Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold189
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: 2243555
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 25 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:757634 original size:25 final size:25
Alignment explanation
Indices: 757591--757659 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
757581 ATTAAAATTA
*
757591 AATAAA-AATAAATAATAATAT-TT
1 AATAAATAATATATAATAATATATT
757614 AAATAATATAAT-TATAATAATATATT
1 -AATAA-ATAATATATAATAATATATT
*
757640 AATAAATAATATAAAATAAT
1 AATAAATAATATATAATAAT
757660 GTAATAATTG
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
24 10 0.26
25 24 0.62
26 5 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
AATAAATAATATATAATAATATATT
Found at i:757667 original size:25 final size:25
Alignment explanation
Indices: 757615--757667 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
757605 ATAATATTTA
* *
757615 AATAATATAATTATAATAATATATT
1 AATAATATAATTAAAATAATATAAT
*
757640 AATAA-ATAATATAAAATAATGTAAT
1 AATAATATAAT-TAAAATAATATAAT
757665 AAT
1 AAT
757668 TGCAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
AATAATATAATTAAAATAATATAAT
Found at i:758749 original size:2 final size:2
Alignment explanation
Indices: 758738--758774 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
758728 GTTGCTCCTG
758738 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
758775 TTTGGCTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:767856 original size:10 final size:10
Alignment explanation
Indices: 767837--767869 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
767827 GAAGAAAGAC
*
767837 AGAAAGAAAA
1 AGAAAAAAAA
767847 AGAAAAAAAA
1 AGAAAAAAAA
767857 A-AAAAAAAA
1 AGAAAAAAAA
767866 AGAA
1 AGAA
767870 GACACCAGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.43
10 12 0.57
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:768369 original size:2 final size:2
Alignment explanation
Indices: 768362--768392 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
768352 TTGCTGTGAC
768362 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
768393 AAGCAGTGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:771167 original size:2 final size:2
Alignment explanation
Indices: 771160--771184 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
771150 TATTTAGGCT
771160 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
771185 CTTAAACACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:771646 original size:2 final size:2
Alignment explanation
Indices: 771641--771668 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
771631 TTTTTTTTAA
771641 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
771669 GAAGCATTGC
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:782834 original size:21 final size:21
Alignment explanation
Indices: 782810--782849 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
782800 AATATTAATT
782810 TAATTTAACAAT-AATTAAAGA
1 TAATTTAA-AATCAATTAAAGA
782831 TAATTTAAAATCAATTAAA
1 TAATTTAAAATCAATTAAA
782850 ATTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.35
Consensus pattern (21 bp):
TAATTTAAAATCAATTAAAGA
Found at i:783006 original size:21 final size:24
Alignment explanation
Indices: 782980--783031 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 24
782970 TCTTTAACCA
782980 AATTTT-AAAAAAT-AAA-TAAAT
1 AATTTTCAAAAAATAAAACTAAAT
*
783001 AATTTTCAAAAATTAAAACTAAAT
1 AATTTTCAAAAAATAAAACTAAAT
783025 ATATTTT
1 A-ATTTT
783032 TCATCTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 6 0.23
22 6 0.23
23 3 0.12
24 6 0.23
25 5 0.19
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
AATTTTCAAAAAATAAAACTAAAT
Found at i:785401 original size:2 final size:2
Alignment explanation
Indices: 785394--785425 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
785384 ATTTTTACTG
785394 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
785426 TTTGCATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:788283 original size:2 final size:2
Alignment explanation
Indices: 788276--788309 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
788266 TCGTTGAAAG
788276 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
788310 GTTGATCCCT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:788434 original size:10 final size:10
Alignment explanation
Indices: 788419--788481 Score: 53
Period size: 10 Copynumber: 6.6 Consensus size: 10
788409 AAAAAAAAAG
788419 TATATTTTAT
1 TATATTTTAT
*
788429 TATATTATAT
1 TATATTTTAT
788439 TA-ATTTTA-
1 TATATTTTAT
* *
788447 -ATATATTAA
1 TATATTTTAT
788456 TATATTTT-T
1 TATATTTTAT
*
788465 TAATTTTTTAT
1 T-ATATTTTAT
788476 TATATT
1 TATATT
788482 GATATGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.02
8 5 0.12
9 6 0.15
10 27 0.66
11 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATATTTTAT
Found at i:788464 original size:19 final size:17
Alignment explanation
Indices: 788419--788463 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
788409 AAAAAAAAAG
*
788419 TATATTTTATTATATTA
1 TATATTTTAATATATTA
788436 TATTAATTTTAATATATTAA
1 TA-T-ATTTTAATATATT-A
788456 TATATTTT
1 TATATTTT
788464 TTAATTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 13 0.54
20 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATATTTTAATATATTA
Found at i:788479 original size:20 final size:21
Alignment explanation
Indices: 788431--788481 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
788421 TATTTTATTA
788431 TATTATATTAATTTTAATATAT
1 TATTATATT-ATTTTAATATAT
* * *
788453 TAATATATT-TTTTAATTTTT
1 TATTATATTATTTTAATATAT
788473 TATTATATT
1 TATTATATT
788482 GATATGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
22 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TATTATATTATTTTAATATAT
Found at i:789893 original size:19 final size:17
Alignment explanation
Indices: 789871--789921 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 17
789861 TTTTTGTATG
789871 ATATATTAATATTTTATTA
1 ATAT-TTAATATTTT-TTA
789890 ATATTTAAATAATTTTTTA
1 ATATTT-AAT-ATTTTTTA
789909 ATATTTTAATATT
1 ATA-TTTAATATT
789922 ATTAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.17
19 16 0.55
20 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATTTAATATTTTTTA
Found at i:789937 original size:12 final size:12
Alignment explanation
Indices: 789918--789947 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
789908 AATATTTTAA
789918 TATTATTAAATT
1 TATTATTAAATT
*
789930 TTTTATTAAATT
1 TATTATTAAATT
789942 TATTAT
1 TATTAT
789948 AATTATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
TATTATTAAATT
Found at i:789943 original size:27 final size:26
Alignment explanation
Indices: 789900--789952 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
789890 ATATTTAAAT
* *
789900 AATTTTTTAATATTTTAATATTATTA
1 AATTTTTTAATAATTTAATATAATTA
* *
789926 AATTTTTTATTAAATTTATTATAATTA
