTTTTTCTTTCATTTTC
Found at i:787484 original size:23 final size:23
Alignment explanation
Indices: 787458--787504 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
787448 ATAAAATATT
787458 TACAGCTATTAAAACAAAAAATA
1 TACAGCTATTAAAACAAAAAATA
* *
787481 TACAGCTATTAAAATAGAAAATA
1 TACAGCTATTAAAACAAAAAATA
787504 T
1 T
787505 CTCTTCCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (23 bp):
TACAGCTATTAAAACAAAAAATA
Found at i:787900 original size:246 final size:246
Alignment explanation
Indices: 787466--787958 Score: 810
Period size: 246 Copynumber: 2.0 Consensus size: 246
787456 TTTACAGCTA
* * * * *
787466 TTAAAACAAAAAATATACAGCTATTAAAATAGAAAATATCTCTTCCTTCTAACACTCCCTTTCAA
1 TTAAAACAAAAAATATACAACCAGTAAAACAGAAAATATCTCTTCCTTCTAACACTCCCTATCAA
* *
787531 GCTGGAGAATAAGTGTCTTCCATTCCCAACTTTAAAATACTGTCCTGAAACTGAATATTATGCAG
66 GCTGGAGAATAAGTGTCTTCCATTCCCAACTTGAAAATACTGTCCTGAAACTGAATATTATGCAA
* *
787596 TCATTTCATGAACACATCTGCTAGCTGGTTTTTTGTTGTCACATATGGGATGCAAATTAGACCAC
131 CCATTTCATGAACACATCTGCTAGCTGGTTTTTTGTAGTCACATATGGGATGCAAATTAGACCAC
787661 TCGCTAGTTTTTCTTTTATGAAGTGCTTATCTATCTCTATATGTTTAGTCC
196 TCGCTAGTTTTTCTTTTATGAAGTGCTTATCTATCTCTATATGTTTAGTCC
* * *
787712 TTAAAACAGAAAATATACAACCAGTAAAACAGAAAATATCTTTTCTTTCTAACACTACCC-ATCA
1 TTAAAACAAAAAATATACAACCAGTAAAACAGAAAATATCTCTTCCTTCTAACACT-CCCTATCA
* *
787776 AGCTGGAGAATAAGTGTCTTCCATTCCCAGCTTGGAAATACTGTCCTGAAACTGAATATTATGCA
65 AGCTGGAGAATAAGTGTCTTCCATTCCCAACTTGAAAATACTGTCCTGAAACTGAATATTATGCA
*
787841 ACCCTTTCATGAACACATCTGCTAGCTGGTTTTTTGTAGTCACATATGAGG-TGCAAATTAGACC
130 ACCATTTCATGAACACATCTGCTAGCTGGTTTTTTGTAGTCACATATG-GGATGCAAATTAGACC
*
787905 ACTCTCTAGTTTTTCTTTTATGAAGTGCTTATCTATCTCTATATGTTTAGTCC
194 ACTCGCTAGTTTTTCTTTTATGAAGTGCTTATCTATCTCTATATGTTTAGTCC
787958 T
1 T
787959 ATCATGTTGC
Statistics
Matches: 229, Mismatches: 16, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
246 224 0.98
247 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (246 bp):
TTAAAACAAAAAATATACAACCAGTAAAACAGAAAATATCTCTTCCTTCTAACACTCCCTATCAA
GCTGGAGAATAAGTGTCTTCCATTCCCAACTTGAAAATACTGTCCTGAAACTGAATATTATGCAA
CCATTTCATGAACACATCTGCTAGCTGGTTTTTTGTAGTCACATATGGGATGCAAATTAGACCAC
TCGCTAGTTTTTCTTTTATGAAGTGCTTATCTATCTCTATATGTTTAGTCC
Found at i:800980 original size:17 final size:18
Alignment explanation
Indices: 800958--800999 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
800948 ATTTGTTAAG
800958 TTTTTTATAACG-TATTC
1 TTTTTTATAACGTTATTC
*
800975 TTTTTTATAATGTTTATTC
1 TTTTTTATAACG-TTATTC
800994 TTTTTT
1 TTTTTT
801000 TTTTTTGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.19, C:0.07, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTTTATAACGTTATTC
Found at i:804539 original size:9 final size:9
Alignment explanation
Indices: 804520--804559 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
804510 TATTGCAGTT
804520 TTATATTATA
1 TTAT-TTATA
*
804530 TTACTTATA
1 TTATTTATA
*
804539 TTATTTATT
1 TTATTTATA
804548 TTATTTATA
1 TTATTTATA
804557 TTA
1 TTA
804560 ATTTTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
9 23 0.88
10 3 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTATTTATA
