Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 163 of 205
Found at i:48690183 original size:29 final size:30
Alignment explanation
Indices: 48690150--48690207 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
48690140 AATTATTTAT
48690150 ATTTAATCA-TATAATAAATTA-TTAATATA
1 ATTT-ATCATTATAATAAATTATTTAATATA
* *
48690179 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
48690208 TTTAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.12
29 15 0.60
30 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:48690215 original size:26 final size:26
Alignment explanation
Indices: 48690140--48690217 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 26
48690130 ATACATATTT
*
48690140 AATTATTT-ATA-TTTAATCATATAATA
1 AATTATTTAATATTTTAAT--TTTAATA
48690166 AATTA-TTAATATAATTTATTATTTTAATA
1 AATTATTTAATAT--TTTA--ATTTTAATA
48690195 AATTATTTAATATTTTAATTTTA
1 AATTATTTAATATTTTAATTTTA
48690218 TGTTAATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 2 0.05
26 14 0.32
28 4 0.09
29 15 0.34
30 7 0.16
31 2 0.05
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (26 bp):
AATTATTTAATATTTTAATTTTAATA
Found at i:48690249 original size:15 final size:16
Alignment explanation
Indices: 48690222--48690256 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
48690212 ATTTTATGTT
48690222 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
48690238 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
48690253 AATA
1 AATA
48690257 TTCTTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:48690336 original size:17 final size:17
Alignment explanation
Indices: 48690282--48690336 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
48690272 TAAAATATTC
* *
48690282 AATATTAATATTTTAAT
1 AATATAAATATATTAAT
*
48690299 AATA-AATATTTATTACA-
1 AATATAA-ATATATTA-AT
48690316 AATATAAATATATTAAT
1 AATATAAATATATTAAT
48690333 AATA
1 AATA
48690337 AACGTTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 2 0.07
17 25 0.83
18 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATAAATATATTAAT
Found at i:48698630 original size:23 final size:24
Alignment explanation
Indices: 48698600--48698645 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
48698590 TCTTTATTTC
48698600 TTTATTTGTCTTTA-ATTATTTTG
1 TTTATTTGTCTTTAGATTATTTTG
* *
48698623 TTTATTTGTTTTTAGTTTATTTT
1 TTTATTTGTCTTTAGATTATTTT
48698646 CTTTTGGTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.74
Consensus pattern (24 bp):
TTTATTTGTCTTTAGATTATTTTG
Found at i:48700900 original size:26 final size:26
Alignment explanation
Indices: 48700871--48700941 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
48700861 CCAATATCAT
* * *
48700871 AGCAAAGGC-GCCAGTAATAGTGATGC
1 AGCAAA-GCTGCCAGTAACAGTAATCC
48700897 AGCAAAGCTGCCAGTAACAGTAATCC
1 AGCAAAGCTGCCAGTAACAGTAATCC
*
48700923 AACAAAGCTGCCAGTAACA
1 AGCAAAGCTGCCAGTAACA
48700942 ATATATGTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 2 0.05
26 38 0.95
ACGTcount: A:0.39, C:0.24, G:0.23, T:0.14
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTAATCC
Found at i:48701527 original size:17 final size:17
Alignment explanation
Indices: 48701501--48701644 Score: 121
Period size: 17 Copynumber: 8.4 Consensus size: 17
48701491 CACGAGATTT
48701501 TTTTTGAAAACACGAAAA
1 TTTTT-AAAACACGAAAA
*
48701519 TTTTCAAAACACCG-AAA
1 TTTTTAAAACA-CGAAAA
* **
48701536 TTTTTGAAAACAAGAGGA
1 TTTTT-AAAACACGAAAA
* * *
48701554 TTTTTGAAATAAGAAAAA
1 TTTTTAAAACACG-AAAA
*
48701572 TTTTGAAAACACGAAAA
1 TTTTTAAAACACGAAAA
* *
48701589 TTTTTGAAACACGGAAA
1 TTTTTAAAACACGAAAA
*
48701606 TTTTTGAAA-ACGAAAA
1 TTTTTAAAACACGAAAA
* *
48701622 TTTTTGAAACACAAAAA
1 TTTTTAAAACACGAAAA
48701639 TTTTTA
1 TTTTTA
48701645 GAAGACACTA
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
16 15 0.15
17 58 0.57
18 29 0.28
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:48701540 original size:35 final size:35
Alignment explanation
Indices: 48701466--48701663 Score: 172
Period size: 35 Copynumber: 5.7 Consensus size: 35
48701456 ACATAATATT
* * **
48701466 TTTTTTAAAAC-C-AAAATTTATGAAACACGAGATTT
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-AGA-AA
** *
48701501 TTTTTGAAAACACGAAAATTTTCAAAACACCGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
* ** *
48701536 TTTTTGAAAACAAGAGGATTTTTGAAATA-AGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAG-AAA