1 AATTTTTTAAT-AATTTAATATAATTA
789953 TAAATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AATTTTTTAATAATTTAATATAATTA
Found at i:790650 original size:3 final size:3
Alignment explanation
Indices: 790642--790669 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
790632 TTTATAGCCT
790642 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
790670 CAATGTAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:791381 original size:17 final size:17
Alignment explanation
Indices: 791359--791410 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
791349 TTAAAATAAT
791359 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
*
791376 TAAAATATTTTA-AAATA
1 TAAAAT-TTATATAAATA
* * *
791393 TTATATATATATAAATA
1 TAAAATTTATATAAATA
791410 T
1 T
791411 TATATGAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 3 0.11
17 21 0.75
18 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:791397 original size:26 final size:27
Alignment explanation
Indices: 791350--791411 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
791340 TTATAACGAT
* *
791350 TAAAATA-ATTAAAATTTATATAAATA
1 TAAAATATTTTAAAATATATATAAATA
*
791376 TAAAATATTTTAAAATAT-TATATATA
1 TAAAATATTTTAAAATATATATAAATA
791402 TATAAATATT
1 TA-AAATATT
791412 ATATGAATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (27 bp):
TAAAATATTTTAAAATATATATAAATA
Found at i:791405 original size:28 final size:27
Alignment explanation
Indices: 791358--791411 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
791348 ATTAAAATAA
791358 TTAAAATTTATATAAATATAAAATATT
1 TTAAAATTTATATAAATATAAAATATT
*
791385 TTAAAATATTATATATATAT-AAATATT
1 TTAAAAT-TTATATAAATATAAAATATT
791412 ATATGAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TTAAAATTTATATAAATATAAAATATT
Found at i:791411 original size:17 final size:17
Alignment explanation
Indices: 791366--791424 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
791356 AATTAAAATT
* *
791366 TATATAAATATAAAATA
1 TATATAAATATTATATA
*
791383 T-TTTAAAATATTATATA
1 TATAT-AAATATTATATA
791400 TATATAAATATTATATGA
1 TATATAAATATTATAT-A
791418 -ATATAAA
1 TATATAAA
791425 AAATAGTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 2 0.06
17 30 0.86
18 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TATATAAATATTATATA
Found at i:791421 original size:28 final size:28
Alignment explanation
Indices: 791350--791414 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
791340 TTATAACGAT
*
791350 TAAAATAAT-TAAAAT-TTATATAAATA
1 TAAAATATTATAAAATATTATATAAATA
* *
791376 TAAAATATTTTAAAATATTATATATATA
1 TAAAATATTATAAAATATTATATAAATA
791404 T-AAATATTATA
1 TAAAATATTATA
791415 TGAATATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 8 0.24
27 15 0.44
28 11 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAAATATTATAAAATATTATATAAATA
Found at i:800703 original size:19 final size:20
Alignment explanation
Indices: 800679--800719 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
800669 CTTTTAAATA
800679 TATATATATATATAAAATAAT
1 TATATATATATA-AAAATAAT
*
800700 TATATATATTTAAAAATAAT
1 TATATATATATAAAAATAAT
800720 AATAATAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATATATATAAAAATAAT
Found at i:800720 original size:23 final size:23
Alignment explanation
Indices: 800677--800722 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
800667 TTCTTTTAAA
*
800677 TATATATATATATATAAAATAAT
1 TATATATATATATAAAAAATAAT
*
800700 TATATATATTTA-AAAATAATAAT
1 TATATATATATATAAAA-AATAAT
800723 AATAAGTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATATATATATATAAAAAATAAT
Found at i:806848 original size:2 final size:2
Alignment explanation
Indices: 806835--806868 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
806825 AGTTAAAGAA
* *
806835 AT AT AT AC AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806869 GTGAATTGAC
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:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:811681 original size:2 final size:2
Alignment explanation
Indices: 811674--811706 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
811664 ATCTTTGATC
811674 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 A
811707 GTGTTTTTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:813311 original size:26 final size:27
Alignment explanation
Indices: 813249--813313 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
813239 ACTTTTTGTG
* *
813249 TTTGTCAACAATGGTGGTTATTTTATA
1 TTTGTCAAAAATGGTGATTATTTTATA
* *
813276 TTTATCAAAAATGGTGATTCTTTT-TA
1 TTTGTCAAAAATGGTGATTATTTTATA
*
813302 TTTGTAAAAAAT
1 TTTGTCAAAAAT
813314 TATGACTTAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGATTATTTTATA
Found at i:813437 original size:13 final size:13
Alignment explanation
Indices: 813398--813444 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
813388 GGCTCCCTCT
*
813398 TCTCTCTCAAGTA
1 TCTCTCTCAAGCA
*
813411 TC-CTTCTTAAGCA
1 TCTC-TCTCAAGCA
813424 TCTCTCTCAAGCA
1 TCTCTCTCAAGCA
*
813437 TCCCTCTC
1 TCTCTCTC
813445 TTATATTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.36
Consensus pattern (13 bp):
TCTCTCTCAAGCA
Found at i:817617 original size:27 final size:27
Alignment explanation
Indices: 817578--817643 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
817568 GCCACTCATG
*
817578 TTTGTCAACAATGGTGGTTACTTTATA
1 TTTGTCAAAAATGGTGGTTACTTTATA
* * *
817605 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAAATGGTGGTTACTTTATA
*
817632 TTTATCAAAAAT
1 TTTGTCAAAAAT
817644 TATGGCTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.45
Consensus pattern (27 bp):
TTTGTCAAAAATGGTGGTTACTTTATA
Found at i:817673 original size:24 final size:24
Alignment explanation
Indices: 817605--817674 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
817595 TTACTTTATA
* *
817605 TTTGTCAAAAATGGTGGTTCCTTTTTG
1 TTTGTCAAAATTGGTGG---CTTATTG
* *
817632 TTTATCAAAAATT-ATGGCTTATTG
1 TTTGTC-AAAATTGGTGGCTTATTG
817656 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAATTGGTGGCT
817675 AATTTTTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
23 6 0.17
24 16 0.46
27 8 0.23
28 5 0.14
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAATTGGTGGCTTATTG
Found at i:817764 original size:13 final size:12
Alignment explanation
Indices: 817730--817773 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
817720 CTCTCTCCTC
*
817730 CCTCTCAAGTAT
1 CCTCTCAAGCAT
*
817742 CCTCTTAAGCAT
1 CCTCTCAAGCAT
817754 CTCTCTCAAGCAT
1 C-CTCTCAAGCAT
817767 CCCTCTC
1 -CCTCTC
817774 TTGTATCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.41
13 15 0.56
14 1 0.04
ACGTcount: A:0.20, C:0.41, G:0.07, T:0.32
Consensus pattern (12 bp):
CCTCTCAAGCAT
Found at i:820317 original size:13 final size:13
Alignment explanation
Indices: 820301--820349 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
820291 AGGGATATAA
*
820301 GAGAGGGATCCTT