Found at i:805536 original size:20 final size:21
Alignment explanation
Indices: 805511--805553 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
805501 AATTTAAAAA
805511 TAAAAAAAT-TATAAA-TAAAT
1 TAAAAAAATGT-TAAATTAAAT
805531 TAAAAAAATGTTAAATTAAAT
1 TAAAAAAATGTTAAATTAAAT
805552 TA
1 TA
805554 TTTAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
TAAAAAAATGTTAAATTAAAT
Found at i:805602 original size:28 final size:27
Alignment explanation
Indices: 805541--805602 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
805531 TAAAAAAATG
* *
805541 TTAAATTAAATTATTTAATAAATAAAA
1 TTAAATCAAATTATTTAACAAATAAAA
*
805568 TCAAAATCAAATTAGTTTAACCAAAT-AAA
1 T-TAAATCAAATTA-TTTAA-CAAATAAAA
805597 TTAAAT
1 TTAAAT
805603 TTAATCGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
27 1 0.04
28 14 0.50
29 9 0.32
30 4 0.14
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (27 bp):
TTAAATCAAATTATTTAACAAATAAAA
Found at i:806688 original size:35 final size:35
Alignment explanation
Indices: 806615--806688 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
806605 TATGTTAATG
* * *
806615 TATTTTTATATATTATAATCATATTTAAAATATTA
1 TATTTTTATATATAATAATAATATTTAAAATATAA
*
806650 TATTTTTATAT-TAATATTAATATGTTAATAATA-AA
1 TATTTTTATATATAATAATAATAT-TTAA-AATATAA
806685 TATT
1 TATT
806689 ATATAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
34 9 0.27
35 20 0.61
36 4 0.12
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (35 bp):
TATTTTTATATATAATAATAATATTTAAAATATAA
Found at i:806714 original size:27 final size:28
Alignment explanation
Indices: 806684--806746 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
806674 TTAATAATAA
806684 ATATTATATA-AATTTTAATATATTTAT-
1 ATATTATATATAATTTTAATAT-TTTATC
* * *
806711 ATATT-TATATTATTTTCATATTTTTTC
1 ATATTATATATAATTTTAATATTTTATC
806738 ATATTATAT
1 ATATTATAT
806747 CATATCTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 8 0.27
27 19 0.63
28 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (28 bp):
ATATTATATATAATTTTAATATTTTATC
Found at i:808491 original size:13 final size:12
Alignment explanation
Indices: 808473--808505 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
808463 TAATTTAAGG
808473 TATAATATAAAAA
1 TATAATAT-AAAA
808486 TATAATAT-AAA
1 TATAATATAAAA
808497 TATAATATA
1 TATAATATA
808506 TTTAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.58
13 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TATAATATAAAA
Found at i:808585 original size:14 final size:14
Alignment explanation
Indices: 808473--808589 Score: 61
Period size: 13 Copynumber: 8.7 Consensus size: 14
808463 TAATTTAAGG
808473 TATAATATAA-AAA
1 TATAATATAATAAA
808486 TAT-A-AT-ATAAA
1 TATAATATAATAAA
*
808497 TATAATATATTTAAA
1 TATAATATA-ATAAA
* * *
808512 TATATTAAAAT-AG
1 TATAATATAATAAA
** * *
808525 TGCAATA-AATTAG
1 TATAATATAATAAA
*
808538 TCATAATATATTTAAA
1 T-ATAATATA-ATAAA
808554 TATAAT-TAATAAA
1 TATAATATAATAAA
808567 -ATAATATAATAAA
1 TATAATATAATAAA
*
808580 TTTAATATAA
1 TATAATATAA
808590 ATATTGTATT
Statistics
Matches: 78, Mismatches: 15, Indels: 21
0.68 0.13 0.18
Matches are distributed among these distances:
10 1 0.01
11 8 0.10
12 10 0.13
