Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 23 of 27
Found at i:3600654 original size:37 final size:37
Alignment explanation
Indices: 3600563--3600661 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
3600553 TTATTTTTCC
* * * * *
3600563 GTGGATTGACGCTACCACCCAAATTCTAACAATCATA
1 GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
*
3600600 GTGGATTGGCACTGCCACTCAAATACTGACAATCATA
1 GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
3600637 GTGGATT-G-ACTAAGCCACTCAAATA
1 GTGGATTGGCACT--GCCACTCAAATA
3600662 TTACTTGTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
35 3 0.06
36 1 0.02
37 50 0.93
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (37 bp):
GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
Found at i:3601584 original size:21 final size:23
Alignment explanation
Indices: 3601551--3601596 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
3601541 TTTGTTGAAA
*
3601551 ATAAAATTTTGATTTT-TTTTAC
1 ATAAAATTTTGATTTTGTTTGAC
3601573 ATAAAA-TTTGATTTTGTTTGAC
1 ATAAAATTTTGATTTTGTTTGAC
3601595 AT
1 AT
3601597 TATGTCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (23 bp):
ATAAAATTTTGATTTTGTTTGAC
Found at i:3604212 original size:21 final size:21
Alignment explanation
Indices: 3604164--3604212 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
3604154 ATTATAGTAT
*
3604164 AATAATGTATATAAATATAAA
1 AATAATTTATATAAATATAAA
*
3604185 AATAATTTATATAATTGA-AAA
1 AATAATTTATATAAAT-ATAAA
3604206 AATAATT
1 AATAATT
3604213 GAGTTAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
AATAATTTATATAAATATAAA
Found at i:3604403 original size:25 final size:25
Alignment explanation
Indices: 3604367--3604417 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
3604357 TAATTAATCT
* * *
3604367 ATAAATTTTTCT-AATCTTAACAAA
1 ATAAATTCTTCTCAAACTTAAAAAA
3604391 ATAAGATTCTTCTCAAACTTAAAAAA
1 ATAA-ATTCTTCTCAAACTTAAAAAA
3604417 A
1 A
3604418 AAAAAGAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.49, C:0.14, G:0.02, T:0.35
Consensus pattern (25 bp):
ATAAATTCTTCTCAAACTTAAAAAA
Found at i:3609890 original size:37 final size:37
Alignment explanation
Indices: 3609846--3609929 Score: 114
Period size: 37 Copynumber: 2.3 Consensus size: 37
3609836 TTATTTTTCC
* *
3609846 GTGGATTGACGCTACCACCCAAATTCTAACAATCATA
1 GTGGATTGACACTACCACCCAAATACTAACAATCATA
* * * *
3609883 GTGGATTGGCACTGCCACTCAAATACTGACAATCATA
1 GTGGATTGACACTACCACCCAAATACTAACAATCATA
3609920 GTGGATTGAC
1 GTGGATTGAC
3609930 TAAGCCACTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (37 bp):
GTGGATTGACACTACCACCCAAATACTAACAATCATA
Found at i:3609937 original size:37 final size:37
Alignment explanation
Indices: 3609846--3609944 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 37
3609836 TTATTTTTCC
* * * * *
3609846 GTGGATTGACGCTACCACCCAAATTCTAACAATCATA
1 GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
*
3609883 GTGGATTGGCACTGCCACTCAAATACTGACAATCATA
1 GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
3609920 GTGGATT-G-ACTAAGCCACTCAAATA
1 GTGGATTGGCACT--GCCACTCAAATA
3609945 TTACTTGTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
35 3 0.06
36 1 0.02
37 50 0.93
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.24
Consensus pattern (37 bp):
GTGGATTGGCACTGCCACTCAAATACTAACAATCATA
Found at i:3610870 original size:21 final size:23
Alignment explanation
Indices: 3610837--3610882 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
3610827 TTTGTTGAAA
*
3610837 ATAAAATTTTGATTTT-TTTTAC
1 ATAAAATTTTGATTTTGTTTGAC
3610859 ATAAAA-TTTGATTTTGTTTGAC
1 ATAAAATTTTGATTTTGTTTGAC
3610881 AT
1 AT
3610883 TATGTCGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (23 bp):
ATAAAATTTTGATTTTGTTTGAC
Found at i:3613464 original size:21 final size:22
Alignment explanation
Indices: 3613440--3613487 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
3613430 GTTATAGTAT
3613440 AATAATG-TATATAAAT-ATAAA
1 AATAATGTTATATAAATGA-AAA
*
3613461 AAT-ATGTTATATAATTGAAAA
1 AATAATGTTATATAAATGAAAA
3613482 AATAAT
1 AATAAT
3613488 TGAGTTAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 17 0.74
22 3 0.13
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (22 bp):
AATAATGTTATATAAATGAAAA
Found at i:3618950 original size:16 final size:16
Alignment explanation
Indices: 3618907--3618978 Score: 67
Period size: 16 Copynumber: 4.5 Consensus size: 16
3618897 TTTATTTTTA
3618907 ATTATATAATAAATATT
1 ATTATATAATAAATA-T
* *
3618924 ATTTTTATAATTAATAT
1 A-TTATATAATAAATAT
*
3618941 ATTATATAAT--TTAT
1 ATTATATAATAAATAT
* *
3618955 ATAATATAAAAAATAT
1 ATTATATAATAAATAT
3618971 ATTATATA
1 ATTATATA
3618979 TAATATTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 7
0.75 0.14 0.12
Matches are distributed among these distances:
14 11 0.25
16 18 0.41
17 3 0.07
18 12 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTATATAATAAATAT
Found at i:3619068 original size:25 final size:25
Alignment explanation
Indices: 3618992--3619075 Score: 82
Period size: 25 Copynumber: 3.4 Consensus size: 25
3618982 TATTATATTG
* * *
3618992 TAAATATAAAAAAAT-TAATAAAAA
1 TAAATTTAAAAATATATAATATAAA
* *
3619016 TTAAA-TTAAAAATATATATTTTAAA
1 -TAAATTTAAAAATATATAATATAAA
* *
3619041 TAATTTTAAAAATATATAATATATA
1 TAAATTTAAAAATATATAATATAAA
3619066 TAAATTTAAA
1 TAAATTTAAA
3619076 TAAATTTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
24 11 0.23
25 36 0.77
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAATTTAAAAATATATAATATAAA
Found at i:3619167 original size:16 final size:16
Alignment explanation
Indices: 3619146--3619179 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
3619136 AATTAATATT
3619146 TTTAAATCAAAT-TAAA
1 TTTAAAT-AAATATAAA
3619162 TTTAAATAAATATAAA
1 TTTAAATAAATATAAA
3619178 TT
1 TT
3619180 ATACTACTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TTTAAATAAATATAAA
Found at i:3620344 original size:17 final size:17
Alignment explanation
Indices: 3620310--3620361 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
3620300 AAATTTTATA
*
3620310 AATTTAAATTA--ATTT
1 AATTTAAATTATTTTTT
3620325 AATTTAAATTATTTTTT
1 AATTTAAATTATTTTTT
*
3620342 AA-TAAAATATATTTTTT
1 AATTTAAAT-TATTTTTT
3620359 AAT
1 AAT
3620362 AATAAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
15 11 0.35
16 5 0.16
17 15 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTTAAATTATTTTTT
Found at i:3620362 original size:17 final size:16
Alignment explanation
Indices: 3620330--3620363 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
3620320 AATTTAATTT
3620330 AAATTATTTTTTAATA
1 AAATTATTTTTTAATA
3620346 AAATATATTTTTTAATA
1 AAAT-TATTTTTTAATA
3620363 A
1 A
3620364 TAAAATTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTATTTTTTAATA
Found at i:3620576 original size:33 final size:28
Alignment explanation
Indices: 3620519--3620578 Score: 75
Period size: 33 Copynumber: 2.0 Consensus size: 28
3620509 TTATTATTAA
3620519 TATTTATTTTAATTAATAAAATAATTTT
1 TATTTATTTTAATTAATAAAATAATTTT
3620547 TATTATATTTATAATTAAAATAAATATAATTT
1 TATT-TATTT-TAATT--AATAAA-ATAATTT
3620579 AATTAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 4 0.15
29 5 0.19
30 5 0.19
32 6 0.22
33 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TATTTATTTTAATTAATAAAATAATTTT
Found at i:3620583 original size:20 final size:20
Alignment explanation
Indices: 3620548--3620598 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