1 GAGAGGGATGCTT
*
820314 GAGAGAGATGCTT
1 GAGAGGGATGCTT
*
820327 AAGAGGGATGCTT
1 GAGAGGGATGCTT
820340 GAGAGGGATG
1 GAGAGGGATG
820350 AGGGAGCCTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.43, T:0.20
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:820318 original size:26 final size:26
Alignment explanation
Indices: 820289--820350 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
820279 AAAGAATTGA
820289 AGAGGGAT-ATAAGAGAGGGATCCTTG
1 AGAGGGATGATAA-AGAGGGATCCTTG
* * * *
820315 AGAGAGATGCTTAAGAGGGATGCTTG
1 AGAGGGATGATAAAGAGGGATCCTTG
820341 AGAGGGATGA
1 AGAGGGATGA
820351 GGGAGCCTCC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
26 27 0.93
27 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.40, T:0.19
Consensus pattern (26 bp):
AGAGGGATGATAAAGAGGGATCCTTG
Found at i:820429 original size:24 final size:24
Alignment explanation
Indices: 820401--820446 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
820391 AATAAAAATT
820401 AGCCACCAA-TTTTGACAAACAATA
1 AGCCA-CAATTTTTGACAAACAATA
*
820425 AGCCATAATTTTTGACAAACAA
1 AGCCACAATTTTTGACAAACAA
820447 AAAGGAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (24 bp):
AGCCACAATTTTTGACAAACAATA
Found at i:820465 original size:27 final size:27
Alignment explanation
Indices: 820410--820505 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 27
820400 TAGCCACCAA
* *
820410 TTTTGACAAACAATAA-G--CCATAAT
1 TTTTGACAAACAAAAAGGAACCATCAT
820434 TTTTGACAAACAAAAAGGAACCATCAT
1 TTTTGACAAACAAAAAGGAACCATCAT
* * * *
820461 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAACAAAAAGGAACCATCAT
* *
820488 TGTTGACAAACACAAAGG
1 TTTTGACAAACAAAAAGG
820506 GTGGCTTTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
24 15 0.25
25 1 0.02
27 44 0.73
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (27 bp):
TTTTGACAAACAAAAAGGAACCATCAT
Found at i:824878 original size:13 final size:13
Alignment explanation
Indices: 824862--824908 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
824852 AAGGATACAA
*
824862 GAGAGGGATCCTT
1 GAGAGGGATGCTT
*
824875 GAGAGAGATGCTT
1 GAGAGGGATGCTT
*
824888 AAGAGGGATGCTT
1 GAGAGGGATGCTT
824901 GAGAGGGA
1 GAGAGGGA
824909 CGAGGGAGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.43, T:0.19
Consensus pattern (13 bp):
GAGAGGGATGCTT
Found at i:825063 original size:27 final size:27
Alignment explanation
Indices: 824997--825064 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
824987 GTTATAATTT
* * * *
824997 TTGACAAACAAAAAGGAACTATTATTT
1 TTGACAAACACAAAGGAACCATCATTA
* * * *
825024 TTTATAAATACAAAGTAACCATCATTA
1 TTGACAAACACAAAGGAACCATCATTA
825051 TTGACAAACACAAA
1 TTGACAAACACAAA
825065 AGATGACTTT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (27 bp):
TTGACAAACACAAAGGAACCATCATTA
Found at i:828966 original size:3 final size:3
Alignment explanation
Indices: 828954--828983 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
828944 GGGTAATTTT
828954 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
828984 CCAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:833238 original size:21 final size:22
Alignment explanation
Indices: 833212--833257 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
833202 ATTTGTTGAA
* *
833212 ACTCCACCTGTTTCGGAGTA-T
1 ACTCCACCTGCTACGGAGTACT
833233 ACTCCACCTGCTACGGAGTACT
1 ACTCCACCTGCTACGGAGTACT
833255 ACT
1 ACT
833258 TGTCTGAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (22 bp):
ACTCCACCTGCTACGGAGTACT
Found at i:835744 original size:13 final size:13
Alignment explanation
Indices: 835718--835751 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
835708 AAGGGATATA
*
835718 AGAGAGGATGCTTG
1 AGAG-GGATACTTG
835732 AGAGGGATACTTG
1 AGAGGGATACTTG
835745 AGAGGGA
1 AGAGGGA
835752 GGATGGAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.32, C:0.06, G:0.44, T:0.18
Consensus pattern (13 bp):
AGAGGGATACTTG
Found at i:835872 original size:27 final size:26
Alignment explanation
Indices: 835837--835903 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
835827 ATGTCACCAA
**
835837 TTTTGACAAATAAAAAGAAATTATAAT
1 TTTTGACAAATAAAAA-AAACCATAAT
* *
835864 TTTTGACAAACACAAAATAACCATAAT
1 TTTTGACAAATA-AAAAAAACCATAAT
835891 TTTTGACAAATAA
1 TTTTGACAAATAA
835904 TAGATAGTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.03
27 29 0.85
28 4 0.12
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.31
Consensus pattern (26 bp):
TTTTGACAAATAAAAAAAACCATAAT
Found at i:836111 original size:11 final size:11
Alignment explanation
Indices: 836097--836134 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
836087 TCTTTTTCTC
836097 TTTTTT-ATTT
1 TTTTTTCATTT
836107 TTTTTTCATTT
1 TTTTTTCATTT
*
836118 TTTCTTCGATTT
1 TTTTTTC-ATTT
836130 TTTTT
1 TTTTT
836135 AACACCAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 6 0.25
11 10 0.42
12 8 0.33
ACGTcount: A:0.08, C:0.08, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:836475 original size:24 final size:26
Alignment explanation
Indices: 836434--836482 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
836424 TTTTTATATT
836434 AATATTTATAATTATATTTAAATAAA
1 AATATTTATAATTATATTTAAATAAA
*
836460 AATATTTTTAA-T-TATTTAAATAA
1 AATATTTATAATTATATTTAAATAA
836483 TAATTCAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 1 0.05
26 10 0.45
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AATATTTATAATTATATTTAAATAAA
Found at i:837446 original size:84 final size:85
Alignment explanation
Indices: 837289--837462 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 85
837279 GACCAATAGC
* ** * * * *
837289 TAGCCCCTTAATATATGCTTGAAGTTGGAAATAATTATAAGATGTTGTCCTACACTTTTTCCTAT
1 TAGCACCTTAATATATGCTTGAAAATGAAAATAATTATAAAATGTTGACCTA-ACTCTTTCCTAT
*
837354 TTATTTGTATTTCAATATGTT
65 TTATTTGTATTTCAATATATT
837375 TAGCACCTT-ATATATGCTTGAAAATGCAAAATAATTATAAAATAGTT-ACCT-ACTCTTTCCTA
1 TAGCACCTTAATATATGCTTGAAAATG-AAAATAATTATAAAAT-GTTGACCTAACTCTTTCCTA
837437 TTTATTTGTATTTCAATATATT
64 TTTATTTGTATTTCAATATATT
837459 TAGC
1 TAGC
837463 TTATAGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
84 35 0.45
85 15 0.19
86 25 0.32
87 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (85 bp):
TAGCACCTTAATATATGCTTGAAAATGAAAATAATTATAAAATGTTGACCTAACTCTTTCCTATT
TATTTGTATTTCAATATATT
Found at i:838042 original size:22 final size:22
Alignment explanation
Indices: 838017--838071 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
838007 TTACATAATA
* **
838017 ATATTATATATAATTATTCTTT
1 ATATTATATATAATTATACAAT
*
838039 ATATGATATA-AATTATACAAT
1 ATATTATATATAATTATACAAT
838060 ATATTA-ATATAA
1 ATATTATATATAA
838072 AGATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 9 0.33
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTATATATAATTATACAAT
Found at i:839337 original size:3 final size:3
Alignment explanation
Indices: 839325--839357 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