13 24 0.31
14 15 0.19
15 17 0.22
16 3 0.04
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (14 bp):
TATAATATAATAAA
Found at i:809115 original size:33 final size:32
Alignment explanation
Indices: 809051--809144 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 32
809041 ACTTTGTCTC
* *
809051 ATATTTAAATATTTTGTTATATTAT-AA--TTT
1 ATATTTAAATAATTT-TTATTTTATAAATTTTT
*
809081 ATATTTAAA-ATATTTTTATTTATATAATTTTTT
1 ATATTTAAATA-ATTTTTATTT-TATAAATTTTT
*
809114 ATATTTTAATAATTTTTATTTTATAAATTTT
1 ATATTTAAATAATTTTTATTTTATAAATTTT
809145 AAAATATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
29 6 0.11
30 15 0.28
31 1 0.02
32 9 0.17
33 21 0.40
34 1 0.02
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (32 bp):
ATATTTAAATAATTTTTATTTTATAAATTTTT
Found at i:809125 original size:18 final size:17
Alignment explanation
Indices: 809078--809130 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
809068 TATATTATAA
*
809078 TTTATATTTAA-AATAT
1 TTTATATTTAATAATTT
809094 TTT-TATTTATATAATTT
1 TTTATATTTA-ATAATTT
809111 TTTATATTTTAATAATTT
1 TTTATA-TTTAATAATTT
809129 TT
1 TT
809131 ATTTTATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.19
16 4 0.12
17 7 0.22
18 11 0.34
19 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTATATTTAATAATTT
Found at i:809134 original size:24 final size:23
Alignment explanation
Indices: 809107--809161 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
809097 TATTTATATA
* * *
809107 ATTTTTTATATTTTAATAATTTTT
1 ATTTTATAAATTTTAA-AATATTT
809131 ATTTTATAAATTTTAAAATATTT
1 ATTTTATAAATTTTAAAATATTT
*
809154 ATATTATA
1 ATTTTATA
809162 TTATTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 13 0.48
24 14 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTATAAATTTTAAAATATTT
Found at i:809135 original size:15 final size:15
Alignment explanation
Indices: 809052--809145 Score: 52
Period size: 15 Copynumber: 6.1 Consensus size: 15
809042 CTTTGTCTCA
* *
809052 TATTTAAATATTTTGT
1 TATTTTAATAATTT-T
* *
809068 TATATT-ATAATTTA
1 TATTTTAATAATTTT
*
809082 TA-TTTAAAATATTTT
1 TATTTTAATA-ATTTT
809097 TA-TTTATATAATTTTTT
1 TATTTTA-ATAA--TTTT
809114 ATATTTTAATAATTTT
1 -TATTTTAATAATTTT
*
809130 TATTTT-ATAAATTT
1 TATTTTAATAATTTT
809144 TA
1 TA
809146 AAATATTTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
13 2 0.03
14 13 0.21
15 23 0.37
16 10 0.16
17 4 0.06
18 6 0.10
19 4 0.06
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (15 bp):
TATTTTAATAATTTT
Found at i:809135 original size:23 final size:22
Alignment explanation
Indices: 809109--809163 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
809099 TTTATATAAT
*
809109 TTTTTATATTTTAATAATTTTTA
1 TTTTTATATTTTAA-AATATTTA
*
809132 TTTTATAAATTTTAAAATATTTA
1 TTTT-TATATTTTAAAATATTTA
*
809155 -TATTATATT
1 TTTTTATATT
809164 ATTTATATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 5 0.19
22 2 0.07
23 11 0.41
24 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
TTTTTATATTTTAAAATATTTA
Found at i:809384 original size:20 final size:20
Alignment explanation
Indices: 809359--809419 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
809349 AAATTAAAAA
809359 AAAATATAATTTATATAAAT