3620538 AATAATTTTT
*
3620548 ATTATATTTATAATTAAAATAA
1 ATTATAATT-TAATTAAAA-AA
3620570 A-TATAATTTAATTAAAAAA
1 ATTATAATTTAATTAAAAAA
3620589 ATTATAATTT
1 ATTATAATTT
3620599 TAACTAATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 3 0.11
20 17 0.63
21 6 0.22
22 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTATAATTTAATTAAAAAA
Found at i:3620959 original size:26 final size:26
Alignment explanation
Indices: 3620935--3620992 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
3620925 TTAAATAATC
*
3620935 AAATAATATTATTAAAAATTATAATTA
1 AAATAA-ATTATAAAAAATTATAATTA
3620962 AAATAAATTATAAAAAA--AT-ATT-
1 AAATAAATTATAAAAAATTATAATTA
3620984 AAATAAATT
1 AAATAAATT
3620993 TATCACTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.30
23 3 0.10
24 2 0.07
26 10 0.33
27 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATAAATTATAAAAAATTATAATTA
Found at i:3620971 original size:23 final size:22
Alignment explanation
Indices: 3620935--3620992 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 22
3620925 TTAAATAATC
*
3620935 AAATAATATTATTAAAAATTATAATT
1 AAATAA-ATTA-TAAAAA-AAT-ATT
3620961 AAAATAAATTATAAAAAAATATT
1 -AAATAAATTATAAAAAAATATT
3620984 AAATAAATT
1 AAATAAATT
3620993 TATCACTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 9 0.30
23 3 0.10
24 2 0.07
25 6 0.20
26 4 0.13
27 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAATAAATTATAAAAAAATATT
Found at i:3620990 original size:27 final size:27
Alignment explanation
Indices: 3620935--3620990 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
3620925 TTAAATAATC
* * *
3620935 AAATAATATTATTAAAAATTATAATTA
1 AAATAATATTATAAAAAAATATAAATA
3620962 AAATAA-ATTATAAAAAAATATTAAATA
1 AAATAATATTATAAAAAAATA-TAAATA
3620989 AA
1 AA
3620991 TTTATCACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 12 0.48
27 13 0.52
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AAATAATATTATAAAAAAATATAAATA
Found at i:3624754 original size:20 final size:19
Alignment explanation
Indices: 3624708--3624756 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
3624698 TACAATATTC
3624708 ATTTTCTAATTATTTTTAAA
1 ATTTT-TAATTATTTTTAAA
**
3624728 ATATTTTAATTAATTTTTTTA
1 AT-TTTTAATT-ATTTTTAAA
3624749 ATTTTTAA
1 ATTTTTAA
3624757 AACTTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTAATTATTTTTAAA
Found at i:3631603 original size:2 final size:2
Alignment explanation
Indices: 3631590--3631636 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
3631580 CGGCTTATGT
*
3631590 TA TA TA TG 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 TA
3631632 TA TA T
1 TA TA T
3631637 TTTTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3634006 original size:35 final size:35
Alignment explanation
Indices: 3633960--3634031 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
3633950 AACTGCGTCC
3633960 GTAGTGCGTTTATTAACAAGTGTTCTGCTTTGAAG
1 GTAGTGCGTTTATTAACAAGTGTTCTGCTTTGAAG
3633995 GTAGTGCGTTTATTAACAAGTGTTCTGCTTTGAAG
1 GTAGTGCGTTTATTAACAAGTGTTCTGCTTTGAAG
3634030 GT
1 GT
3634032 TGAAGCAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.40
Consensus pattern (35 bp):
GTAGTGCGTTTATTAACAAGTGTTCTGCTTTGAAG
Found at i:3640389 original size:23 final size:23
Alignment explanation
Indices: 3640353--3640403 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
3640343 ATTTTTATAT
3640353 TAAT-ATTTATAATTAAATTTAAA
1 TAATAATTTATAATT-AATTTAAA
*
3640376 TAATAATTTA-AATTATTTTAAA
1 TAATAATTTATAATTAATTTAAA
*
3640398 TTATAA
1 TAATAA
3640404 AAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.48
23 8 0.32
24 5 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATAATTTATAATTAATTTAAA
Found at i:3640414 original size:20 final size:19
Alignment explanation
Indices: 3640385--3640428 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
3640375 ATAATAATTT
3640385 AAATTATTTT-AAATTATAA
1 AAATTATTTTCAAATTA-AA
3640404 AAATATATTTTCAAATTAAA
1 AAAT-TATTTTCAAATTAAA
3640424 AAATT
1 AAATT
3640429 TTGGGTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 12 0.52
21 6 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAATTATTTTCAAATTAAA
Found at i:3640530 original size:6 final size:7
Alignment explanation
Indices: 3640504--3640532 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
3640494 ATGATTCAAA
3640504 AAAATTT
1 AAAATTT
3640511 AAAATTT
1 AAAATTT
3640518 AAAATTT
1 AAAATTT
3640525 -AAATTT
1 AAAATTT
3640531 AA
1 AA
3640533 TTCAACATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
AAAATTT
Found at i:3640635 original size:21 final size:19
Alignment explanation
Indices: 3640615--3640678 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
3640605 ATTATAATTA
3640615 AATTTAAATAAAAATATATT
1 AATTTAAATAAAAA-ATATT
* *
3640635 -ATTTTAATTAAAAA-ATT
1 AATTTAAATAAAAAATATT
* *
3640652 ATTTTAAATAATAAAATATA
1 AATTTAAATAA-AAAATATT
3640672 AATTTAA
1 AATTTAA
3640679 TCTTAAATCA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 3 0.09
18 8 0.24
19 15 0.44
20 8 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTAAATAAAAAATATT
Found at i:3640654 original size:17 final size:18
Alignment explanation
Indices: 3640617--3640668 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
3640607 TATAATTAAA
*
3640617 TTTAAATAAAAATATATTAT
1 TTTAAATAATAA-A-ATTAT
*
3640637 TTTAATTAA-AAAATTAT
1 TTTAAATAATAAAATTAT
3640654 TTTAAATAATAAAAT
1 TTTAAATAATAAAAT
3640669 ATAAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 13 0.45
18 6 0.21
19 2 0.07
20 8 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAATAATAAAATTAT
Found at i:3640677 original size:20 final size:19
Alignment explanation
Indices: 3640613--3640678 Score: 64
Period size: 20 Copynumber: 3.5 Consensus size: 19
3640603 ATATTATAAT
3640613 TAAATTTAAATAAAAATATA
1 TAAATTTAAATAAAAA-ATA
* * *
3640633 TTATTTTAATTAAAAAAT-
1 TAAATTTAAATAAAAAATA
*
3640651 T-ATTTTAAATAATAAAATA
1 TAAATTTAAATAA-AAAATA
3640670 TAAATTTAA
1 TAAATTTAA
3640679 TCTTAAATCA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 10 0.26
18 6 0.16
19 3 0.08
20 19 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATTTAAATAAAAAATA
Found at i:3640988 original size:20 final size:18
Alignment explanation
Indices: 3640965--3641012 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
3640955 TAAAATATTT
3640965 TTATATATCTTAAAATTATA
1 TTATATAT-TTAAAATTA-A
*
3640985 TTATATTATTTAAATTTAA
1 TTATA-TATTTAAAATTAA
*
3641004 ATATATATT
1 TTATATATT
3641013 AAATAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 13 0.52
21 3 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATATATTTAAAATTAA
Found at i:3641273 original size:15 final size:16
Alignment explanation
Indices: 3641253--3641285 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
3641243 CTTCTTTCAT
3641253 TATATATTAA-AAAAA
1 TATATATTAATAAAAA
3641268 TATATATTAATAAAAA
1 TATATATTAATAAAAA
3641284 TA
1 TA
3641286 GAAAGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TATATATTAATAAAAA
Found at i:3647419 original size:94 final size:94
Alignment explanation
Indices: 3647253--3647444 Score: 321
Period size: 94 Copynumber: 2.0 Consensus size: 94
3647243 ACTCTTAAAC
* *
3647253 CAAATTTAAAATGTGATAAAGTTGAAGGTCTAGGTCACATTTCTAATAAATGCGTGAATTCAACA
1 CAAACTTAAAATGTGATAAAGTTGAAGGTCTAGGTCACATTCCTAATAAATGCGTGAATTCAACA
3647318 GCAACTCAACAGAATATCCCAAACCATCA