839315 GGGTAATTTT
839325 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
839358 CCAAATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:840951 original size:2 final size:2
Alignment explanation
Indices: 840944--840980 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
840934 TGACTTTATT
840944 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
840981 TCACAACTTC
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:842516 original size:28 final size:27
Alignment explanation
Indices: 842485--842543 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
842475 TAGATTTTAA
*
842485 AATAATTTCACTTTTCTT-TTAAGATTT
1 AATAATATC-CTTTTCTTCTTAAGATTT
* *
842512 GAATAATATCTTTTTTTTCTTAAGATTT
1 -AATAATATCCTTTTCTTCTTAAGATTT
842540 AATA
1 AATA
842544 TAAAATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.32, C:0.08, G:0.05, T:0.54
Consensus pattern (27 bp):
AATAATATCCTTTTCTTCTTAAGATTT
Found at i:842957 original size:35 final size:35
Alignment explanation
Indices: 842882--842958 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
842872 TAATTTTGAT
*
842882 ATTAA-TATATTATGTTATTTTTATTTAAAAATAA
1 ATTAATTATATTATGTTAATTTTATTTAAAAATAA
* *
842916 ACTAATTATCATTATTTTAATTTT-TTTAAATAA-AA
1 ATTAATTAT-ATTATGTTAATTTTATTTAAA-AATAA
842951 ATTAATTA
1 ATTAATTA
842959 AAATATTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.11
35 18 0.50
36 14 0.39
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.52
Consensus pattern (35 bp):
ATTAATTATATTATGTTAATTTTATTTAAAAATAA
Found at i:844057 original size:13 final size:14
Alignment explanation
Indices: 844032--844061 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
844022 TGAAGTGATT
844032 AATTTAGTAAAAAA
1 AATTTAGTAAAAAA
844046 AATTTA-TAAAAAA
1 AATTTAGTAAAAAA
844059 AAT
1 AAT
844062 AAGAAGAACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (14 bp):
AATTTAGTAAAAAA
Found at i:844961 original size:27 final size:28
Alignment explanation
Indices: 844927--844997 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
844917 GCCACCCATT
844927 TGTTTGTCAAAAATGGTAGTTAT-TTTG
1 TGTTTGTCAAAAATGGTAGTTATCTTTG
*
844954 TGTTTGTCAAAAATGGTAGTTTTCTTTG
1 TGTTTGTCAAAAATGGTAGTTATCTTTG
*
844982 -GATTTGTCAAATATGG
1 TG-TTTGTCAAAAATGG
844998 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.46
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTAGTTATCTTTG
Found at i:849520 original size:27 final size:28
Alignment explanation
Indices: 849486--849556 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
849476 GCCACCCATT
849486 TGTTTGTCAAAAATGGTGGTTAT-TTTG
1 TGTTTGTCAAAAATGGTGGTTATCTTTG
*
849513 TGTTTGTCAAAAATGGTGGTTTTCTTTG
1 TGTTTGTCAAAAATGGTGGTTATCTTTG
*
849541 -GATTTGTCAAATATGG
1 TG-TTTGTCAAAAATGG
849557 AGGCTTGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.57
28 17 0.43
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (28 bp):
TGTTTGTCAAAAATGGTGGTTATCTTTG
Found at i:851678 original size:2 final size:2
Alignment explanation
Indices: 851671--851709 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
851661 GATGAATCTG
851671 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
851710 GATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:851716 original size:2 final size:2
Alignment explanation
Indices: 851711--851735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
851701 CTCTCTCTCG
851711 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
851736 ATCTCAGTTA
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:852343 original size:44 final size:43
Alignment explanation
Indices: 852257--852379 Score: 201
Period size: 44 Copynumber: 2.8 Consensus size: 43
852247 TTGTTAGAAT
*
852257 TTGGGTGGCTATGCCAATCCACGAAAAATAAATCAATATGCAA
1 TTGGGTGGCTATGCCAATCCACGAAAAATAAATAAATATGCAA
*
852300 TTGGATGGCTATGCCAATCCACGAAAAAATAAATAAATATGCAA
1 TTGGGTGGCTATGCCAATCCACG-AAAAATAAATAAATATGCAA
*
852344 TTGGGTGGCTATGCCAATCCATGGAAAAATAAATAA
1 TTGGGTGGCTATGCCAATCCA-CGAAAAATAAATAA
852380 TAAAAACATC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 22 0.30
44 51 0.69
45 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.19, T:0.24
Consensus pattern (43 bp):
TTGGGTGGCTATGCCAATCCACGAAAAATAAATAAATATGCAA
Found at i:857118 original size:44 final size:44
Alignment explanation
Indices: 857034--857149 Score: 198
Period size: 44 Copynumber: 2.7 Consensus size: 44
857024 TTGTTAGAAT
*
857034 TTGGGTGGCTATGCCAATTCAC-GAAAAATAAATCAATATGCAA
1 TTGGGTGGCTATGCCAATTCACGGAAAAATAAATAAATATGCAA
*
857077 TTGGGTGGCTATGCCAATCCACGGAAAAATAAATAAATATGCAA
1 TTGGGTGGCTATGCCAATTCACGGAAAAATAAATAAATATGCAA
*
857121 TTGGGTGGCTATGCCAATTCATGGAAAAA
1 TTGGGTGGCTATGCCAATTCACGGAAAAA
857150 ATAATAATAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
43 21 0.31
44 47 0.69
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (44 bp):
TTGGGTGGCTATGCCAATTCACGGAAAAATAAATAAATATGCAA
Found at i:857538 original size:17 final size:18
Alignment explanation
Indices: 857511--857546 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
857501 TATACAACTT
*
857511 TTAATTTTTTATTTTAAA
1 TTAATTTTTTAATTTAAA
857529 TTAA-TTTTTAATTTAAA
1 TTAATTTTTTAATTTAAA
857546 T
1 T
857547 AACTGTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTAATTTTTTAATTTAAA
Found at i:861298 original size:18 final size:18
Alignment explanation
Indices: 861275--861329 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
861265 ATTTAAAATA
861275 TTTAATATTTATATTAAT
1 TTTAATATTTATATTAAT
861293 TTTAATATATTA-A-TAA-
1 TTTAATAT-TTATATTAAT
*
861309 -TTAATA-TTATATAAAT
1 TTTAATATTTATATTAAT
861325 TTTAA
1 TTTAA
861330 AATATATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
13 3 0.10
14 1 0.03
15 8 0.26
17 7 0.23
18 9 0.29
19 3 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAATATTTATATTAAT
Found at i:861326 original size:32 final size:33
Alignment explanation
Indices: 861271--861334 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
861261 TTATATTTAA
* * *
861271 AATATTTAATATTTATATTAATTTTAATATATT
1 AATAATTAATATTTATATAAATTTTAAAATATT
861304 AATAATTAATA-TTATATAAATTTTAAAATAT
1 AATAATTAATATTTATATAAATTTTAAAATAT
861335 ATATATATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.64
33 10 0.36
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
AATAATTAATATTTATATAAATTTTAAAATATT
Found at i:861342 original size:27 final size:27
Alignment explanation
Indices: 861266--861347 Score: 67
Period size: 32 Copynumber: 2.9 Consensus size: 27
861256 GATAATTATA
* *
861266 TTTAAAATATTTA-ATATTTATATTAAT
1 TTTAAAATATATATATA-TTATATAAAT
*
861293 TTTAATATATTAATAATTAATATTATATAAAT
1 TTTAAAATA-T-AT-A-T-ATATTATATAAAT
*
861325 TTTAAAATATATATATATCATAT
1 TTTAAAATATATATATATTATAT
861348 CTATTATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
27 16 0.36
28 2 0.05
29 2 0.05
30 3 0.07
31 1 0.02
32 17 0.39