* *
48701571 ATTTTGAAAACACGAAAATTTTTGAAACACGGAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
*
48701606 TTTTTG-AAA-ACGAAAATTTTTGAAACACAAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
* * *
48701639 TTTTTAGAAGACACTAAAAATTTTG
1 TTTTT-GAAAACACGAAAATTTTTG
48701664 GAAAATGGAT
Statistics
Matches: 130, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
33 27 0.21
34 5 0.04
35 70 0.54
36 15 0.12
37 13 0.10
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACAGAAA
Found at i:48701540 original size:70 final size:69
Alignment explanation
Indices: 48701466--48701662 Score: 193
Period size: 70 Copynumber: 2.8 Consensus size: 69
48701456 ACATAATATT
* * ****
48701466 TTTTTTAAAACCAAAATTTATGAAACACGAGATTTTTTTTGAAAACACGAAAATTTTCAAAACAC
1 TTTTTGAAAACCAAAATTTTTGAAACAC-AGAAAAATTTTGAAAACACGAAAATTTTCAAAACAC
48701531 CGAAA
65 CGAAA
* **
48701536 TTTTTGAAAA-CAAGAGGATTTTTGAAATA-AGAAAAATTTTGAAAACACGAAAATTTTTGAAAC
1 TTTTTGAAAACCAA-A--ATTTTTGAAACACAGAAAAATTTTGAAAACACGAAAATTTTCAAAAC
*
48701599 ACGGAAA
63 ACCGAAA
* * * *
48701606 TTTTTGAAAACGAAAATTTTTGAAACACA-AAAATTTTTAGAAGACACTAAAAATTTT
1 TTTTTGAAAACCAAAATTTTTGAAACACAGAAAAATTTT-GAAAACAC-GAAAATTTT
48701663 GGAAAATGGA
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
68 19 0.18
69 11 0.10
70 63 0.60
71 2 0.02
72 10 0.10
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (69 bp):
TTTTTGAAAACCAAAATTTTTGAAACACAGAAAAATTTTGAAAACACGAAAATTTTCAAAACACC
GAAA
Found at i:48701877 original size:20 final size:19
Alignment explanation
Indices: 48701839--48701885 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
48701829 CGAATATATT
48701839 TTTTTGAAACACGAGAAAAA
1 TTTTTGAAACACG-GAAAAA
*
48701859 TTTTTGAAGGCAC-GAAAAA
1 TTTTTGAA-ACACGGAAAAA
48701878 -TTTTGAAA
1 TTTTTGAAA
48701886 AATAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 7 0.29
19 6 0.25
20 8 0.33
21 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (19 bp):
TTTTTGAAACACGGAAAAA
Found at i:48702260 original size:8 final size:8
Alignment explanation
Indices: 48702247--48702343 Score: 92
Period size: 8 Copynumber: 12.0 Consensus size: 8
48702237 TGAAACTCTT
48702247 TTTTTTTC
1 TTTTTTTC
48702255 TTTTTTTC
1 TTTTTTTC
48702263 TTCTTTTTTCC
1 -T-TTTTTT-C
*
48702274 TTTTTTCC
1 TTTTTTTC
48702282 TTTTTTT-
1 TTTTTTTC
*
48702289 TCTCTTTTC
1 T-TTTTTTC
48702298 TTTTTTTC
1 TTTTTTTC
*
48702306 -TTCTTTC
1 TTTTTTTC
48702313 TTTTTTTC
1 TTTTTTTC
48702321 -TTTTTTC
1 TTTTTTTC
* *
48702328 TTTCTCTC
1 TTTTTTTC
48702336 TTTTTTTC
1 TTTTTTTC
48702344 CTGGCTTGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 14 0.19
8 43 0.60
9 7 0.10
10 7 0.10
11 1 0.01
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:48702301 original size:15 final size:15
Alignment explanation
Indices: 48702243--48702341 Score: 103
Period size: 15 Copynumber: 6.5 Consensus size: 15
48702233 GAATTGAAAC
48702243 TCTTTTTT-TTTCTTT
1 TCTTTTTTCTTT-TTT
*
48702258 T-TTTCTTCTTTTTT
1 TCTTTTTTCTTTTTT
*
48702272 CCTTTTTTCCTTTTTTT
1 TCTTTTTT-C-TTTTTT
*
48702289 TCTCTTTTCTTTTTT
1 TCTTTTTTCTTTTTT
*
48702304 TCTTCTTTCTTTTTT
1 TCTTTTTTCTTTTTT
* *
48702319 TCTTTTTTCTTTCTC
1 TCTTTTTTCTTTTTT
48702334 TCTTTTTT
1 TCTTTTTT
48702342 TCCTGGCTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
14 8 0.11
15 48 0.69
16 2 0.03
17 12 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (15 bp):
TCTTTTTTCTTTTTT
Found at i:48702336 original size:43 final size:41
Alignment explanation
Indices: 48702250--48702343 Score: 115
Period size: 43 Copynumber: 2.3 Consensus size: 41
48702240 AACTCTTTTT
48702250 TTTTCTTTTTTTCTTCTTTTTTCCTTTTTTCCTTTTTTTTCTC
1 TTTTCTTTTTTTCTTCTTTTTT-CTTTTTT-CTTTTTTTTCTC
*
48702293 TTTTCTTTTTTTCTTC-TTTCT-TTTTTTCTTTTTTCTT-TC
1 TTTTCTTTTTTTCTTCTTTTTTCTTTTTTCTTTTTT-TTCTC
*
48702332 -TCTCTTTTTTTC
1 TTTTCTTTTTTTC
48702344 CTGGCTTGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
38 11 0.23
39 9 0.19
40 8 0.17
42 4 0.08
43 16 0.33
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (41 bp):
TTTTCTTTTTTTCTTCTTTTTTCTTTTTTCTTTTTTTTCTC
Found at i:48702514 original size:32 final size:31
Alignment explanation
Indices: 48702473--48702546 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 31
48702463 TTGGGGGGCC
*
48702473 TTTTCTTTTTGGGCTGCTTT-TTTTTGCTTTGGG
1 TTTT-TTTTTGGGCTGATTTGTTTTT--TTTGGG
*