66 GCAACTCAACAGAATATCCCAAACCATCA
** * *
3647347 CAAACTTAAAATGTGATATGGTTGAAGGTCTAGGTCACATTCCTGATAAATGGGTGAATTCAACA
1 CAAACTTAAAATGTGATAAAGTTGAAGGTCTAGGTCACATTCCTAATAAATGCGTGAATTCAACA
*
3647412 GCAACTCAACAGAATATCCCAAATCATCA
66 GCAACTCAACAGAATATCCCAAACCATCA
3647441 CAAA
1 CAAA
3647445 AATAAAGGAC
Statistics
Matches: 91, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (94 bp):
CAAACTTAAAATGTGATAAAGTTGAAGGTCTAGGTCACATTCCTAATAAATGCGTGAATTCAACA
GCAACTCAACAGAATATCCCAAACCATCA
Found at i:3650255 original size:6 final size:6
Alignment explanation
Indices: 3650191--3650229 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
3650181 TTAATACATT
*
3650191 ATATAA ATATAA ATATAA A-ATAA AAAT-A ATATAA ATATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATA
3650230 TAAAATTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
ATATAA
Found at i:3650871 original size:22 final size:21
Alignment explanation
Indices: 3650827--3650871 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
3650817 ATTTTTTAAT
*
3650827 TAAAAATATTTAAATTTAAAA
1 TAAAAATATTTAAATATAAAA
*
3650848 TAAAAATATTATAAATATATAA
1 TAAAAATATT-TAAATATAAAA
3650870 TA
1 TA
3650872 TTAAATATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAATATTTAAATATAAAA
Found at i:3650876 original size:30 final size:30
Alignment explanation
Indices: 3650825--3650895 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 30
3650815 TAATTTTTTA
* *
3650825 ATTAAAAATATTTAAATTTAAA-ATAAAAAT
1 ATTATAAATATATAAATTTAAATAT-AAAAT
3650855 ATTATAAATATAT-AATATTAAATATAAAAT
1 ATTATAAATATATAAAT-TTAAATATAAAAT
3650885 -TTATTAAATAT
1 ATTA-TAAATAT
3650896 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 6 0.17
30 28 0.78
31 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (30 bp):
ATTATAAATATATAAATTTAAATATAAAAT
Found at i:3650878 original size:14 final size:15
Alignment explanation
Indices: 3650845--3650895 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
3650835 TTTAAATTTA
*
3650845 AAATAAAAATATTA-T
1 AAATATAAA-ATTATT
*
3650860 AAATATATAA-TATT
1 AAATATAAAATTATT
3650874 AAATATAAAATTTATT
1 AAATATAAAA-TTATT
3650890 AAATAT
1 AAATAT
3650896 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 2 0.07
14 11 0.37
15 7 0.23
16 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATAAAATTATT
Found at i:3650889 original size:16 final size:16
Alignment explanation
Indices: 3650845--3650895 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
3650835 TTTAAATTTA
3650845 AAATA-AAAATATTA-T
1 AAATATAAAAT-TTATT
*
3650860 AAATATATAA--TATT
1 AAATATAAAATTTATT
3650874 AAATATAAAATTTATT
1 AAATATAAAATTTATT
3650890 AAATAT
1 AAATAT
3650896 TATTTTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 5 0.17
16 13 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAAATTTATT
Found at i:3651306 original size:21 final size:23
Alignment explanation
Indices: 3651281--3651333 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
3651271 TAATAAGAAA
3651281 TATATTTTAA-T-TTTTTATTAT
1 TATATTTTAAGTATTTTTATTAT
*
3651302 TATA--TTAAGTATTTTTATTTT
1 TATATTTTAAGTATTTTTATTAT
3651323 TATATATTTAA
1 TATAT-TTTAA
3651334 AATTATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.15
20 1 0.04
21 17 0.65
24 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TATATTTTAAGTATTTTTATTAT
Found at i:3652388 original size:5 final size:5
Alignment explanation
Indices: 3652367--3652427 Score: 51
Period size: 5 Copynumber: 13.2 Consensus size: 5
3652357 ATTAAATTTT
* * * *
3652367 ATATA ATATC TTA-A ATATA ATATA ATAT- ATAAA ATAAA ATA-A ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
3652414 ATATA A-AT- ATATA A
1 ATATA ATATA ATATA A
3652428 CTCATTAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
3 1 0.02
4 13 0.28
5 32 0.70
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:3652402 original size:19 final size:19
Alignment explanation
Indices: 3652351--3652424 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
3652341 TATAAATTAT
* * *
3652351 TAATATATTAAATTTTATA
1 TAATATATAAAATATAATA
* *
3652370 TAATATCTTAAATATAATA
1 TAATATATAAAATATAATA
*
3652389 TAATATATAAAATAAAATA
1 TAATATATAAAATATAATA
3652408 -AATATAATATAAATATA
1 TAATAT-ATA-AAATATA
3652425 TAACTCATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
18 5 0.11
19 35 0.76
20 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (19 bp):
TAATATATAAAATATAATA
Found at i:3654997 original size:29 final size:29
Alignment explanation
Indices: 3654966--3655031 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
3654956 AATATTAAAA
* * *
3654966 TTTAAATTATAAATTTATTAAATAATATAT
1 TTTAAATTATAAATATATAAAATAAT-TAG
* *
3654996 TTTAAA-AATAACTATATAAAATAATTAG
1 TTTAAATTATAAATATATAAAATAATTAG
3655024 TTTAAATT
1 TTTAAATT
3655032 TTGAGTTTGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
28 8 0.28
29 15 0.52
30 6 0.21
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTAAATTATAAATATATAAAATAATTAG
Found at i:3657263 original size:18 final size:17
Alignment explanation
Indices: 3657231--3657284 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
3657221 ATAGTACTAA
*
3657231 ATTATTAATAATTATTT
1 ATTATTAATATTTATTT
3657248 ATTATATAATATTTATTT
1 ATTAT-TAATATTTATTT
* *
3657266 AATATTAAAATTTGATTT
1 ATTATTAATATTT-ATTT
3657284 A
1 A
3657285 AAATATTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.38
18 20 0.62
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
ATTATTAATATTTATTT
Found at i:3657285 original size:18 final size:18
Alignment explanation
Indices: 3657242--3657290 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
3657232 TTATTAATAA
* *
3657242 TTATTTATTATATAATAT
1 TTATTTAATATATAAAAT
3657260 TTATTTAATAT-TAAAAT
1 TTATTTAATATATAAAAT
*
3657277 TTGATTTAAAATAT
1 TT-ATTTAATATAT
3657291 TTAGAAGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 7 0.27
18 18 0.69
19 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
TTATTTAATATATAAAAT
Found at i:3660088 original size:18 final size:17
Alignment explanation
Indices: 3660038--3660088 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
3660028 AAATTTGTAT
3660038 AATA-AAAATTATT-AA
1 AATATAAAATTATTAAA
* *
3660053 CATATAAAATTTTATAAA
1 AATATAAAATTAT-TAAA
3660071 AATATAAAATATATTAAA
1 AATATAAAAT-TATTAAA
3660089 TAAGAGTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
15 3 0.11
16 7 0.25
17 1 0.04
18 15 0.54
19 2 0.07
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATAAAATTATTAAA
Found at i:3660514 original size:2 final size:2
Alignment explanation
Indices: 3660507--3660537 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3660497 TCATATTGAC
3660507 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 A
3660538 CACACATAAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3660734 original size:25 final size:25
Alignment explanation
Indices: 3660706--3660757 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
3660696 ATAAGTGAAA
3660706 ATATAAAAGTATATTATTA-AAAAAC
1 ATATAAAAGTATA-TATTACAAAAAC
* *
3660731 ATATTAATGTATATATTAGCAAAAAC
1 ATATAAAAGTATATATTA-CAAAAAC
3660757 A
1 A
3660758 ATTATGTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 11 0.48
26 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (25 bp):
ATATAAAAGTATATATTACAAAAAC
Found at i:3662802 original size:14 final size:15
Alignment explanation