33 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTAAAATATATATATATTATATAAAT
Found at i:861581 original size:35 final size:34
Alignment explanation
Indices: 861524--861641 Score: 150
Period size: 34 Copynumber: 3.5 Consensus size: 34
861514 TCTATATTAT
*
861524 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGTTTGCC
* *
861557 ATTATTGAATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTG-ATTAAATGGGTGATTTGGTAGTTTGCC
* * *
861592 ATTGTTGACTAAATAGGAGATTTGGTAAG-TTGCC
1 ATTGTTGATTAAATGGGTGATTTGGT-AGTTTGCC
861626 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
861642 TGGTTTTTAC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
33 6 0.08
34 42 0.58
35 24 0.33
ACGTcount: A:0.26, C:0.06, G:0.26, T:0.42
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGTTTGCC
Found at i:861972 original size:19 final size:19
Alignment explanation
Indices: 861946--862002 Score: 87
Period size: 19 Copynumber: 3.0 Consensus size: 19
861936 TTGGTTGTCG
861946 AGGTACTATTCACGTATAC
1 AGGTACTATTCACGTATAC
*
861965 ATGTACTATTCACGTATAC
1 AGGTACTATTCACGTATAC
* *
861984 GGGCACTATTCACGTATAC
1 AGGTACTATTCACGTATAC
862003 GGTTACTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (19 bp):
AGGTACTATTCACGTATAC
Found at i:866131 original size:34 final size:34
Alignment explanation
Indices: 866074--866257 Score: 230
Period size: 34 Copynumber: 5.5 Consensus size: 34
866064 AAGTGGGAGA
*
866074 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * * *
866107 ATTGTTAATTAAATGGGTGATTTGGTGGTTTGCC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
866141 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* *
866175 ATTGTTGATTAAATGGGTGATTTGGTGGCTTAAC
1 ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
* * *
866209 ATTGTTGACTAAAT-GGAGATTTGGTAAG-TTGCC
1 ATTGTTGATTAAATGGGTGATTTGGT-AGCTTACC
866242 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
866258 TAGTTTTTAC
Statistics
Matches: 129, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
33 39 0.30
34 90 0.70
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGTGATTTGGTAGCTTACC
Found at i:866186 original size:68 final size:66
Alignment explanation
Indices: 866074--866257 Score: 269
Period size: 68 Copynumber: 2.7 Consensus size: 66
866064 AAGTGGGAGA
* * * * *
866074 ATTGTTGATTAAATGGTGATTTGGTAGTTTACCATTGTTAATTAAATGGGTGATTTGGTGGTTTG
1 ATTGTTGACTAAATGGAGATTTGGTAG-TTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTA
*
866139 CC
65 AC
866141 ATTGTTGACTAAATGGGAGATTTGGTAGCTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
1 ATTGTTGACTAAAT-GGAGATTTGGTAG-TTACCATTGTTGATTAAATGGGTGATTTGGTGGCTT
866206 AAC
64 AAC
*
866209 ATTGTTGACTAAATGGAGATTTGGTAAGTTGCCATTGTTGATTAAATGG
1 ATTGTTGACTAAATGGAGATTTGGT-AGTTACCATTGTTGATTAAATGG
866258 TAGTTTTTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
67 44 0.41
68 63 0.59
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (66 bp):
ATTGTTGACTAAATGGAGATTTGGTAGTTACCATTGTTGATTAAATGGGTGATTTGGTGGCTTAA
C
Found at i:866843 original size:17 final size:20
Alignment explanation
Indices: 866816--866864 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
866806 AAAAAAACAG
*
866816 AATATTATTTAAA-A-TAAT
1 AATAATATTTAAATATTAAT
866834 AATAAT-TTTAAATATTTAAT
1 AATAATATTTAAATA-TTAAT
866854 AATAATATTTA
1 AATAATATTTA
866865 TATTTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 6 0.23
20 10 0.38
21 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATATTTAAATATTAAT
Found at i:870195 original size:2 final size:2
Alignment explanation
Indices: 870190--870229 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
870180 TCTCTCTCTC
*
870190 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
870230 ATCTCAGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:873945 original size:1 final size:1
Alignment explanation
Indices: 873934--873969 Score: 54
Period size: 1 Copynumber: 36.0 Consensus size: 1
873924 ACCATGCAAC
* *
873934 TTTTATTTTTTTTTTCTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
873970 GCCCTTGGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.03, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:874667 original size:14 final size:14
Alignment explanation
Indices: 874624--874687 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 14
874614 AATAATTTAT
874624 ATTATATTTATAT-
1 ATTATATTTATATA
* *
874637 ATTTTATTATAACATA
1 ATTATATT-T-ATATA
*
874653 ATTATATTTTTATA
1 ATTATATTTATATA
874667 ACTTAATATTTATATA
1 A-TT-ATATTTATATA
874683 ATTAT
1 ATTAT
874688 GTTAAATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.17
14 7 0.17
15 8 0.20
16 18 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATATTTATATA
Found at i:878016 original size:28 final size:26
Alignment explanation
Indices: 877963--878034 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
877953 ATCACTCATT
*
877963 ATTTGTCAAAAATTGTGATTATTTTA
1 ATTTGTCAAAAATGGTGATTATTTTA
* * *
877989 TGTTTGTCAAAAATGGTAGTTTTTTTTA
1 -ATTTGTCAAAAATGGT-GATTATTTTA
878017 ATTTGTCAAAAAATGGTG
1 ATTTGTC-AAAAATGGTG
878035 GCATGTTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
27 21 0.55
28 17 0.45
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (26 bp):
ATTTGTCAAAAATGGTGATTATTTTA
Found at i:878132 original size:13 final size:13
Alignment explanation
Indices: 878114--878158 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
878104 AGCTCCCTCC
878114 TCCCTCTCAAGTA
1 TCCCTCTCAAGTA
*
878127 TCCCTCTCAAGCA
1 TCCCTCTCAAGTA
**
878140 T-CCTCTCTTGTA
1 TCCCTCTCAAGTA
878152 TCCCTCT
1 TCCCTCT
878159 TCAATTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 9 0.33
13 18 0.67
ACGTcount: A:0.16, C:0.42, G:0.07, T:0.36
Consensus pattern (13 bp):
TCCCTCTCAAGTA
Found at i:880637 original size:21 final size:22
Alignment explanation
Indices: 880608--880653 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
880598 TGTTCAGACA
**
880608 AGTAGTACTCCGCAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
*
880630 AGTA-TACTCCAAAATAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
880651 AGT
1 AGT
880654 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:881751 original size:27 final size:26
Alignment explanation
Indices: 881719--881816 Score: 92
Period size: 27 Copynumber: 3.8 Consensus size: 26
881709 AAACCACCAA
881719 TTGTTTGTCAAAAATTGTGGTTCCTT
1 TTGTTTGTCAAAAATTGTGGTTCCTT
* * *
881745 TGTGTTTGTCAAAAATAGTAGTTTCTTT
1 T-TGTTTGTCAAAAATTGT-GGTTCCTT
* * * *
881773 TTATTTGTCAAAAATGGTGG--CATG
1 TTGTTTGTCAAAAATTGTGGTTCCTT
*
881797 TTGTTTGTCAAAATTTGTGG
1 TTGTTTGTCAAAAATTGTGG
881817 CTAATTTTTA
Statistics
Matches: 59, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 19 0.32
26 2 0.03
27 31 0.53
28 7 0.12
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.47
Consensus pattern (26 bp):
TTGTTTGTCAAAAATTGTGGTTCCTT
Found at i:883792 original size:84 final size:85
Alignment explanation