1 AAAATATAATTTATATAAAT
*
809379 AAAATATAATAATTAAATTAAAT
1 AAAATATAAT--TTATA-TAAAT
809402 -AAATATTAATTT-TATAAA
1 AAAATA-TAATTTATATAAA
809420 AAATTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 4 0.11
20 11 0.31
21 2 0.06
22 9 0.26
23 9 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATATAATTTATATAAAT
Found at i:809390 original size:23 final size:21
Alignment explanation
Indices: 809353--809423 Score: 60
Period size: 23 Copynumber: 3.4 Consensus size: 21
809343 TCGATTAAAT
* *
809353 TAAAAAAAAATATAATTTATA
1 TAAATAAATATATAATTTATA
*
809374 TAAATAAA-ATATAATAATTAAA
1 TAAATAAATATATAAT--TTATA
809396 TTAAATAAATAT-TAATTT-TA
1 -TAAATAAATATATAATTTATA
809416 TAAA-AAAT
1 TAAATAAAT
809424 TATTTAAGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
18 4 0.09
19 4 0.09
20 8 0.19
21 9 0.21
22 4 0.09
23 12 0.28
24 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATAAATATATAATTTATA
Found at i:810453 original size:24 final size:26
Alignment explanation
Indices: 810421--810470 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
810411 ATTTTTTTTG
810421 AAAAATCAAA-T-AAAAGAGAAAAAT
1 AAAAATCAAATTAAAAAGAGAAAAAT
810445 AAAAATCAAATTCAAAAAGAGAAAAA
1 AAAAATCAAATT-AAAAAGAGAAAAA
810471 AAGAGAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
27 12 0.52
ACGTcount: A:0.74, C:0.06, G:0.08, T:0.12
Consensus pattern (26 bp):
AAAAATCAAATTAAAAAGAGAAAAAT
Found at i:811237 original size:8 final size:8
Alignment explanation
Indices: 811224--811256 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
811214 ACTGTACAAA
811224 TATATATT
1 TATATATT
811232 TATATATT
1 TATATATT
*
811240 TATATATA
1 TATATATT
811248 TATATATT
1 TATATATT
811256 T
1 T
811257 GGTTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATATATT
Found at i:814825 original size:29 final size:31
Alignment explanation
Indices: 814766--814836 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 31
814756 AAGTATTATC
*
814766 CAAACTTTAAAGAGATAAATAGAATTATTTT
1 CAAACTTTAAAGAGATAAATAGAACTATTTT
* *
814797 CAAA-TTTAAGAGAGAT-AATAGTACTTTTTT
1 CAAACTTTAA-AGAGATAAATAGAACTATTTT
* *
814827 CTAATTTTAA
1 CAAACTTTAA
814837 TAACTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
30 19 0.56
31 15 0.44
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (31 bp):
CAAACTTTAAAGAGATAAATAGAACTATTTT
Found at i:815234 original size:24 final size:23
Alignment explanation
Indices: 815189--815236 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
815179 ATAAAAGTTT
*
815189 TTTTTCCTTTTTAGATTTCTTTC
1 TTTTTCCTTTCTAGATTTCTTTC
815212 TTTTTCCTTCTCTAG-TTTGCTTTC
1 TTTTTCCTT-TCTAGATTT-CTTTC
815236 T
1 T
815237 CTCTTGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (23 bp):
TTTTTCCTTTCTAGATTTCTTTC
Found at i:815905 original size:28 final size:27
Alignment explanation
Indices: 815845--815905 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
815835 TAATAACATG
* *
815845 TCAAATTTTATATAAGTATGTAATATC
1 TCAAAATTTATATAAGTATGTAATATA
*
815872 TTAAAATTTATATAAGTATGTAATAATA
1 TCAAAATTTATATAAGTATGTAAT-ATA
815900 TCAAAA
1 TCAAAA
815906 GCAAAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 22 0.76