Indices: 3662759--3662804 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
3662749 ATTTTATTAT
*
3662759 TTAAAATATTTAAATA
1 TTAAAA-ATTTATATA
3662775 TTAAAAATTT-TATA
1 TTAAAAATTTATATA
*
3662789 TT-AACATTTATATA
1 TTAAAAATTTATATA
3662803 TT
1 TT
3662805 TTATAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.22
14 11 0.41
15 4 0.15
16 6 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAAATTTATATA
Found at i:3663259 original size:3 final size:3
Alignment explanation
Indices: 3663251--3663275 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3663241 TACTAAGAAA
3663251 TGT TGT TGT TGT TGT TGT TGT TGT T
1 TGT TGT TGT TGT TGT TGT TGT TGT T
3663276 TTTTTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TGT
Found at i:3664067 original size:16 final size:16
Alignment explanation
Indices: 3664046--3664078 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3664036 AAAGATAGTC
3664046 AAGTTTTCTTCCAAAG
1 AAGTTTTCTTCCAAAG
3664062 AAGTTTTCTTCCAAAG
1 AAGTTTTCTTCCAAAG
3664078 A
1 A
3664079 CTATGGTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (16 bp):
AAGTTTTCTTCCAAAG
Found at i:3670737 original size:31 final size:33
Alignment explanation
Indices: 3670702--3670772 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
3670692 AAAATAATTG
*
3670702 AAATATTAAATAT-AT-AAT-TTTGATAATAAAT
1 AAATATTAAATATAATAAATATTTAATAA-AAAT
3670733 AAATATTAAATATAATAAATATTTAATAAAAAT
1 AAATATTAAATATAATAAATATTTAATAAAAAT
3670766 AAATATT
1 AAATATT
3670773 TGATTAAATG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 13 0.36
32 2 0.06
33 14 0.39
34 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (33 bp):
AAATATTAAATATAATAAATATTTAATAAAAAT
Found at i:3670758 original size:17 final size:17
Alignment explanation
Indices: 3670702--3670773 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 17
3670692 AAAATAATTG
3670702 AAATA-TTAAATAT-AT
1 AAATATTTAAATATAAT
3670717 -AAT-TTTGATAATA-AAT
1 AAATATTT-A-AATATAAT
3670733 AAATA-TTAAATATAAT
1 AAATATTTAAATATAAT
*
3670749 AAATATTT-AATAAAAAT
1 AAATATTTAAAT-ATAAT
3670766 AAATATTT
1 AAATATTT
3670774 GATTAAATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
14 5 0.11
15 5 0.11
16 18 0.38
17 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (17 bp):
AAATATTTAAATATAAT
Found at i:3670762 original size:20 final size:20
Alignment explanation
Indices: 3670724--3670767 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
3670714 TATAATTTTG
* *
3670724 ATAATAAATAAATATTAAAT
1 ATAATAAATAAATAATAAAA
**
3670744 ATAATAAATATTTAATAAAA
1 ATAATAAATAAATAATAAAA
3670764 ATAA
1 ATAA
3670768 ATATTTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATAAATAAATAATAAAA
Found at i:3672047 original size:22 final size:22
Alignment explanation
Indices: 3672005--3672047 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3671995 AAGTTTTTGA
* *
3672005 TAAATTTAAATTTGAGCATTTT
1 TAAATTTAAATTTAAGAATTTT
*
3672027 TAAATTTAAATTTAATAATTT
1 TAAATTTAAATTTAAGAATTT
3672048 CATCTTTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (22 bp):
TAAATTTAAATTTAAGAATTTT
Found at i:3672412 original size:14 final size:15
Alignment explanation
Indices: 3672385--3672426 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
3672375 TACCCTTAAT
3672385 TTTAAAAT-ATATTA
1 TTTAAAATAATATTA
3672399 -TTAAAATAATATTA
1 TTTAAAATAATATTA
3672413 TTTAAAATAA-ATTA
1 TTTAAAATAATATTA
3672427 ATATTGTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.27
14 10 0.38
15 9 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAAAATAATATTA
Found at i:3674035 original size:18 final size:18
Alignment explanation
Indices: 3674012--3674059 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
3674002 ATCGGATTAA
3674012 ATATTT-TAATAATAAAAT
1 ATATTTATAA-AATAAAAT
3674030 ATATTTATAAAATAAAA-
1 ATATTTATAAAATAAAAT
3674047 A-A-TTATAAAATAA
1 ATATTTATAAAATAA
3674060 TAAATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 11 0.38
16 1 0.03
17 1 0.03
18 13 0.45
19 3 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATTTATAAAATAAAAT
Found at i:3674054 original size:15 final size:15
Alignment explanation
Indices: 3674034--3674070 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
3674024 TAAAATATAT
3674034 TTATAAAATAAAAAA
1 TTATAAAATAAAAAA
*
3674049 TTATAAAATAATAAA
1 TTATAAAATAAAAAA
3674064 TTA-AAAA
1 TTATAAAA
3674071 AAACATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TTATAAAATAAAAAA
Found at i:3674196 original size:16 final size:15
Alignment explanation
Indices: 3674175--3674227 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 15
3674165 TTAATAAATA
3674175 ATTTTAAAATAATATT
1 ATTTTAAAATAAT-TT
3674191 ATTTT--AATAATTT
1 ATTTTAAAATAATTT
*
3674204 ATTTTAAAATTGAAGTT
1 ATTTTAAAA-T-AATTT
3674221 ATTTTAA
1 ATTTTAA
3674228 TCAGTCACCC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.22
14 6 0.19
15 2 0.06
16 6 0.19
17 11 0.34
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (15 bp):
ATTTTAAAATAATTT
Found at i:3674196 original size:29 final size:30
Alignment explanation
Indices: 3674150--3674213 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
3674140 GTCAAGCAAG
3674150 TAAAA-AAGTATTAATTTAATAAATAATTT
1 TAAAATAAGTATTAATTTAATAAATAATTT
* * *
3674179 TAAAATAA-TATTATTTTAATAATTTATTT
1 TAAAATAAGTATTAATTTAATAAATAATTT
3674208 TAAAAT
1 TAAAAT
3674214 TGAAGTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 29 0.94
30 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TAAAATAAGTATTAATTTAATAAATAATTT
Found at i:3674207 original size:13 final size:13
Alignment explanation
Indices: 3674182--3674214 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
3674172 ATAATTTTAA
3674182 AATAATATTATTTT
1 AATAAT-TTATTTT
3674196 AATAATTTATTTT
1 AATAATTTATTTT
3674209 AA-AATT
1 AATAATT
3674215 GAAGTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 9 0.47
14 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATAATTTATTTT
Found at i:3674542 original size:16 final size:17
Alignment explanation
Indices: 3674518--3674550 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3674508 ATATATACAA
3674518 ATAAAATAAT-TAAATT
1 ATAAAATAATATAAATT
*
3674534 ATAACATAATATAAATT
1 ATAAAATAATATAAATT
3674551 TATATTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAATAATATAAATT
Found at i:3674581 original size:14 final size:14
Alignment explanation
Indices: 3674539--3674588 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
3674529 AAATTATAAC
3674539 ATAATATAAATT-T
1 ATAATATAAATTAT
* *
3674552 ATATTTTAAAATTTAT
1 ATAATAT-AAA-TTAT
3674568 ATAATATAAATTAT
1 ATAATATAAATTAT
3674582 -TAATATA
1 ATAATATA
3674589 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 12 0.40
14 7 0.23
15 5 0.17
16 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATAATATAAATTAT
Found at i:3674597 original size:14 final size:14
Alignment explanation
Indices: 3674546--3674601 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
3674536 AACATAATAT
*
3674546 AAATTTATATTTTA
1 AAATTTATATATTA
3674560 AAATTTATATAATATA
1 AAATTTATAT-AT-TA
*
3674576 AATTATTAATATATTA
1 AA--ATTTATATATTA
3674592 AAA-TTATATA
1 AAATTTATATA
3674602 AATATAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
13 6 0.17
14 11 0.31
15 1 0.03
16 8 0.23
17 2 0.06
18 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTATATATTA
Found at i:3674597 original size:17 final size:17
Alignment explanation