Indices: 883635--883808 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 85
883625 GACCAATAGC
* ** * * * *
883635 TAGCCCCTTAATATATGCTTGAAGTTGGAAATAATTATAAGATGTTGTCCTACACTTTTTCCTAT
1 TAGCACCTTAATATATGCTTGAAAATGAAAATAATTATAAAATGTTGACCTA-ACTCTTTCCTAT
*
883700 TTATTTGTATTTCAATATGTT
65 TTATTTGTATTTCAATATATT
883721 TAGCACCTT-ATATATGCTTGAAAATGCAAAATAATTATAAAATAGTT-ACCT-ACTCTTTCCTA
1 TAGCACCTTAATATATGCTTGAAAATG-AAAATAATTATAAAAT-GTTGACCTAACTCTTTCCTA
883783 TTTATTTGTATTTCAATATATT
64 TTTATTTGTATTTCAATATATT
883805 TAGC
1 TAGC
883809 TTATAGTGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
84 35 0.45
85 15 0.19
86 25 0.32
87 3 0.04
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (85 bp):
TAGCACCTTAATATATGCTTGAAAATGAAAATAATTATAAAATGTTGACCTAACTCTTTCCTATT
TATTTGTATTTCAATATATT
Found at i:884399 original size:22 final size:22
Alignment explanation
Indices: 884374--884428 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
884364 TTACATAATA
* **
884374 ATATTATATATAATTATTCTTT
1 ATATTATATATAATTATACAAT
*
884396 ATATGATATA-AATTATACAAT
1 ATATTATATATAATTATACAAT
884417 ATATTA-ATATAA
1 ATATTATATATAA
884429 AGATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 9 0.33
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTATATATAATTATACAAT
Found at i:885694 original size:3 final size:3
Alignment explanation
Indices: 885682--885723 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
885672 GGGTAATTTT
885682 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
885724 CCAAATTTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:887900 original size:17 final size:18
Alignment explanation
Indices: 887880--887924 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
887870 ATTCTAGCTG
887880 TCTTTTTCTTCTTTTTC-
1 TCTTTTTCTTCTTTTTCA
*
887897 TCTTTTT-TATTTTTTTCA
1 TCTTTTTCT-TCTTTTTCA
887915 T-TTTTTCTTC
1 TCTTTTTCTTC
887925 GATTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 20 0.87
18 2 0.09
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (18 bp):
TCTTTTTCTTCTTTTTCA
Found at i:888707 original size:34 final size:34
Alignment explanation
Indices: 888643--888825 Score: 251
Period size: 34 Copynumber: 5.4 Consensus size: 34
888633 TGCCACTGCG
* *
888643 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
888676 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
*
888710 TGTTGATTAAATGAGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
888744 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
888778 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
888812 TGTTGATTAAATGG
1 TGTTGATTAAATGG
888826 TGGTTTTTAC
Statistics
Matches: 130, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
33 11 0.08
34 119 0.92
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:889153 original size:19 final size:19
Alignment explanation
Indices: 889129--889185 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
889119 TTGGTTGTCG
*
889129 AGGTACTATTCACGTATAT
1 AGGTACTATTCACGTATAC
889148 AGGTACTATTCACGTATAC
1 AGGTACTATTCACGTATAC
*
889167 AGGTACTATTCAAGTATAC
1 AGGTACTATTCACGTATAC
889186 GGTTACTGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
AGGTACTATTCACGTATAC
Found at i:893324 original size:34 final size:34
Alignment explanation
Indices: 893258--893442 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
893248 AAGTGGGAGA
* *
893258 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
893291 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
893325 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
893359 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
893393 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
893427 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
893443 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:894847 original size:17 final size:17
Alignment explanation
Indices: 894825--894866 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
894815 TTTTTTCAAT
894825 TTTTTTAAAAATATATA
1 TTTTTTAAAAATATATA
* *
894842 TTTTTTCAAAATATGTA
1 TTTTTTAAAAATATATA
*
894859 TTCTTTAA
1 TTTTTTAA
894867 TAATTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTTTTAAAAATATATA
Found at i:894955 original size:22 final size:22
Alignment explanation
Indices: 894930--894984 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
894920 TTACATAATA
* **
894930 ATATTATATATAATTATTCTTT
1 ATATTATATATAATTATACAAT
*
894952 ATATGATATA-AATTATACAAT
1 ATATTATATATAATTATACAAT
894973 ATATTA-ATATAA
1 ATATTATATATAA
894985 AGATAATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 3 0.11
21 15 0.56
22 9 0.33
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (22 bp):
ATATTATATATAATTATACAAT
Found at i:903141 original size:83 final size:83
Alignment explanation
Indices: 903028--903188 Score: 218
Period size: 84 Copynumber: 1.9 Consensus size: 83
903018 TAGCCCCTTA
** * * *
903028 ATATATGCTTGAAGTTGGAAATAATTATAAGAT-GTTTTCCTACAC-TTCTTATTTATTTGTATT
1 ATATATGCTTGAAAATGAAAATAATTATAAGATAG-TTACCTACACTTTCCTATTTATTTGTATT
*
903091 TCAATATGTTTAGCATCTT
65 TCAATATATTTAGCATCTT
*
903110 ATATATGCTTGAAAATGCAAAATAATTATAAGATAGTTACCTACTCTTTCCTATTTATTTGTATT
1 ATATATGCTTGAAAATG-AAAATAATTATAAGATAGTTACCTACACTTTCCTATTTATTTGTATT
*
903175 TTAATATATTTAGC
65 TCAATATATTTAGC
903189 TTATAGTGGT
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
82 15 0.22
83 23 0.34
84 30 0.44
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (83 bp):
ATATATGCTTGAAAATGAAAATAATTATAAGATAGTTACCTACACTTTCCTATTTATTTGTATTT
CAATATATTTAGCATCTT
Found at i:903668 original size:16 final size:16
Alignment explanation
Indices: 903647--903678 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
903637 TATTTTTTCA
903647 ATTTTTTTAAAAATAT
1 ATTTTTTTAAAAATAT
*
903663 ATTTTTTTCAAAATAT
1 ATTTTTTTAAAAATAT
903679 GTAATCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTTTTAAAAATAT
Found at i:904589 original size:18 final size:19
Alignment explanation
Indices: 904552--904590 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
904542 TTTGATAATT
*
904552 TAGAAATATTACTAAATAA
1 TAGAAATATTAATAAATAA
*
904571 TAGAAA-ATTAATAACTAA
1 TAGAAATATTAATAAATAA
904589 TA
1 TA
904591 AGAATAATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TAGAAATATTAATAAATAA
Found at i:905146 original size:15 final size:15
Alignment explanation
Indices: 905126--905155 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
905116 AATAATAACC
*
905126 AAAATTTTTTAATTT
1 AAAATTTCTTAATTT
905141 AAAATTTCTTAATTT
1 AAAATTTCTTAATTT
905156 TGTTGTACTG
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:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
AAAATTTCTTAATTT
Found at i:907028 original size:22 final size:22
Alignment explanation
Indices: 907003--907060 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
906993 AGAAAATAAC
907003 TTAA-AAATTAATTTTTTATTAA