48702506 TTTTTTTTTGGGCTGATTTGTTTTTTTTGTG
1 TTTTTTTTTGGGCTGATTTGTTTTTTTTGGG
48702537 TTGTTTTTTT
1 TT-TTTTTTT
48702547 TAATTAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
31 7 0.19
32 21 0.57
33 9 0.24
ACGTcount: A:0.01, C:0.07, G:0.22, T:0.70
Consensus pattern (31 bp):
TTTTTTTTTGGGCTGATTTGTTTTTTTTGGG
Found at i:48702669 original size:3 final size:3
Alignment explanation
Indices: 48702663--48702694 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
48702653 TTTTTTTTCT
48702663 TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
48702695 CCTCCTACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:48702674 original size:19 final size:19
Alignment explanation
Indices: 48702650--48702692 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
48702640 TAAATTTTTT
*
48702650 TTCTTT-TTTTTCTTTCTTC
1 TTCTTTCTTCTTC-TTCTTC
48702669 TTCTTTCTTCTTCTTCTTC
1 TTCTTTCTTCTTCTTCTTC
48702688 TTCTT
1 TTCTT
48702693 CTCCTCCTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCTTCTTCTTCTTC
Found at i:48702795 original size:10 final size:10
Alignment explanation
Indices: 48702760--48702809 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
48702750 ACGCTGGTAC
48702760 TCTT-TCTTT
1 TCTTCTCTTT
* *
48702769 TCTTCTCCTC
1 TCTTCTCTTT
48702779 T-TTCTCTTT
1 TCTTCTCTTT
48702788 TCTTCTCTTT
1 TCTTCTCTTT
*
48702798 TCTTCTTTTT
1 TCTTCTCTTT
48702808 TC
1 TC
48702810 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:48702807 original size:19 final size:19
Alignment explanation
Indices: 48702764--48702806 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
48702754 TGGTACTCTT
48702764 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
48702783 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
48702800 TTCTTTT
1 -TCTTTT
48702807 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:48703112 original size:30 final size:29
Alignment explanation
Indices: 48703057--48703173 Score: 119
Period size: 30 Copynumber: 3.9 Consensus size: 29
48703047 TGTAATTTTT
* * *
48703057 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAGTTTAGGGTCAAAATGAAATTTAA
* * *
48703086 TGAAAGTTTAGGAGTCTAAGTGAAATTTAA
1 AGAAAGTTTAGG-GTCAAAATGAAATTTAA
48703116 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAGTTT-AGGGTCAAAATGAAATTTAA
* *
48703145 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AG-AAAGTTTA-GGGTCAAAATGAAATTT
48703174 TTATTTTTAA
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 13 0.18
30 57 0.78
31 3 0.04
ACGTcount: A:0.45, C:0.03, G:0.21, T:0.30
Consensus pattern (29 bp):
AGAAAGTTTAGGGTCAAAATGAAATTTAA
Found at i:48703195 original size:13 final size:14
Alignment explanation
Indices: 48703172--48703202 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
48703162 AAAATGCAAT
48703172 TTTTATTTTTAAAA
1 TTTTATTTTTAAAA
48703186 TTTT-TTTTTAAAA
1 TTTTATTTTTAAAA
48703199 TTTT
1 TTTT
48703203 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTTTAAAA
Found at i:48703441 original size:54 final size:53
Alignment explanation
Indices: 48703315--48703562 Score: 329
Period size: 54 Copynumber: 4.6 Consensus size: 53
48703305 GGTATAACAG
* * * * *
48703315 TCATTTTACCCTTTGAGGGTAATTCGGTCATTTTTCCCTT-GGGGGTATTTCGA
1 TCATTTTACCCTTCG-GGGTATTTCGGTCATTTTACCCTTCAGGGGTAATTCGA
* * *
48703368 TCATTTTACCCTTCGGGGGTAATTCGATCATTTTACCCTTCAGGGGTAATTCGG
1 TCATTTTACCCTTC-GGGGTATTTCGGTCATTTTACCCTTCAGGGGTAATTCGA
* * *
48703422 TCATTTTATCCTTCAGGGGTATTTCAGTCATTTTACCCTTCAGGGGTAATTCAA
1 TCATTTTACCCTTC-GGGGTATTTCGGTCATTTTACCCTTCAGGGGTAATTCGA
48703476 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC-GAGGGTAATTCGA
1 TCATTTTACCCTTCG-GGGTATTTCGGTCATTTTACCCTTCAG-GGGTAATTCGA
48703530 TCATTTTACCCTTCGGGAGTATTTCGGTCATTT
1 TCATTTTACCCTTCGGG-GTATTTCGGTCATTT
48703563 GAGGCCTGAT
Statistics
Matches: 174, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
53 39 0.22
54 135 0.78
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (53 bp):
TCATTTTACCCTTCGGGGTATTTCGGTCATTTTACCCTTCAGGGGTAATTCGA
Found at i:48703470 original size:81 final size:79
Alignment explanation
Indices: 48703315--48703562 Score: 331
Period size: 81 Copynumber: 3.1 Consensus size: 79
48703305 GGTATAACAG
* *
48703315 TCATTTTACCCTTTGAGGGTAATTCGGTCATTTT-TCCCTTGGGGGTATTTCGATCATTTTACCC
1 TCATTTTACCCTTCGAGGGTAATTCGGTCATTTTAT-CCTTCGGGGTATTTCGATCATTTTACCC