Indices: 3674575--3674653 Score: 53
Period size: 17 Copynumber: 4.8 Consensus size: 17
3674565 TATATAATAT
3674575 AAATTATTAATATATTA
1 AAATTATTAATATATTA
*
3674592 AAATTATATAA-ATATAA
1 AAATTAT-TAATATATTA
*
3674609 AAATATTTTAA-ATATT-
1 AAAT-TATTAATATATTA
*
3674625 --ATTA-TAATATATCA
1 AAATTATTAATATATTA
*
3674639 AAATATATAAATATA
1 AAAT-TATTAATATA
3674654 ACATCAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 15
0.70 0.09 0.22
Matches are distributed among these distances:
12 3 0.06
13 5 0.10
14 2 0.04
16 2 0.04
17 25 0.52
18 11 0.23
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATTATTAATATATTA
Found at i:3674600 original size:26 final size:28
Alignment explanation
Indices: 3674566--3674652 Score: 90
Period size: 27 Copynumber: 3.1 Consensus size: 28
3674556 TTTAAAATTT
* **
3674566 ATATAATATAAAT-TATTAATATATTAA
1 ATATTATATAAATATAAAAATATATTAA
*
3674593 A-ATTATATAAATATAAAAATATTTTAA
1 ATATTATATAAATATAAAAATATATTAA
*
3674620 ATATTATTATAATATATCAAAATATA-TAA
1 ATATTA-TATAA-ATATAAAAATATATTAA
3674649 ATAT
1 ATAT
3674653 AACATCAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 10 0.20
27 13 0.26
28 4 0.08
29 12 0.24
30 11 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTATATAAATATAAAAATATATTAA
Found at i:3674606 original size:32 final size:29
Alignment explanation
Indices: 3674539--3674609 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 29
3674529 AAATTATAAC
*
3674539 ATAATATAAATTTATATTTTAAAATTTAT
1 ATAATATAAATTTATATATTAAAATTTAT
3674568 ATAATATAAATTATTAATATATTAAAA-TTAT
1 ATAATATAAA-T-TT-ATATATTAAAATTTAT
3674599 ATAAATATAAA
1 AT-AATATAAA
3674610 AATATTTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
29 10 0.27
30 1 0.03
31 8 0.22
32 18 0.49
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAATATAAATTTATATATTAAAATTTAT
Found at i:3674607 original size:8 final size:8
Alignment explanation
Indices: 3674571--3674653 Score: 51
Period size: 8 Copynumber: 9.4 Consensus size: 8
3674561 AATTTATATA
3674571 ATATAAAT
1 ATATAAAT
*
3674579 -TATTAAT
1 ATATAAAT
3674586 ATATTAAAATT
1 ATA-T-AAA-T
3674597 ATATAAAT
1 ATATAAAT
*
3674605 ATAAAAAT
1 ATATAAAT
*
3674613 ATTTTAAAT
1 A-TATAAAT
3674622 ATTATTATAAT
1 A-TA-TA-AAT
3674633 ATATCAAAAT
1 ATAT--AAAT
3674643 ATATAAAT
1 ATATAAAT
3674651 ATA
1 ATA
3674654 ACATCAATAT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
7 6 0.10
8 18 0.30
9 13 0.22
10 14 0.23
11 9 0.15
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (8 bp):
ATATAAAT
Found at i:3679369 original size:8 final size:8
Alignment explanation
Indices: 3679356--3679409 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 8
3679346 AATTTTTAAA
3679356 AAAAAATG
1 AAAAAATG
3679364 AAAAAATGAG
1 AAAAAAT--G
3679374 AAAAAATG
1 AAAAAATG
*
3679382 -ATAAATG
1 AAAAAATG
*
3679389 AAAAAAAG
1 AAAAAATG
3679397 -AAAAA-G
1 AAAAAATG
3679403 AAAAAAT
1 AAAAAAT
3679410 TTTATATATT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
6 1 0.03
7 16 0.42
8 13 0.34
10 8 0.21
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:3679500 original size:16 final size:16
Alignment explanation
Indices: 3679479--3679514 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
3679469 CATATTAATA
*
3679479 ATTTTTATTTCATGTAT
1 ATTTTTATAT-ATGTAT
3679496 ATTTTTATATATGTAT
1 ATTTTTATATATGTAT
3679512 ATT
1 ATT
3679515 CGTGTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
ATTTTTATATATGTAT
Found at i:3679799 original size:15 final size:16
Alignment explanation
Indices: 3679763--3679802 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
3679753 TTTAATATTT
*
3679763 ATAAAATTTTTAATTAA
1 ATAAAA-TTGTAATTAA
3679780 ATAAAATTGTAATT-A
1 ATAAAATTGTAATTAA
3679795 ATAAAATT
1 ATAAAATT
3679803 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAAATTGTAATTAA
Found at i:3680385 original size:19 final size:19
Alignment explanation
Indices: 3680363--3680401 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
3680353 TTTATAATTA
* *
3680363 ATTTTAAATTTTTATTTTT
1 ATTTTAAATTATTATATTT
3680382 ATTTTAAATTATTATATTT
1 ATTTTAAATTATTATATTT
3680401 A
1 A
3680402 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTAAATTATTATATTT
Found at i:3680473 original size:15 final size:14
Alignment explanation
Indices: 3680448--3680499 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
3680438 TTTAACGTTG
3680448 GTTTTTATTTTTAA
1 GTTTTTATTTTTAA
3680462 GTTTTGTATTTTTAA
1 GTTTT-TATTTTTAA
** *
3680477 -AATTTCTTTTTAA
1 GTTTTTATTTTTAA
*
3680490 GTTTTAATTT
1 GTTTTTATTT
3680500 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
13 8 0.28
14 12 0.41
15 9 0.31
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.67
Consensus pattern (14 bp):
GTTTTTATTTTTAA
Found at i:3680604 original size:6 final size:6
Alignment explanation
Indices: 3680595--3680630 Score: 56
Period size: 6 Copynumber: 6.0 Consensus size: 6
3680585 TTTTTTAATT
3680595 TTTTAA TTTTAA TTTTAA TTTTTAA TTTT-A TTTTAA
1 TTTTAA TTTTAA TTTTAA -TTTTAA TTTTAA TTTTAA
3680631 AATAATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:3680604 original size:7 final size:7
Alignment explanation
Indices: 3680586--3680623 Score: 53
Period size: 6 Copynumber: 5.6 Consensus size: 7
3680576 TTAAAATAAT
3680586 TTTTTAA
1 TTTTTAA
3680593 TTTTTTAA
1 -TTTTTAA
3680601 -TTTTAA
1 TTTTTAA
3680607 -TTTTAA
1 TTTTTAA
3680613 TTTTTAA
1 TTTTTAA
3680620 TTTT
1 TTTT
3680624 ATTTTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.41
7 10 0.34
8 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTAA
Found at i:3680612 original size:12 final size:12
Alignment explanation
Indices: 3680595--3680630 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
3680585 TTTTTTAATT
3680595 TTTTAATTTTAA
1 TTTTAATTTTAA
3680607 TTTTAATTTTTAA
1 TTTTAA-TTTTAA
3680620 TTTT-ATTTTAA
1 TTTTAATTTTAA
3680631 AATAATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.26
12 7 0.30
13 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
TTTTAATTTTAA
Found at i:3680618 original size:19 final size:19
Alignment explanation
Indices: 3680587--3680630 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
3680577 TAAAATAATT
3680587 TTTTAATTTTTTAATTTTAA
1 TTTTAATTTTTTAATTTT-A
3680607 TTTTAA-TTTTTAATTTTA
1 TTTTAATTTTTTAATTTTA
3680625 TTTTAA
1 TTTTAA
3680631 AATAATGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 7 0.29
19 11 0.46
20 6 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTAATTTTTTAATTTTA
Found at i:3680760 original size:15 final size:16
Alignment explanation
Indices: 3680723--3680764 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
3680713 AATAAAAGAA
3680723 TTAATGATTATAATATT
1 TTAATG-TTATAATATT
**
3680740 GAAATGTTAT-ATATT
1 TTAATGTTATAATATT
3680755 TTAATGTTAT
1 TTAATGTTAT
3680765 TTTGTATGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TTAATGTTATAATATT
Found at i:3681442 original size:28 final size:28
Alignment explanation
Indices: 3681406--3681472 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 28
3681396 ATTTTAAATA
3681406 AAAATTTAAATAT-ATAATTATTATTTAAT
1 AAAA-TTAAATATAAT-ATTATTATTTAAT
* * *
3681435 AAAATTAAATTTAATATTATTTTTTATT
1 AAAATTAAATATAATATTATTATTTAAT
3681463 AATAATTAAA
1 AA-AATTAAA
3681473 AATTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AAAATTAAATATAATATTATTATTTAAT
Found at i:3681903 original size:17 final size:17