1 TTAATAAATT-ATTTTTTATTAA
907025 TTAATAAATTATTTTTTATTAA
1 TTAATAAATTATTTTTTATTAA
* *
907047 TCAATCAATT-TTTT
1 TTAATAAATTATTTT
907061 GCCAAACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 24 0.73
23 5 0.15
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATAAATTATTTTTTATTAA
Found at i:907581 original size:17 final size:17
Alignment explanation
Indices: 907521--907586 Score: 53
Period size: 17 Copynumber: 3.8 Consensus size: 17
907511 TGTAAATAAG
*
907521 TAAATTTTATTTCAATTA
1 TAAATTTTATTT-AAATA
* ** *
907539 AAAATTTTATTTACGTT
1 TAAATTTTATTTAAATA
907556 TAAGA-TTTATTTAAATA
1 TAA-ATTTTATTTAAATA
907573 TAAATTTTAATTTA
1 TAAATTTT-ATTTA
907587 TACTTCCATT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
16 1 0.03
17 19 0.51
18 17 0.46
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAATTTTATTTAAATA
Found at i:907673 original size:2 final size:2
Alignment explanation
Indices: 907662--907697 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
907652 TCTCATAAAC
*
907662 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
907698 GTGTGTGGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:909637 original size:2 final size:2
Alignment explanation
Indices: 909630--909674 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
909620 AGTTTCAAAG
909630 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
909672 AT A
1 AT A
909675 CACACACCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:909988 original size:27 final size:28
Alignment explanation
Indices: 909918--909995 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 28
909908 ACCTCTTAGC
909918 TTAAAATTTAATTTAATTAATTTATATAATT
1 TTAAAATTTAA-TTAA-TAATTT-TATAATT
* * *
909949 ATATAA--TATTTAATAATTTTA-AATT
1 TTAAAATTTAATTAATAATTTTATAATT
909974 TTAAAATTTAATTAATAATTTT
1 TTAAAATTTAATTAATAATTTT
909996 TTTATTCTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
25 8 0.21
26 2 0.05
27 19 0.49
28 4 0.10
29 2 0.05
31 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAAAATTTAATTAATAATTTTATAATT
Found at i:910009 original size:23 final size:22
Alignment explanation
Indices: 909983--910027 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
909973 TTTAAAATTT
909983 AATTAATAATTT-TTTTATTCTTA
1 AATT-ATAATTTCTTTTA-TCTTA
*
910006 AATTATGATTTCTTTTATCTTA
1 AATTATAATTTCTTTTATCTTA
910028 TTTTAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
AATTATAATTTCTTTTATCTTA
Found at i:912091 original size:90 final size:89
Alignment explanation
Indices: 911938--912103 Score: 228
Period size: 90 Copynumber: 1.9 Consensus size: 89
911928 AATCAGGGCA
* * *
911938 ACCTAACTGTTAAATGCATTGGGTAAGGTTTTTGGTCCTATAAGGGAATCAGAAGTCCTTTTTTT
1 ACCTAACTGTTAAATGCATTGAGTAAGGTTTTTGGTCCGATAAGGGAATCAGAAGTCC-CTTTTT
912003 AATGACCCTTTCTGAGGATACCAAG
65 AATGACCCTTTCTGAGGATACCAAG
* * **
912028 ACCTAACTGTTAAATGCATTGAGTACGG-TTTTGGCTTCGATAAGGGGGTCAGATA-TCCCTTTT
1 ACCTAACTGTTAAATGCATTGAGTAAGGTTTTTGG-TCCGATAAGGGAATCAGA-AGTCCCTTTT
912091 TAATGACCCTTTC
64 TAATGACCCTTTC
912104 CAGGACACCA
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 23 0.34
90 43 0.64
91 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (89 bp):
ACCTAACTGTTAAATGCATTGAGTAAGGTTTTTGGTCCGATAAGGGAATCAGAAGTCCCTTTTTA
ATGACCCTTTCTGAGGATACCAAG
Found at i:919713 original size:54 final size:54
Alignment explanation
Indices: 919655--919759 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
919645 ACCGATACTA
** * *
919655 TTTTCCTCCTCATCGTGTACAGGAGAGTGAAACTGCTCTTT-TTCATCATTATTT
1 TTTTCCTCCTCATCACGTACAGAAGAGTGAAACAGCT-TTTCTTCATCATTATTT
* * *
919709 TTTTCCTGCTGATCACGTACAGAAGAGTGAAACAGGTTTTCTTCATCATTA
1 TTTTCCTCCTCATCACGTACAGAAGAGTGAAACAGCTTTTCTTCATCATTA
919760 ATCTGTGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 3 0.07
54 40 0.93
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (54 bp):
TTTTCCTCCTCATCACGTACAGAAGAGTGAAACAGCTTTTCTTCATCATTATTT
Found at i:921469 original size:3 final size:3
Alignment explanation
Indices: 921461--921496 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
921451 AGTCAGCCTT
921461 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
921497 AATTTAAGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:923118 original size:21 final size:21
Alignment explanation
Indices: 923092--923134 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
923082 TTCATTATTT
*
923092 TTTTTAAT-TTTATTTTAATTA
1 TTTTTAATATTTA-TATAATTA
923113 TTTTTAATATTTATATAATTA
1 TTTTTAATATTTATATAATTA
923134 T
1 T
923135 ATTACACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATATTTATATAATTA
Found at i:924100 original size:2 final size:2
Alignment explanation
Indices: 924093--924127 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
924083 ACACATCATG
*
924093 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
924128 CACTTGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:924838 original size:20 final size:22
Alignment explanation
Indices: 924799--924844 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
924789 ATTTTCATTG
*
924799 TTTATTCAACTTTCAAATATCA
1 TTTATTCAACTATCAAATATCA
*
924821 TTTATTCAAC-AT-AAATATGA
1 TTTATTCAACTATCAAATATCA
924841 TTTA
1 TTTA
924845 CGTGAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 11 0.50
21 1 0.05
22 10 0.45
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (22 bp):
TTTATTCAACTATCAAATATCA
Found at i:927622 original size:2 final size:2
Alignment explanation
Indices: 927617--927646 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
927607 ACAATGGGGG
927617 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
927647 CTGTTGATAA
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:936590 original size:11 final size:11
Alignment explanation
Indices: 936570--936607 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
936560 TTATCGTATA
936570 ATTT-TTTTAT
1 ATTTATTTTAT
*
936580 TTTTATTTTAT
1 ATTTATTTTAT
*
936591 ATTTATATTAT
1 ATTTATTTTAT
936602 ATTTAT
1 ATTTAT
936608 AATTATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 3 0.12
11 21 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTATTTTAT
Found at i:940115 original size:22 final size:20
Alignment explanation
Indices: 940071--940109 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
940061 ACAATTTATT
*
940071 ATTGATTTTTATAATAAATG
1 ATTGATTTTTATAAAAAATG
*
940091 ATTGATTTTTTTAAAAAAT
1 ATTGATTTTTATAAAAAAT
940110 ATGATTACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTGATTTTTATAAAAAATG
Found at i:940246 original size:21 final size:22
Alignment explanation
Indices: 940222--940273 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
940212 GGTGAAATTA
*
940222 AAAAATAATTAA-ATAATATGT
1 AAAAATAATTAATATAAAATGT
940243 AAAATATAA--AATATAAAATGT
1 AAAA-ATAATTAATATAAAATGT
940264 -AAAATAATTA
1 AAAAATAATTA
940274 GAAGAAGGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 13 0.50