48703379 TTCGGGGGTAATTCGA
65 TTC-GGGGTAATTCGA
48703395 TCATTTTACCCTTC-AGGGGTAATTCGGTCATTTTATCCTTCAGGGGTATTTC-AGTCATTTTAC
1 TCATTTTACCCTTCGA-GGGTAATTCGGTCATTTTATCCTTC-GGGGTATTTCGA-TCATTTTAC
*
48703458 CCTTCAGGGGTAATTCAA
63 CCTTC-GGGGTAATTCGA
* * *
48703476 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCGAGGGTAATTCGATCATTTTACCC
1 TCATTTTACCCTTCGAGGGTAATTCGGTCATTTTATCCTTCG-GGGTATTTCGATCATTTTACCC
* *
48703541 TTCGGGAGTATTTCGG
65 TTCGGG-GTAATTCGA
48703557 TCATTT
1 TCATTT
48703563 GAGGCCTGAT
Statistics
Matches: 150, Mismatches: 10, Indels: 15
0.86 0.06 0.09
Matches are distributed among these distances:
79 1 0.01
80 40 0.27
81 107 0.71
82 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (79 bp):
TCATTTTACCCTTCGAGGGTAATTCGGTCATTTTATCCTTCGGGGTATTTCGATCATTTTACCCT
TCGGGGTAATTCGA
Found at i:48703543 original size:27 final size:27
Alignment explanation
Indices: 48703315--48703562 Score: 283
Period size: 27 Copynumber: 9.2 Consensus size: 27
48703305 GGTATAACAG
* *
48703315 TCATTTTACCCTTTGAGGGTAATTCGG
1 TCATTTTACCCTTCGAGGGTAATTCGA
* * *
48703342 TCATTTTTCCCTT-GGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTAATTCGA
*
48703368 TCATTTTACCCTTCGGGGGTAATTCGA
1 TCATTTTACCCTTCGAGGGTAATTCGA
*
48703395 TCATTTTACCCTTC-AGGGGTAATTCGG
1 TCATTTTACCCTTCGA-GGGTAATTCGA
* *
48703422 TCATTTTATCCTTC-AGGGGTATTTC-A
1 TCATTTTACCCTTCGA-GGGTAATTCGA
*
48703448 GTCATTTTACCCTTC-AGGGGTAATTCAA
1 -TCATTTTACCCTTCGA-GGGTAATTCGA
* *
48703476 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTAATTCGA
48703503 TCATTTTACCCTTCGAGGGTAATTCGA
1 TCATTTTACCCTTCGAGGGTAATTCGA
* *
48703530 TCATTTTACCCTTCG-GGAGTATTTCGG
1 TCATTTTACCCTTCGAGG-GTAATTCGA
48703557 TCATTT
1 TCATTT
48703563 GAGGCCTGAT
Statistics
Matches: 195, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 24 0.12
27 169 0.87
28 2 0.01
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTAATTCGA
Found at i:48703714 original size:17 final size:17
Alignment explanation
Indices: 48703684--48703716 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48703674 TCGGTGTCGT
48703684 CTTTTCCGACTTTTCAA
1 CTTTTCCGACTTTTCAA
48703701 CTTTTACCGA-TTTTCA
1 CTTTT-CCGACTTTTCA
48703717 GTTGAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.48
Consensus pattern (17 bp):
CTTTTCCGACTTTTCAA
Found at i:48716013 original size:26 final size:25
Alignment explanation
Indices: 48715979--48716044 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
48715969 TTTTAAGTGT
* *
48715979 TTTCAGTATAGT-CTATCTATAGTAA
1 TTTCAGTATA-TACTACCTATAGCAA
48716004 TTCTCAGTATATACTACCTATAGCAA
1 TT-TCAGTATATACTACCTATAGCAA
*
48716030 TTTCAGGATATACTA
1 TTTCAGTATATACTA
48716045 TTAAGGACAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 15 0.42
26 21 0.58
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (25 bp):
TTTCAGTATATACTACCTATAGCAA
Found at i:48716041 original size:25 final size:26
Alignment explanation
Indices: 48715995--48716044 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
48715985 TATAGTCTAT
* *
48715995 CTATAGTAATTCTCAGTATATACTAC
1 CTATAGCAATTCTCAGGATATACTAC
48716021 CTATAGCAATT-TCAGGATATACTA
1 CTATAGCAATTCTCAGGATATACTA
48716045 TTAAGGACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (26 bp):
CTATAGCAATTCTCAGGATATACTAC
Found at i:48720813 original size:7 final size:6
Alignment explanation
Indices: 48720791--48720835 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
48720781 ATTGATTAAA
* * *
48720791 AAAAAG AAAATG AAAACG AAAAAG AAAAAG AAAAA- AGAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
48720836 GGAACTAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:48725273 original size:44 final size:44
Alignment explanation
Indices: 48725223--48725313 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
48725213 GTCATTGTAA
*
48725223 ATTAAATTATAAATATTTTTAAATGTAAAATTATCACAACTTCT
1 ATTAAATTATAAATATTTTTAAATGTAAAATTATCACAAATTCT
* * *
48725267 ATTAAATTATAATTATTTTTAAATGTATAATTATCATAAATTCT
1 ATTAAATTATAAATATTTTTAAATGTAAAATTATCACAAATTCT
48725311 ATT
1 ATT
48725314 TTTTATTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (44 bp):
ATTAAATTATAAATATTTTTAAATGTAAAATTATCACAAATTCT
Found at i:48726859 original size:89 final size:89
Alignment explanation
Indices: 48726731--48727000 Score: 504
Period size: 89 Copynumber: 3.0 Consensus size: 89
48726721 CGTGTTAGAG