Alignment explanation
Indices: 3681857--3681905 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
3681847 TATTAGTAAA
3681857 TATTTTTATA-T-T-TT
1 TATTTTTATATTATATT
* * *
3681871 TATATTTGTATCATATT
1 TATTTTTATATTATATT
3681888 TATTTTTATATTATATT
1 TATTTTTATATTATATT
3681905 T
1 T
3681906 TAATTAATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
14 8 0.31
16 1 0.04
17 17 0.65
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
TATTTTTATATTATATT
Found at i:3682282 original size:31 final size:31
Alignment explanation
Indices: 3682247--3682348 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
3682237 TTAATAACAT
3682247 ATTTATATTATTTTTTAATAAAATATTATAA
1 ATTTATATTATTTTTTAATAAAATATTATAA
* * *
3682278 ATTTATATAATTTTTTTAATATTAATA--ATTA
1 ATTTATATTA-TTTTTTAATA-AAATATTATAA
* * *
3682309 ATATTATA-TATATTTTAAT-ATA-ATTATAT
1 AT-TTATATTATTTTTTAATAAAATATTATAA
3682338 ATTTATATTAT
1 ATTTATATTAT
3682349 ATTTATATTA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
27 1 0.02
28 6 0.11
29 7 0.12
30 8 0.14
31 15 0.27
32 15 0.27
33 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTTATATTATTTTTTAATAAAATATTATAA
Found at i:3682351 original size:11 final size:11
Alignment explanation
Indices: 3682335--3682360 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3682325 AATATAATTA
3682335 TATATTTATAT
1 TATATTTATAT
3682346 TATATTTATAT
1 TATATTTATAT
3682357 TATA
1 TATA
3682361 ATAACACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATATTTATAT
Found at i:3701294 original size:15 final size:16
Alignment explanation
Indices: 3701269--3701309 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
3701259 TTATAATCTA
3701269 ATAATAATTAAATAAT
1 ATAATAATTAAATAAT
*
3701285 ATAA-AATTAAATAAA
1 ATAATAATTAAATAAT
3701300 ATACATAATT
1 ATA-ATAATT
3701310 TCCAATTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 5 0.23
17 4 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAATTAAATAAT
Found at i:3704435 original size:11 final size:12
Alignment explanation
Indices: 3704409--3704448 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
3704399 ATTTAAATAT
3704409 AAATATAATTTTA
1 AAATATAA-TTTA
3704422 AAATATAA-TTA
1 AAATATAATTTA
3704433 AAATATAAATTTA
1 AAATAT-AATTTA
3704446 AAA
1 AAA
3704449 AATTTAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATAATTTA
Found at i:3704988 original size:2 final size:2
Alignment explanation
Indices: 3704983--3705008 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3704973 ACACACACAC
3704983 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
3705009 TTCCATTGTG
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3707348 original size:2 final size:2
Alignment explanation
Indices: 3707341--3707382 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3707331 TGATACATAC
*
3707341 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
3707383 TCCACAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3712054 original size:15 final size:15
Alignment explanation
Indices: 3712034--3712063 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3712024 TCCCGTCTTT
3712034 ATTACATAAGTCAAA
1 ATTACATAAGTCAAA
3712049 ATTACATAAGTCAAA
1 ATTACATAAGTCAAA
3712064 TCCGAATGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (15 bp):
ATTACATAAGTCAAA
Found at i:3714052 original size:32 final size:32
Alignment explanation
Indices: 3713988--3714060 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 32
3713978 TTAATATGAA
*
3713988 TATATTTAATTTTTTTAAAATTATTTTATATATT
1 TATATTT--TTTTTTTAAAAATATTTTATATATT
3714022 TA-ATTTTTTTTTTAAAAAAATATTTT-TATATT
1 TATATTTTTTTTTT--AAAAATATTTTATATATT
3714054 TATATTT
1 TATATTT
3714061 AAATATATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
31 7 0.20
32 8 0.23
33 18 0.51
34 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (32 bp):
TATATTTTTTTTTTAAAAATATTTTATATATT
Found at i:3714083 original size:25 final size:25
Alignment explanation
Indices: 3714055--3714102 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3714045 TTTTATATTT
3714055 ATATTTAAATATATTTTGAATATGA
1 ATATTTAAATATATTTTGAATATGA
3714080 ATATTTAAATATATTTTGAATAT
1 ATATTTAAATATATTTTGAATAT
3714103 AAATTTCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (25 bp):
ATATTTAAATATATTTTGAATATGA
Found at i:3714910 original size:2 final size:2
Alignment explanation
Indices: 3714903--3714929 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3714893 CATAATCAAT
3714903 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
3714930 TATATATATA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3717261 original size:29 final size:28
Alignment explanation
Indices: 3717220--3717289 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
3717210 TTTATATTTT
3717220 ATAATT-ATATAATATTAAAATTAT-TAAA
1 ATAATTGAT-TAAT-TTAAAATTATATAAA
* *
3717248 TTAATTTGATTAATTTAAATTTATAATAAA
1 ATAA-TTGATTAATTTAAAATTAT-ATAAA
3717278 ATAATTGATTAA
1 ATAATTGATTAA
3717290 CGTATATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
28 12 0.34
29 14 0.40
30 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
ATAATTGATTAATTTAAAATTATATAAA
Found at i:3717416 original size:35 final size:35
Alignment explanation
Indices: 3717345--3717456 Score: 99
Period size: 36 Copynumber: 3.2 Consensus size: 35
3717335 AATACGATTT
* * * * *
3717345 ATAAA-TTTATTTTATTATTTAAAAATATATTAAAA
1 ATAAATTTTATATTAATATTTATAATTAAATT-AAA
3717380 ATAAATTTTATATTAATATTTATAATTAAATTAAA
1 ATAAATTTTATATTAATATTTATAATTAAATTAAA
*
3717415 AT-AATTTTATTAATTAAATAATTAT--TTAAATT-AA
1 ATAAATTTTA-T-ATT-AATATTTATAATTAAATTAAA
3717449 ATAAATTT
1 ATAAATTT
3717457 AATCATAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
34 11 0.17
35 23 0.35
36 24 0.36
37 8 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATAAATTTTATATTAATATTTATAATTAAATTAAA
Found at i:3717435 original size:17 final size:17
Alignment explanation
Indices: 3717406--3717457 Score: 61
Period size: 17 Copynumber: 3.0 Consensus size: 17
3717396 TATTTATAAT
3717406 TAAATTAAAATAATTTTA
1 TAAATT-AAATAATTTTA
*
3717424 TTAATTAAATAATTATT-
1 TAAATTAAATAATT-TTA
*
3717441 TAAATTAAATAAATTTA
1 TAAATTAAATAATTTTA
3717458 ATCATAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 2 0.07
17 20 0.69
18 7 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TAAATTAAATAATTTTA
Found at i:3724113 original size:2 final size:2
Alignment explanation
Indices: 3724106--3724133 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3724096 TAAGGAGAAT
3724106 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
3724134 CATCAAAATA
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3724827 original size:2 final size:2
Alignment explanation
Indices: 3724822--3724854 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3724812 GGGGGGGGGG
3724822 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
3724855 CTGAAGAGAC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3730838 original size:2 final size:2
Alignment explanation
Indices: 3730831--3730861 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3730821 TTCTGGGTGC
3730831 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 A
3730862 ATTTTATATT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3731406 original size:26 final size:25
Alignment explanation
Indices: 3731376--3731430 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 25