28 7 0.24
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.41
Consensus pattern (27 bp):
TCAAAATTTATATAAGTATGTAATATA
Found at i:816854 original size:2 final size:2
Alignment explanation
Indices: 816847--816876 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
816837 TGATGTATAT
816847 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
816877 ACACACACAC
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:818315 original size:16 final size:16
Alignment explanation
Indices: 818296--818330 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
818286 TTTTAGGTTC
*
818296 AAATTTTTTTAAATTT
1 AAATTATTTTAAATTT
818312 AAATTATTTTAAATTT
1 AAATTATTTTAAATTT
818328 AAA
1 AAA
818331 GAGTAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
AAATTATTTTAAATTT
Found at i:821527 original size:13 final size:13
Alignment explanation
Indices: 821479--821528 Score: 55
Period size: 13 Copynumber: 3.6 Consensus size: 13
821469 AGATATAAAC
821479 ATAATAAATATTA
1 ATAATAAATATTA
*
821492 TTATAATTAAATATTG
1 --ATAA-TAAATATTA
*
821508 ATCATAAATATTA
1 ATAATAAATATTA
821521 ATAATAAA
1 ATAATAAA
821529 AAAATTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 15 0.50
14 3 0.10
15 4 0.13
16 8 0.27
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATAATAAATATTA
Found at i:822493 original size:16 final size:15
Alignment explanation
Indices: 822470--822500 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
822460 ATTTTGATCA
822470 TTTTAAATTTAAATT
1 TTTTAAATTTAAATT
822485 TTTTAAAATTTAAATT
1 TTTT-AAATTTAAATT
822501 AAAGTTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTAAATTTAAATT
Found at i:824642 original size:10 final size:10
Alignment explanation
Indices: 824629--824653 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
824619 CTTTTAGCAT
824629 TTTTTTTTTG
1 TTTTTTTTTG
824639 TTTTTTTTTG
1 TTTTTTTTTG
824649 TTTTT
1 TTTTT
824654 GGCCCAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:825288 original size:18 final size:18
Alignment explanation
Indices: 825246--825288 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
825236 TCTTATAAAA
825246 TTTTATAAAATAATTTTG
1 TTTTATAAAATAATTTTG
* *
825264 TTGTAT-AAATAAATTTTT
1 TTTTATAAAAT-AATTTTG
825282 TTTTATA
1 TTTTATA
825289 TTTTACCCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTATAAAATAATTTTG
Found at i:826282 original size:52 final size:52
Alignment explanation
Indices: 826220--826324 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
826210 CGGTAGATTT
826220 TGTCCACATCATTTACTTTAACTCCCTTTCGCATTAATGATATTCCTAGGCA
1 TGTCCACATCATTTACTTTAACTCCCTTTCGCATTAATGATATTCCTAGGCA
826272 TGTCCACATCATTTACTTTAACTCCCTTTCGCATTAATGATATTCCTAGGCA
1 TGTCCACATCATTTACTTTAACTCCCTTTCGCATTAATGATATTCCTAGGCA
826324 T
1 T
826325 TTACACGAGA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.39
Consensus pattern (52 bp):
TGTCCACATCATTTACTTTAACTCCCTTTCGCATTAATGATATTCCTAGGCA
Found at i:831232 original size:5 final size:5
Alignment explanation
Indices: 831222--831262 Score: 57
Period size: 5 Copynumber: 8.4 Consensus size: 5
831212 GTGTTATCTG
* *
831222 TTATT TTA-T TTATT TTATC GTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