*
48726731 TGTCGTAACAAACTCTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAG
1 TGTCGTAATAAA--CTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAG
48726796 TATTTAGTAATATTTGTCAAAAATGA
64 TATTTAGTAATATTTGTCAAAAATGA
48726822 TGTCGTAATAAACTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAGTA
1 TGTCGTAATAAACTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAGTA
48726887 TTTAGTAATATTTGTCAAAAATGA
66 TTTAGTAATATTTGTCAAAAATGA
*
48726911 TGTCGTAATAAACTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCATAATATCAAATGAGTA
1 TGTCGTAATAAACTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAGTA
48726976 TTTAGTAATATTTGTCAAAAATGA
66 TTTAGTAATATTTGTCAAAAATGA
48727000 T
1 T
48727001 ATTTTGGTCA
Statistics
Matches: 177, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
89 166 0.94
91 11 0.06
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (89 bp):
TGTCGTAATAAACTCTCACTCAGCCATCAATTCAGTTGGTGAAACATCGTAATATCAAATGAGTA
TTTAGTAATATTTGTCAAAAATGA
Found at i:48727090 original size:14 final size:14
Alignment explanation
Indices: 48727073--48727111 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48727063 TATAATTTGG
48727073 ATTTTGATTTTGAA
1 ATTTTGATTTTGAA
* *
48727087 ATTTTGGTTTTGAC
1 ATTTTGATTTTGAA
48727101 ATTTTGGATTT
1 ATTTT-GATTT
48727112 GGCCGGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (14 bp):
ATTTTGATTTTGAA
Found at i:48727894 original size:25 final size:25
Alignment explanation
Indices: 48727866--48727924 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
48727856 AAACTTACCA
*
48727866 CTAAGCTTTAAACAACGAAGATCTC
1 CTAAACTTTAAACAACGAAGATCTC
*
48727891 CTAAACTTTAAACAATGAAGATCTC
1 CTAAACTTTAAACAACGAAGATCTC
48727916 CTGAAACTT
1 CT-AAACTT
48727925 ACTTTTTCCC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (25 bp):
CTAAACTTTAAACAACGAAGATCTC
Found at i:48731690 original size:43 final size:43
Alignment explanation
Indices: 48731638--48731869 Score: 292
Period size: 43 Copynumber: 5.4 Consensus size: 43
48731628 AAAAACATCA
*
48731638 CTAAAGATCATGACCTTTAGCGGCGCTTCTACCACAAACGCCG
1 CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
* * *
48731681 CTAAAGATCATGACCTTTAGCGGAGCTTCTACCAAAAACGCCG
1 CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
* *
48731724 CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACACCA
1 CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
* * * *
48731767 CTAAAAATCATGACTTTTAGCGACGCTTCTACCACAAACACCA
1 CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
* **
48731810 CTATAAAGA--ATGACTTTTAGTGGCGCTT-TTTCACAAACGCCG
1 C--TAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
*
48731852 CTAAA-AACATGACTTTTA
1 CTAAAGATCATGACTTTTA
48731870 AAAAATATTT
Statistics
Matches: 169, Mismatches: 16, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 4 0.02
41 10 0.06
42 11 0.07
43 138 0.82
45 5 0.03
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
CTAAAGATCATGACTTTTAGCGGCGCTTCTACCACAAACGCCG
Found at i:48737279 original size:10 final size:10
Alignment explanation
Indices: 48737264--48737293 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
48737254 ATTTGGACCT
48737264 TTATTTATTA
1 TTATTTATTA
48737274 TTATTTATTA
1 TTATTTATTA
48737284 TTATTT-TTA
1 TTATTTATTA
48737293 T
1 T
48737294 CTGTTTTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTATTTATTA
Found at i:48737972 original size:40 final size:40
Alignment explanation
Indices: 48737909--48737993 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
48737899 TAGCTTGAAT
*
48737909 ATCAACACTTCAATATTTAATATGTAAAG-AATTATCAAAA
1 ATCAACACTTCAATATTTAATATG-AAAGAAATTAACAAAA
* *
48737949 ATCAACATTTCAATAATTT-ATATGCAAGAAATTAACAAAA
1 ATCAACACTTCAAT-ATTTAATATGAAAGAAATTAACAAAA
48737989 ATCAA
1 ATCAA
48737994 TCTTACAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
39 3 0.08
40 33 0.82
41 4 0.10
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.31
Consensus pattern (40 bp):
ATCAACACTTCAATATTTAATATGAAAGAAATTAACAAAA
Found at i:48738009 original size:40 final size:40
Alignment explanation
Indices: 48737909--48738034 Score: 98
Period size: 40 Copynumber: 3.1 Consensus size: 40
48737899 TAGCTTGAAT
* *
48737909 ATCAACACTT-CAAT-ATTTAATATGTAAA-GAATTATCAAAA
1 ATCAACA-TTACAATAATTT-ATATG-AAACAAATTAACAAAA
* * *
48737949 ATCAACATTTCAATAATTTATATGCAAGAAATTAACAAAA