3731366 TTTTAATTTG
3731376 AATTTAAAATTAAATATAAATAATTA
1 AATTTAAAATTAAATAT-AATAATTA
*
3731402 AATTTAAAATTAAATATAATCATTA
1 AATTTAAAATTAAATATAATAATTA
3731427 AATT
1 AATT
3731431 AATTTTATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 11 0.39
26 17 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
AATTTAAAATTAAATATAATAATTA
Found at i:3733416 original size:21 final size:21
Alignment explanation
Indices: 3733390--3733431 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
3733380 AAAAATTATT
3733390 TTTTAT-ATTAATATTAAAATA
1 TTTTATAATTAA-ATTAAAATA
*
3733411 TTTTATAATTAAATTTAAATA
1 TTTTATAATTAAATTAAAATA
3733432 AAAAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTTTATAATTAAATTAAAATA
Found at i:3737875 original size:3 final size:3
Alignment explanation
Indices: 3737867--3737892 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3737857 CTTGCTGATA
3737867 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
3737893 ATGCTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3741720 original size:15 final size:15
Alignment explanation
Indices: 3741700--3741741 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
3741690 ATCACTATTT
*
3741700 TTAATCTCATCAAAA
1 TTAATCTTATCAAAA
*
3741715 TTAATCTTATAAAAA
1 TTAATCTTATCAAAA
*
3741730 CTAATCTTATCA
1 TTAATCTTATCA
3741742 CCCATCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATCTTATCAAAA
Found at i:3744571 original size:22 final size:21
Alignment explanation
Indices: 3744546--3744593 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
3744536 GTTTACAGTA
*
3744546 TATATTATATATATTTATGTTT
1 TATATGATATATATTTAT-TTT
*
3744568 TATATGCTATATATTTATTTT
1 TATATGATATATATTTATTTT
3744589 TATAT
1 TATAT
3744594 CATACAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.62
Consensus pattern (21 bp):
TATATGATATATATTTATTTT
Found at i:3744591 original size:21 final size:22
Alignment explanation
Indices: 3744553--3744593 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
3744543 GTATATATTA
3744553 TATATATTTATGTTTTATATGC
1 TATATATTTATGTTTTATATGC
3744575 TATATATTTAT-TTTTATAT
1 TATATATTTATGTTTTATAT
3744594 CATACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.63
Consensus pattern (22 bp):
TATATATTTATGTTTTATATGC
Found at i:3744728 original size:13 final size:13
Alignment explanation
Indices: 3744710--3744739 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3744700 TAAATCATGT
3744710 TTTATTATTTAAA
1 TTTATTATTTAAA
*
3744723 TTTATTTTTTAAA
1 TTTATTATTTAAA
3744736 TTTA
1 TTTA
3744740 ATAATTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTATTATTTAAA
Found at i:3748884 original size:23 final size:24
Alignment explanation
Indices: 3748835--3748923 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 24
3748825 AGTTTTTAAC
* **
3748835 TTTTAATTTATATTTAAATAATTT
1 TTTTAATTTATATTAAAATAAAAT
*
3748859 TTTTTATTTAT-TTAAAATAAAA-
1 TTTTAATTTATATTAAAATAAAAT
* *
3748881 TTTT-ATTTGAGAATAAAATAAAAT
1 TTTTAATTT-ATATTAAAATAAAAT
* * *
3748905 ATTAAAATT-TATTAAAATA
1 TTTTAATTTATATTAAAATA
3748924 TAATAAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
21 4 0.08
22 5 0.10
23 26 0.52
24 12 0.24
25 3 0.06
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTTAATTTATATTAAAATAAAAT
Found at i:3748897 original size:18 final size:17
Alignment explanation
Indices: 3748865--3748899 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3748855 ATTTTTTTTA
3748865 TTTATTTAAAATAAAAT
1 TTTATTTAAAATAAAAT
*
3748882 TTTATTTGAGAATAAAAT
1 TTTATTT-AAAATAAAAT
3748900 AAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (17 bp):
TTTATTTAAAATAAAAT
Found at i:3749387 original size:7 final size:7
Alignment explanation
Indices: 3749375--3749403 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
3749365 GCCAACTTCT
3749375 CTTCTCC
1 CTTCTCC
3749382 CTTCTCC
1 CTTCTCC
3749389 CTTCTCC
1 CTTCTCC
3749396 CTTCTCC
1 CTTCTCC
3749403 C
1 C
3749404 GTGTTTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (7 bp):
CTTCTCC
Found at i:3761207 original size:11 final size:11
Alignment explanation
Indices: 3761191--3761215 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3761181 TATATATATG
3761191 TTTTTTCATTA
1 TTTTTTCATTA
3761202 TTTTTTCATTA
1 TTTTTTCATTA
3761213 TTT
1 TTT
3761216 ATGTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCATTA
Found at i:3762415 original size:9 final size:10
Alignment explanation
Indices: 3762393--3762428 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
3762383 ATACTAATTG
*
3762393 ATATAAATCG
1 ATATAAATCA
3762403 ATAT-AATCA
1 ATATAAATCA
3762412 ATATAAATCA
1 ATATAAATCA
3762422 ATATAAA
1 ATATAAA
3762429 ATTAAAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (10 bp):
ATATAAATCA
Found at i:3765043 original size:122 final size:122
Alignment explanation
Indices: 3764815--3765181 Score: 511
Period size: 122 Copynumber: 3.0 Consensus size: 122
3764805 ACACATACCT
* * **
3764815 TAAAATCAATAAGGCCTTGTGTGTTCTTGGAAAGCAATGAAACAGTCATCAACTACCCAGAGCAT
1 TAAAATCAATAAGGCCTTGAGTATTCTTGGAAAGCAATGAAACAGTCATTGACTACCCAGAGCAT
* * * * * *
3764880 CTATAAAGATTGTTCTTTCAAACAATTCAAGGTACAGAACTTGAATCAACCAGTGAC
66 GTAGAAAGATTGTTCTGTCAAACAATTCAGGGTGCAAAACTTGAATCAACCAGTGAC
* * * * * * *
3764937 TAAAATCCAGAAGGCCTTGAGTTTTCTTGGAAAGCTATGAAACAGTCATTGATTAACCAAAGCAT
1 TAAAATCAATAAGGCCTTGAGTATTCTTGGAAAGCAATGAAACAGTCATTGACTACCCAGAGCAT
* *
3765002 GTAGAAACATTGTTCTGTCAAACAATTCAGGGTGCAAAACTTGAATCCACCAGTGAC
66 GTAGAAAGATTGTTCTGTCAAACAATTCAGGGTGCAAAACTTGAATCAACCAGTGAC
* * *
3765059 TAAAATCAATAAGGCCTTGAGTATTCTTGGAAAGCCATGAAAGAGTCAATTGACTACCCAGAGTA
1 TAAAATCAATAAGGCCTTGAGTATTCTTGGAAAGCAATGAAACAGTC-ATTGACTACCCAGAGCA
3765124 TGTAGAAAGATTGTTC-GTTCAAACAATTCAGGGTGCAAAACTTGAATCAACCAGTGAC
65 TGTAGAAAGATTGTTCTG-TCAAACAATTCAGGGTGCAAAACTTGAATCAACCAGTGAC
3765182 GAATCAGCAA
Statistics
Matches: 214, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
122 147 0.69
123 67 0.31
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (122 bp):
TAAAATCAATAAGGCCTTGAGTATTCTTGGAAAGCAATGAAACAGTCATTGACTACCCAGAGCAT
GTAGAAAGATTGTTCTGTCAAACAATTCAGGGTGCAAAACTTGAATCAACCAGTGAC
Found at i:3775141 original size:2 final size:2
Alignment explanation
Indices: 3775134--3775164 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3775124 ACACAACGAT
3775134 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 T
3775165 TACTCTGCGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3779736 original size:26 final size:25
Alignment explanation
Indices: 3779707--3779762 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
3779697 ATAATAGATT
3779707 AATTTAACACAA-ATTAAATTAATTAA
1 AATTTAACACAATATTAAA-T-ATTAA
* *
3779733 AATTTAATACAATTTTAAATATTAA
1 AATTTAACACAATATTAAATATTAA
3779758 AATTT
1 AATTT
3779763 TGAAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 10 0.37
26 12 0.44
27 5 0.19
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (25 bp):
AATTTAACACAATATTAAATATTAA
Found at i:3779949 original size:2 final size:2
Alignment explanation
Indices: 3779944--3779975 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3779934 TCTCTCTCTC
3779944 TA TA TA TA TA -A 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 T
3779976 TTAATTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3786965 original size:29 final size:28
Alignment explanation