831263 TTTCAAATCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:836190 original size:29 final size:29
Alignment explanation
Indices: 836137--836193 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
836127 TTTCATTAAA
*
836137 AAAGAAAAAAAAAGGATAGAGAAAGAAAG
1 AAAGAAAAAAAAAGGATAGAAAAAGAAAG
836166 AAAGAAAGAAAAGAA-GA-AGAAAAAGAAA
1 AAAGAAA-AAAA-AAGGATAGAAAAAGAAA
836194 AAGAAACAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 17 0.68
30 6 0.24
31 2 0.08
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (29 bp):
AAAGAAAAAAAAAGGATAGAAAAAGAAAG
Found at i:836772 original size:11 final size:11
Alignment explanation
Indices: 836729--836764 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
836719 TATTTATTCT
*
836729 AAAAAAATGAA
1 AAAAAAAGGAA
*
836740 AAAAAAAAGAA
1 AAAAAAAGGAA
836751 AAAAAAAGGAA
1 AAAAAAAGGAA
836762 AAA
1 AAA
836765 GAATGGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAAAAAGGAA
Found at i:837918 original size:46 final size:43
Alignment explanation
Indices: 837862--837987 Score: 135
Period size: 46 Copynumber: 2.8 Consensus size: 43
837852 TACCTTTCTC
* *
837862 AAGGACTTTTTTTAACCTCTTTTGAGAATATTTTCAAAGCCTCTCTT
1 AAGGA-TTTTTTTAACCTCTCTTGAGAACATTTT---AGCCTCTCTT
*
837909 AAGGATTTTTTTAGCCTCTCTTGAGAACATTTTAGCCTCTCTT
1 AAGGATTTTTTTAACCTCTCTTGAGAACATTTTAGCCTCTCTT
* * *
837952 AAGGATCTTTTTCACATCTCTCTCGAAGAACATTTT
1 AAGGAT-TTTTTTA-ACCTCTCTTG-AGAACATTTT
837988 GGGTCTCTCT
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
43 16 0.23
44 6 0.09
45 7 0.10
46 35 0.51
47 5 0.07
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.43
Consensus pattern (43 bp):
AAGGATTTTTTTAACCTCTCTTGAGAACATTTTAGCCTCTCTT
Found at i:837924 original size:22 final size:22
Alignment explanation
Indices: 837899--837963 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
837889 ATATTTTCAA
*
837899 AGCCTCTCTTAAGGATTTTTTT
1 AGCCTCTCTTAAGGATCTTTTT
* * *
837921 AGCCTCTCTTGA-GAACATTTT
1 AGCCTCTCTTAAGGATCTTTTT
837942 AGCCTCTCTTAAGGATCTTTTT
1 AGCCTCTCTTAAGGATCTTTTT
837964 CACATCTCTC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.45
Consensus pattern (22 bp):
AGCCTCTCTTAAGGATCTTTTT
Found at i:837962 original size:21 final size:21
Alignment explanation
Indices: 837899--837962 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
837889 ATATTTTCAA
*
837899 AGCCTCTCTTAAGGATTTTTTT
1 AGCCTCTCTTAAGGA-TCTTTT
* *
837921 AGCCTCTCTTGA-GAACATTTT
1 AGCCTCTCTTAAGGATC-TTTT
837942 AGCCTCTCTTAAGGATCTTTT
1 AGCCTCTCTTAAGGATCTTTT
837963 TCACATCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 21 0.60
22 14 0.40
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (21 bp):
AGCCTCTCTTAAGGATCTTTT
Found at i:838054 original size:21 final size:20
Alignment explanation
Indices: 838030--838074 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
838020 TTAAGGATGT
*
838030 TTTTAGCCTCTTTTGAAGACA
1 TTTTAGCCTCTTTTG-AGAAA
*
838051 TTTTATCCTCTTTTGAGAAA
1 TTTTAGCCTCTTTTGAGAAA
838071 TTTT
1 TTTT
838075 TTAGCTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (20 bp):
TTTTAGCCTCTTTTGAGAAA
Found at i:838417 original size:23 final size:23