22 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (22 bp):
AAAAATAATTAATATAAAATGT
Found at i:940548 original size:9 final size:9
Alignment explanation
Indices: 940520--940571 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
940510 ATAGTATATA
940520 TTATTTAATTT
1 TTATTTAA--T
*
940531 TTATATAAT
1 TTATTTAAT
940540 TTATTTAAT
1 TTATTTAAT
* *
940549 TGAATTAAT
1 TTATTTAAT
940558 ATTATTTAAT
1 -TTATTTAAT
940568 TTAT
1 TTAT
940572 AATATTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 20 0.59
10 7 0.21
11 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (9 bp):
TTATTTAAT
Found at i:940564 original size:19 final size:20
Alignment explanation
Indices: 940517--940568 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
940507 TTAATAGTAT
**
940517 ATATTATTTAATTTTTATATA
1 ATATTATTTAA-TTGAATATA
940538 AT-TTATTTAATTGAAT-TA
1 ATATTATTTAATTGAATATA
940556 ATATTATTTAATT
1 ATATTATTTAATT
940569 TATAATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 4 0.14
19 14 0.50
20 8 0.29
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATATTATTTAATTGAATATA
Found at i:940882 original size:3 final size:3
Alignment explanation
Indices: 940874--940900 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
940864 TAAAAACATA
940874 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
940901 TTTTATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:941580 original size:13 final size:13
Alignment explanation
Indices: 941538--941591 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
941528 ATTTTTATAA
*
941538 TTAAAT-TTAAAG
1 TTAAATATTAAAT
* *
941550 TAAAATATTATCAT
1 TTAAATATTA-AAT
941564 TTAAATATTAAAT
1 TTAAATATTAAAT
941577 TTAAATATT-AAT
1 TTAAATATTAAAT
941589 TTA
1 TTA
941592 GATCTCAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 10 0.29
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (13 bp):
TTAAATATTAAAT
Found at i:953831 original size:2 final size:2
Alignment explanation
Indices: 953824--953855 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
953814 GAAACCCATA
953824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
953856 GTGTGTGTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:953860 original size:2 final size:2
Alignment explanation
Indices: 953855--953884 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
953845 TATATATATA
953855 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
953885 AAATGAACAT
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:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:955377 original size:2 final size:2
Alignment explanation
Indices: 955370--955412 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
955360 AAACACATAG
*
955370 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
955412 A
1 A
955413 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:958023 original size:2 final size:2
Alignment explanation
Indices: 958016--958061 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
958006 AGCAGAAGCT
958016 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
958058 GA GA
1 GA GA
958062 AGTACCGTGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:959113 original size:40 final size:40
Alignment explanation
Indices: 959069--959155 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
959059 TAAAAAACTT
959069 GTCAAAGATTATTTATGTGGAACCGTTGGTAGCCATCACA
1 GTCAAAGATTATTTATGTGGAACCGTTGGTAGCCATCACA
*
959109 GTCAAAGATTATTTATGTGGAACCGTTGGTAGCTATCACA
1 GTCAAAGATTATTTATGTGGAACCGTTGGTAGCCATCACA
*
959149 ATCAAAG
1 GTCAAAG
959156 TTGATGAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (40 bp):
GTCAAAGATTATTTATGTGGAACCGTTGGTAGCCATCACA
Found at i:959833 original size:21 final size:20
Alignment explanation
Indices: 959795--959834 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
959785 TAAATAAAAA
*
959795 ATTATTTTCATATTTTAAAT
1 ATTAATTTCATATTTTAAAT
*
959815 ATTAATTTGATATTATTAAA
1 ATTAATTTCATATT-TTAAA
959835 CGTAAATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
ATTAATTTCATATTTTAAAT
Found at i:962190 original size:2 final size:2
Alignment explanation
Indices: 962183--962222 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
962173 ATGTAACTAC
962183 TA TA TA TA TA 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 TA TA TA TA TA
962223 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:962227 original size:2 final size:2
Alignment explanation
Indices: 962222--962247 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
962212 ATATATATAT
962222 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
962248 TAGATTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:973101 original size:2 final size:2
Alignment explanation
Indices: 973094--973138 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
973084 TCAAAATAAA
973094 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
973136 AG A
1 AG A
973139 AGGGGATTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:978003 original size:2 final size:2
Alignment explanation
Indices: 977998--978024 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
977988 GTACCTGCAC
977998 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
978025 AAGGGTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:978130 original size:16 final size:16
Alignment explanation
Indices: 978101--978137 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
978091 AGAAGTTCGC
978101 TTTTTATTTCTTTTTT
1 TTTTTATTTCTTTTTT
*
978117 TTTTTCTTT-TTTTTT
1 TTTTTATTTCTTTTTT
978132 TTTTTA
1 TTTTTA
978138 CTCCTTAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.05, C:0.05, G:0.00, T:0.89
Consensus pattern (16 bp):
TTTTTATTTCTTTTTT
Found at i:978134 original size:13 final size:12
Alignment explanation
Indices: 978101--978133 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
978091 AGAAGTTCGC
*
978101 TTTTTATTTCTT
1 TTTTTTTTTCTT
978113 TTTTTTTTTCTT
1 TTTTTTTTTCTT
978125 TTTTTTTTT
1 TTTTTTTTT
978134 TTTACTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:984682 original size:25 final size:25
Alignment explanation
Indices: 984636--984684 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
984626 GGATTAAGAT
*
984636 TTTAAATTTTTTTATAAATTAATTA
1 TTTAAATTTATTTATAAATTAATTA
*
984661 TTTAAATTTAATTT-TAATTTAATT
1 TTTAAATTT-ATTTATAAATTAATT
984685 TGATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 18 0.86
26 3 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTAAATTTATTTATAAATTAATTA
Found at i:985927 original size:15 final size:16
Alignment explanation
Indices: 985907--985943 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
985897 ATAATGAGAT
985907 TTAAATTTAAACGT-A
1 TTAAATTTAAACGTAA
*
985922 TTAAA-TTAAATGTAA
1 TTAAATTTAAACGTAA
985937 TTAAATT
1 TTAAATT
985944 ATATAAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (16 bp):
TTAAATTTAAACGTAA
Done.