1 ATCAACATTACAATAATTTATATGAAACAAATTAACAAAA
** * * *
48737989 ATCAATC-TTACAATTGTTTATGTGAAACAAATTAGCACAA
1 ATCAA-CATTACAATAATTTATATGAAACAAATTAACAAAA
48738029 ATCAAC
1 ATCAAC
48738035 TATTCATAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
39 5 0.07
40 61 0.86
41 5 0.07
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.31
Consensus pattern (40 bp):
ATCAACATTACAATAATTTATATGAAACAAATTAACAAAA
Found at i:48738143 original size:86 final size:86
Alignment explanation
Indices: 48738068--48738229 Score: 236
Period size: 86 Copynumber: 1.9 Consensus size: 86
48738058 GGCAATAGGG
* * *
48738068 CTAAATCTTCAAT-TTCTATAACGATTTATATGCAATAAATTAGCAAAAATCAATGGTTCAAGTT
1 CTAAATCTTCAATATT-TATAACAACTTATATGCAAAAAATTAGCAAAAATCAATGGTTCAAGTT
48738132 CATATATTTACCAAAAATCAAA
65 CATATATTTACCAAAAATCAAA
* * *
48738154 CTAATTTTTCAATATTTATAACAACTTATATGCAAAAAATTAGCAAAAATAAATGGTTCAAGTTC
1 CTAAATCTTCAATATTTATAACAACTTATATGCAAAAAATTAGCAAAAATCAATGGTTCAAGTTC
**
48738219 ATGCATTTACC
66 ATATATTTACC
48738230 CGGTGTAAGT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
86 65 0.97
87 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (86 bp):
CTAAATCTTCAATATTTATAACAACTTATATGCAAAAAATTAGCAAAAATCAATGGTTCAAGTTC
ATATATTTACCAAAAATCAAA
Found at i:48738788 original size:72 final size:72
Alignment explanation
Indices: 48738658--48738879 Score: 374
Period size: 72 Copynumber: 3.0 Consensus size: 72
48738648 GGAGATGCAG
*
48738658 AGGGCTGCCGGTTTGGGGAAATTGGGGGGGAAAATAAAGGGAATCGGGGTAGGGGAGAAATGGTT
1 AGGGCTGCCGATTTGGGGAAATT---GGGG---ATAAAGGGAATCGGGGTAGGGGAGAAATGGTT
48738723 TGGGAAAAATAAA
60 TGGGAAAAATAAA
48738736 AGGGCTGCCGATTTGGGGAAATTGGGGATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAA
1 AGGGCTGCCGATTTGGGGAAATTGGGGATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAA
48738801 AAATAAA
66 AAATAAA
48738808 AGGGCTGCCGATTTGGGGAAATTGGGGATAAAGGGAATCGGGGTAGGGGAGAAATGG-TTGGGAA
1 AGGGCTGCCGATTTGGGGAAATTGGGGATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAA
48738872 AAATAAA
66 AAATAAA
48738879 A
1 A
48738880 TGGGGAAAAA
Statistics
Matches: 143, Mismatches: 1, Indels: 7
0.95 0.01 0.05
Matches are distributed among these distances:
71 15 0.10
72 102 0.71
75 4 0.03
78 22 0.15
ACGTcount: A:0.34, C:0.05, G:0.42, T:0.18
Consensus pattern (72 bp):
AGGGCTGCCGATTTGGGGAAATTGGGGATAAAGGGAATCGGGGTAGGGGAGAAATGGTTTGGGAA
AAATAAA
Found at i:48739663 original size:14 final size:14
Alignment explanation
Indices: 48739640--48739693 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
48739630 CTCAAACACC
48739640 AACCATTAAACCATA
1 AACCA-TAAACCATA
48739655 AACCATAAACCATA
1 AACCATAAACCATA
* *
48739669 ATCCCTAAACCTATA
1 AACCATAAACC-ATA
*
48739684 ATCCATAAAC
1 AACCATAAAC
48739694 TTTAAAATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
14 18 0.51
15 17 0.49
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (14 bp):
AACCATAAACCATA
Found at i:48739686 original size:15 final size:14
Alignment explanation
Indices: 48739646--48739693 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
48739636 CACCAACCAT
*
48739646 TAAACCATAAACCA
1 TAAACCATAATCCA
*
48739660 TAAACCATAATCCC
1 TAAACCATAATCCA
48739674 TAAACCTATAATCCA
1 TAAACC-ATAATCCA
48739689 TAAAC
1 TAAAC
48739694 TTTAAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAATCCA
Found at i:48740126 original size:41 final size:41
Alignment explanation
Indices: 48739972--48740124 Score: 202
Period size: 41 Copynumber: 3.7 Consensus size: 41
48739962 AATGTTTTTT
*
48739972 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCTGCTAAAGCACCGAGCATTA
* *
48740013 GCGGCACTTTTTCAAAAACGAC-GTTAAAGCACCGAGCATTA
1 GCGGCGCTTTTTCAAAAACG-CTGCTAAAGCACCGAGCATTA
* ** *
48740054 GCGGCGATTTTTCAAAAA-TATCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCT-GCTAAAGCACCGAGCATTA
*
48740095 GCGGTGCTTTTTCAAAAACGCTGCTAAAGC
1 GCGGCGCTTTTTCAAAAACGCTGCTAAAGC
48740125 CCAGAAAGGT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 94 0.98
42 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCTGCTAAAGCACCGAGCATTA
Found at i:48746877 original size:28 final size:28
Alignment explanation
Indices: 48746846--48746913 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
48746836 CCCCTACATA
*
48746846 CGAACCCCCATAGGCGAACCCT-TGCATG
1 CGAACCCCCATACGCG-ACCCTATGCATG
* * *
48746874 CGAACCCCCGTACGCGAGCCTATGTATG