Indices: 3786923--3787006 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 28
3786913 TTTAATTATT
* *
3786923 ATTTATTAATAAAAAATATTTTTATTTAA
1 ATTTATT-ATAAAAAATATTTTAATATAA
*
3786952 ATTTAATTAT-AAAAATATGTTAATATAA
1 ATTT-ATTATAAAAAATATTTTAATATAA
*
3786980 ATATTGA-TATAAAATATATTTTAATAT
1 AT-TT-ATTATAAAAAATATTTTAATAT
3787007 TTATAACATT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
28 20 0.43
29 23 0.50
30 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
ATTTATTATAAAAAATATTTTAATATAA
Found at i:3786966 original size:28 final size:28
Alignment explanation
Indices: 3786926--3787006 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
3786916 AATTATTATT
* *
3786926 TATTAATA-AAAAATATTTTTATTTAAA
1 TATTAATATAAAAATATTTTAATATAAA
*
3786953 T-TTAATTATAAAAATATGTTAATATAAA
1 TATTAA-TATAAAAATATTTTAATATAAA
*
3786981 TATTGATATAAAATATATTTTAATAT
1 TATTAATATAAAA-ATATTTTAATAT
3787007 TTATAACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.09
27 3 0.07
28 24 0.53
29 14 0.31
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (28 bp):
TATTAATATAAAAATATTTTAATATAAA
Found at i:3791496 original size:14 final size:14
Alignment explanation
Indices: 3791477--3791521 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
3791467 CAAAACAATA
*
3791477 ATTCCATCTATTCC
1 ATTCCACCTATTCC
*
3791491 ATTCCACCTATTTC
1 ATTCCACCTATTCC
*
3791505 ATTTCACCTATTCC
1 ATTCCACCTATTCC
3791519 ATT
1 ATT
3791522 TTATTCTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.44
Consensus pattern (14 bp):
ATTCCACCTATTCC
Found at i:3792123 original size:39 final size:41
Alignment explanation
Indices: 3792069--3792154 Score: 131
Period size: 39 Copynumber: 2.1 Consensus size: 41
3792059 CACCGACTAA
* *
3792069 ATGAATGCATTGATGAATTTTGGTGACCA-TA-TTGATTCC
1 ATGAATACATTGATGAATTCTGGTGACCATTATTTGATTCC
3792108 ATGAATACATTGATGAATTCTGGTGACCATTATTTGATTCC
1 ATGAATACATTGATGAATTCTGGTGACCATTATTTGATTCC
*
3792149 GTGAAT
1 ATGAAT
3792155 GGGAATGACT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
39 27 0.64
40 2 0.05
41 13 0.31
ACGTcount: A:0.29, C:0.13, G:0.20, T:0.38
Consensus pattern (41 bp):
ATGAATACATTGATGAATTCTGGTGACCATTATTTGATTCC
Found at i:3796839 original size:2 final size:2
Alignment explanation
Indices: 3796834--3796859 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3796824 ATTATGTGTG
3796834 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
3796860 AAATATTAGA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3797615 original size:2 final size:2
Alignment explanation
Indices: 3797608--3797649 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3797598 TGATTATTTA
3797608 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
3797650 TGGCTTATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3798818 original size:8 final size:8
Alignment explanation
Indices: 3798786--3798828 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
3798776 GCCGACCACC
*
3798786 TATACGTA
1 TATACATA
3798794 TATACATA
1 TATACATA
*
3798802 CATACATA
1 TATACATA
*
3798810 TATATATA
1 TATACATA
*
3798818 TATATATA
1 TATACATA
3798826 TAT
1 TAT
3798829 TTGACATGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (8 bp):
TATACATA
Found at i:3799383 original size:13 final size:13
Alignment explanation
Indices: 3799365--3799390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3799355 TTGTTACAAA
3799365 AAATAAATAAAAT
1 AAATAAATAAAAT
3799378 AAATAAATAAAAT
1 AAATAAATAAAAT
3799391 GGAAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:3800884 original size:239 final size:235
Alignment explanation
Indices: 3800413--3800887 Score: 618
Period size: 239 Copynumber: 2.0 Consensus size: 235
3800403 AGTAGTAAAA
* *
3800413 TTTTATATTTTAATTTTTTATCTCGATCTTCCTAATATGATATTCTTGACTTCACCTCTATTATC
1 TTTTATATTTTAATTTTTTATCTCGATCTTCCTAATATGATATTCTTAACTTCACCTCTACTATC
* *
3800478 GTAATAGTGAATACATAGAAAAATTAGATTATTATGTTTTTTCAATAACTAATAAAATATGTTAT
66 GTAATAGTGAATACATAGAAAAAATAGATTATTATGTTTTTTCAATAACTAATAAAATATGTTAC
* * * * * *
3800543 TTGAATTTAATTATTAAATATAAACATATGTTTGATAAAAATATTTTTTTATTTTAAAAATAAGA
131 TTAAATTTAATTATTAAATAT--A-ATATATTTAATAAAAATATTTTTATATTTAAAAAATAAAA
*
3800608 AATCGAATAACATAATTAACAAATATATAACAGTTTGCTAATT
193 AATCGAATAACATAATTAACAAATATAGAACAGTTTGCTAATT
* * * *
3800651 TTTTATATTTTAATTTTTTTTATCTCGATCTTCCTATTATGATATTCTTAATTTCGCTTCTACTA
1 TTTTATATTTTAA--TTTTTTATCTCGATCTTCCTAATATGATATTCTTAACTTCACCTCTACTA
* * * *
3800716 TCTTAATAGTGAATACATA-AAAAAATAGATTATTATGTTTTTTACGTAATTACTAAT-AATTTT
64 TCGTAATAGTGAATACATAGAAAAAATAGATTATTATGTTTTTT-C--AATAACTAATAAAATAT
* *
3800779 GTTACTTAAATTTAATTATTAAATAT-TTATATTTAATACAAATAATTTTTATA-TTAAAAAATA
126 GTTACTTAAATTTAATTATTAAATATAATATATTTAATAAAAAT-ATTTTTATATTTAAAAAAT-
3800842 AAAAAAATC-AGATAACATAATTAACAAATATAGAACAGTTTGCTAA
189 -AAAAAATCGA-ATAACATAATTAACAAATATAGAACAGTTTGCTAA
3800888 ATCTATAAAA
Statistics
Matches: 207, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
237 21 0.10
238 22 0.11
239 64 0.31
240 63 0.30
241 28 0.14
242 9 0.04
ACGTcount: A:0.40, C:0.09, G:0.06, T:0.45
Consensus pattern (235 bp):
TTTTATATTTTAATTTTTTATCTCGATCTTCCTAATATGATATTCTTAACTTCACCTCTACTATC
GTAATAGTGAATACATAGAAAAAATAGATTATTATGTTTTTTCAATAACTAATAAAATATGTTAC
TTAAATTTAATTATTAAATATAATATATTTAATAAAAATATTTTTATATTTAAAAAATAAAAAAT
CGAATAACATAATTAACAAATATAGAACAGTTTGCTAATT
Found at i:3802913 original size:27 final size:27
Alignment explanation
Indices: 3802882--3802934 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
3802872 ATTTAATTAA
*
3802882 TTTGATATTT-ATTTTTTTAAATAAAAT
1 TTTGA-ATTTAATTTTTATAAATAAAAT
*
3802909 TTTGAATTTAATTTTTATGAATAAAA
1 TTTGAATTTAATTTTTATAAATAAAA
3802935 GAATTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTGAATTTAATTTTTATAAATAAAAT
Found at i:3803132 original size:21 final size:20
Alignment explanation
Indices: 3803108--3803151 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
3803098 GAAATGAAAA
*
3803108 TAAATGTAAAAATATAATTTT
1 TAAATATAAAAATAT-ATTTT
* *
3803129 TAAATATATAAATATGTTTT
1 TAAATATAAAAATATATTTT
3803149 TAA
1 TAA
3803152 TTTGTTTCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
TAAATATAAAAATATATTTT
Found at i:3803138 original size:91 final size:93
Alignment explanation
Indices: 3803036--3803306 Score: 309
Period size: 95 Copynumber: 2.9 Consensus size: 93
3803026 TTTAATAAAA
*
3803036 AAATATTATATATGTTTAATTTCTTTCATATTTCTAAAATTGAAATATTTATTGGCAATAGAGAA
1 AAATA-TATATATGTTTAATTTCTTTCATGTTT-TAAAATTGAAATATTTATTGGCAATAGAGAA
3803101 ATGAAAATAAATGTAAAAATATA-ATTTTT
64 ATGAAAATAAATGTAAAAATATATATTTTT
* * * *
3803130 AAATATATAAATATGTTTTTAATTTGTTTCATGTTTT-AAATTGAAATATTTGTAGGCAATAAAG
1 AAATATAT--ATATG--TTTAATTTCTTTCATGTTTTAAAATTGAAATATTTATTGGCAATAGAG
* * * *
3803194 AAATGAAAATCAATGTCAAAATTTATTTTTTT
62 AAATGAAAATAAATGTAAAAATATATATTTTT
* * * * * *
3803226 AAATA-A-ATTTTTTTAATTTGCTTTCATGCTTTAAAATTGATATATTAATTGGCAACAGAGAAA
1 AAATATATATATGTTTAATTT-CTTTCATGTTTTAAAATTGAAATATTTATTGGCAATAGAGAAA
3803289 TG-AAATAAATGTAAAAAT
65 TGAAAATAAATGTAAAAAT
3803307 TAAAAGCTAA
Statistics
Matches: 149, Mismatches: 21, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
90 8 0.05
91 24 0.16
92 29 0.19
93 3 0.02
94 5 0.03
95 52 0.35
96 11 0.07
97 17 0.11
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (93 bp):
AAATATATATATGTTTAATTTCTTTCATGTTTTAAAATTGAAATATTTATTGGCAATAGAGAAAT
GAAAATAAATGTAAAAATATATATTTTT
Done.