Alignment explanation
Indices: 838390--838441 Score: 72
Period size: 21 Copynumber: 2.3 Consensus size: 23
838380 ACTTAAAGAC
838390 ATTTTCATGCCTCTCTCGAGAAT
1 ATTTTCATGCCTCTCTCGAGAAT
* *
838413 GTTTT-A-GCCTCTCTCGAGGAT
1 ATTTTCATGCCTCTCTCGAGAAT
838434 ATTTTCAT
1 ATTTTCAT
838442 ACCTTCCATG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 18 0.75
22 2 0.08
23 4 0.17
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (23 bp):
ATTTTCATGCCTCTCTCGAGAAT
Found at i:838494 original size:24 final size:24
Alignment explanation
Indices: 838461--838562 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
838451 GATGACGTCT
*
838461 ATTTTCAAAGCCTTTCAT-GAGGAC
1 ATTTTCAAAGCCTTTC-TCGAAGAC
*
838485 ATTTTTAAAGCCTTTCTCGAAGAC
1 ATTTTCAAAGCCTTTCTCGAAGAC
* *
838509 ATTTTCATA--CTTCTCTCGAGGAC
1 ATTTTCAAAGCCTT-TCTCGAAGAC
* *
838532 ATTTT--TAGCCTATT-TCGAGGAC
1 ATTTTCAAAGCCT-TTCTCGAAGAC
838554 ATTTTCAAA
1 ATTTTCAAA
838563 ATCTCTATCA
Statistics
Matches: 65, Mismatches: 6, Indels: 14
0.76 0.07 0.16
Matches are distributed among these distances:
21 2 0.03
22 16 0.25
23 18 0.28
24 29 0.45
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.38
Consensus pattern (24 bp):
ATTTTCAAAGCCTTTCTCGAAGAC
Found at i:839948 original size:213 final size:213
Alignment explanation
Indices: 839712--840122 Score: 506
Period size: 213 Copynumber: 1.9 Consensus size: 213
839702 ATAGTACTTC
* * *** *
839712 TTAATGACTAAACAATATAGTATAGCAAAAAAAT-GGAAATTGGATTCCTT-TTAGTAAGAAGGA
1 TTAATGACAAAACAATATAGTATAACAAAAAAATAGG-AATCAAATTCCTTCTGA-TAAGAAGGA
* *** * * **
839775 AAAAAAACTTTATTGACTATTTTTGTCACATT-TCAAGAGT-AGACTAATGCAGGGATTCTTTAT
64 AAAAAAA-TTAATTGACTATAAATGTCACATTGTAAAGA-TAAGACTAATACAAAGATTCTTTAT
* * * * *
839838 AGGAAGATAAGTTTTTTTTACTCGCTCATGTTGCACGTGTACACAGGAGATAAATTAATGAAACT
127 AGGAAGATAAGTTTTTTTTACTCGCCCATATTGCACGTGTACAAAGGAGATAAAGTAATGAAACC
839903 ATTATAAGTATGGTAGTGTCTA
192 ATTATAAGTATGGTAGTGTCTA
* * * * *
839925 TTAATGACAAAATAATGTAGTATAATAAAAGAATAGGAATCAAATTCCTTCTGATAGGAAGGAAA
1 TTAATGACAAAACAATATAGTATAACAAAAAAATAGGAATCAAATTCCTTCTGATAAGAAGGAAA
*
839990 AAAAATTAATTGATTATAAATGTCACATTGTAAAGATAAGACTAATACAAAGATTCTTTATAGGA
66 AAAAATTAATTGACTATAAATGTCACATTGTAAAGATAAGACTAATACAAAGATTCTTTATAGGA
* * *
840055 AGATAAGTTTTTTTTACTCTCCCATATTGCATGTGTACAAAGGAGATAAAGTGATGAAACCATTA
131 AGATAAGTTTTTTTTACTCGCCCATATTGCACGTGTACAAAGGAGATAAAGTAATGAAACCATTA
840120 TAA
196 TAA
840123 ATATAATAGT
Statistics
Matches: 166, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
212 20 0.12
213 142 0.86
214 4 0.02
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (213 bp):
TTAATGACAAAACAATATAGTATAACAAAAAAATAGGAATCAAATTCCTTCTGATAAGAAGGAAA
AAAAATTAATTGACTATAAATGTCACATTGTAAAGATAAGACTAATACAAAGATTCTTTATAGGA
AGATAAGTTTTTTTTACTCGCCCATATTGCACGTGTACAAAGGAGATAAAGTAATGAAACCATTA
TAAGTATGGTAGTGTCTA
Found at i:842641 original size:2 final size:2
Alignment explanation
Indices: 842636--842665 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
842626 CACAGATTTA
842636 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
842666 TGTAATATCT
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):
AT
Done.