1 CGAACCCCCATACGCGACCCTATGCATG
*
48746902 CAAACCCCCATA
1 CGAACCCCCATA
48746914 TATGCGAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 4 0.12
28 29 0.88
ACGTcount: A:0.26, C:0.40, G:0.19, T:0.15
Consensus pattern (28 bp):
CGAACCCCCATACGCGACCCTATGCATG
Found at i:48747088 original size:21 final size:20
Alignment explanation
Indices: 48747057--48747120 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
48747047 CCAAACATGT
48747057 TTATGATGCGAACCCTATATG
1 TTAT-ATGCGAACCCTATATG
*
48747078 TGTATATGCGAACCCTACATG
1 T-TATATGCGAACCCTATATG
*
48747099 ATTATTTATGTGAACCCTATAT
1 -TTA--TATGCGAACCCTATAT
48747121 ATTTGTGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
21 18 0.50
22 4 0.11
23 14 0.39
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (20 bp):
TTATATGCGAACCCTATATG
Found at i:48747098 original size:43 final size:44
Alignment explanation
Indices: 48747037--48747120 Score: 107
Period size: 43 Copynumber: 1.9 Consensus size: 44
48747027 TATGTGCTTA
*
48747037 TATATGCAAACCAAACATGTTTA-TGATGCGAACCCTATATGTG
1 TATATGCAAACCAAACATGATTATTGATGCGAACCCTATATGTG
* ** * *
48747080 TATATGCGAACCCTACATGATTATTTATGTGAACCCTATAT
1 TATATGCAAACCAAACATGATTATTGATGCGAACCCTATAT
48747121 ATTTGTGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
43 19 0.56
44 15 0.44
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (44 bp):
TATATGCAAACCAAACATGATTATTGATGCGAACCCTATATGTG
Found at i:48748215 original size:23 final size:23
Alignment explanation
Indices: 48748187--48748280 Score: 143
Period size: 23 Copynumber: 4.1 Consensus size: 23
48748177 ATGTGTGTAT
*
48748187 CTTTTCATATTCAAGTCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
48748210 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * *
48748233 CTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48748256 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48748279 CT
1 CT
48748281 CTTCTAACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 62 1.00
ACGTcount: A:0.22, C:0.24, G:0.04, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:48752719 original size:23 final size:23
Alignment explanation
Indices: 48752691--48752784 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
48752681 ATGGGTGTAT
*
48752691 CTTTTCATATTCAAGTCTCTTAA
1 CTTTTCATATTCAAGTCTCTTCA
*
48752714 CTTTTCATCTTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
* * * *
48752737 GTATTCATATTCAAGTTTTTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48752760 CTTTTCATATTCAAGTCTCTTCA
1 CTTTTCATATTCAAGTCTCTTCA
48752783 CT
1 CT
48752785 CTTCTAACTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.22, C:0.23, G:0.05, T:0.49
Consensus pattern (23 bp):
CTTTTCATATTCAAGTCTCTTCA
Found at i:48753297 original size:34 final size:34
Alignment explanation
Indices: 48753254--48753324 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
48753244 TTTCCCAAGG
48753254 TTTTGGTGCTACGATTGCTGTCAATGCTAACATT
1 TTTTGGTGCTACGATTGCTGTCAATGCTAACATT
*
48753288 TTTTGGTGCTGCGATTGCTGTCAATGCTAACATT
1 TTTTGGTGCTACGATTGCTGTCAATGCTAACATT
48753322 TTT
1 TTT
48753325 GTGCATTGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (34 bp):
TTTTGGTGCTACGATTGCTGTCAATGCTAACATT
Found at i:48753728 original size:11 final size:11
Alignment explanation
Indices: 48753712--48753746 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
48753702 GGCAATGGTT
48753712 ACAATGTTTAA
1 ACAATGTTTAA
48753723 ACAATGTTTAA
1 ACAATGTTTAA
*
48753734 GCAATGCTTTAA
1 ACAATG-TTTAA
48753746 A
1 A
48753747 ATCATTGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (11 bp):
ACAATGTTTAA
Found at i:48757560 original size:9 final size:9
Alignment explanation
Indices: 48757548--48757572 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
48757538 GATGATGTAT
48757548 TTATTATTG
1 TTATTATTG
48757557 TTATTATTG
1 TTATTATTG
48757566 TTATTAT
1 TTATTAT
48757573 AGCATCTGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (9 bp):
TTATTATTG
Found at i:48757969 original size:98 final size:97
Alignment explanation
Indices: 48757848--48758043 Score: 347
Period size: 98 Copynumber: 2.0 Consensus size: 97
48757838 TTAAAAATAA
* * *
48757848 TAAAGGAAATATTTCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
48757913 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTC-TTTAAAG
*
48757946 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
48758011 TTAAATCTTGGATAAGTGGATGTTCTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTAAAG
48758043 T
1 T
48758044 TTTATTGTAC
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
97 8 0.09
98 86 0.91
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.37
Consensus pattern (97 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTAAAG
Found at i:48758747 original size:17 final size:17
Alignment explanation
Indices: 48758725--48758757 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48758715 GCCCAATAAT
48758725 AATAAATAAGACCAAAA
1 AATAAATAAGACCAAAA
*
48758742 AATAAATAAGTCCAAA
1 AATAAATAAGACCAAA
48758758 TATCAAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (17 bp):
AATAAATAAGACCAAAA
Found at i:48763760 original size:19 final size:19
Alignment explanation
Indices: 48763731--48763776 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48763721 TTTTGCATTC
* *
48763731 ATTTCATTCATCTACATTAT
1 ATTTCA-TCATATACATTAA
*
48763751 ATTTCATCATATGCATTAA
1 ATTTCATCATATACATTAA
48763770 ATTTCAT
1 ATTTCAT
48763777 AAAAAGACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTTCATCATATACATTAA
Found at i:48771947 original size:44 final size:43
Alignment explanation
Indices: 48771881--48772004 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 43
48771871 ACAAATTACA
* * *
48771881 AATCTTATCTCCCTAAAATTGCAGTGGAGTAGATTGAAGTGATAG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAA--GATAG
* * *
48771926 -GTCTTATCTCTCTGAAGTTGCAGTGGAGTAGGTCGAAGATAG
1 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAG
* *
48771968 CAAATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATT
1 --AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATT
48772005 AAAGCTGTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
42 5 0.08
44 31 0.48
45 29 0.45
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (43 bp):
AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGATAG
Found at i:48772088 original size:95 final size:95
Alignment explanation
Indices: 48771969--48772151 Score: 235
Period size: 95 Copynumber: 1.9 Consensus size: 95
48771959 CGAAGATAGC
* * * * *
48771969 AAATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATTAAAGCTGTAAACCTTGTTTCCCTGAAGTT
1 AAATCTTATCTCTCTGAGGTTGCAGTAGAGCAAATTAAAGATGCAAACCTTATTTCCCTGAAGTT
48772034 GCAGTGAAATAGA-TACAAGCTACGAGTTAT
66 GCAGTGAAATAGATTA-AAGCTACGAGTTAT
* * * * *
48772064 AAATCTTATCT-TCCTGAGGTTGCAGTGGAGCAAATTGAGGATGCAAATCTTATTTCCTTGAAGT
1 AAATCTTATCTCT-CTGAGGTTGCAGTAGAGCAAATTAAAGATGCAAACCTTATTTCCCTGAAGT
*
48772128 TGCAGTGGAATAGATTAAAGCTAC
65 TGCAGTGAAATAGATTAAAGCTAC
48772152 AAGTCAAATC
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
94 1 0.01
95 72 0.96
96 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (95 bp):
AAATCTTATCTCTCTGAGGTTGCAGTAGAGCAAATTAAAGATGCAAACCTTATTTCCCTGAAGTT
GCAGTGAAATAGATTAAAGCTACGAGTTAT
Found at i:48773272 original size:27 final size:27
Alignment explanation
Indices: 48773244--48773364 Score: 179
Period size: 27 Copynumber: 4.5 Consensus size: 27
48773234 CTTGCCTCCG
*
48773244 AAGGGTAAAATGATCGAAATACCCCCG
1 AAGGGTAAAATGATCGAAATACCCCCA
*
48773271 AAGGGTAAAATGATCGAACTACCCCCA
1 AAGGGTAAAATGATCGAAATACCCCCA
* * *
48773298 AAGGGAAAAATGACCGAAATACCCCTA
1 AAGGGTAAAATGATCGAAATACCCCCA
*
48773325 AAGGGTAAACTGATCGAAATACCCCCA
1 AAGGGTAAAATGATCGAAATACCCCCA
*
48773352 TAGGGTAAAATGA
1 AAGGGTAAAATGA
48773365 CTGTTATACC
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.43, C:0.21, G:0.21, T:0.15
Consensus pattern (27 bp):
AAGGGTAAAATGATCGAAATACCCCCA
Found at i:48773374 original size:54 final size:54
Alignment explanation
Indices: 48773244--48773378 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
48773234 CTTGCCTCCG
** *
48773244 AAGGGTAAAATGA-TCGAAATACCCCCGAAGGGTAAAATGATCGAACTACCCCCA
1 AAGGGTAAAATGACT-GAAATACCCCTAAAGGGTAAAATGATCGAAATACCCCCA
* * *
48773298 AAGGGAAAAATGACCGAAATACCCCTAAAGGGTAAACTGATCGAAATACCCCCA
1 AAGGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGATCGAAATACCCCCA
* **
48773352 TAGGGTAAAATGACTGTTATACCCCTA
1 AAGGGTAAAATGACTGAAATACCCCTA
48773379 GGAATCGAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (54 bp):
AAGGGTAAAATGACTGAAATACCCCTAAAGGGTAAAATGATCGAAATACCCCCA
Found at i:48773601 original size:26 final size:26
Alignment explanation
Indices: 48773552--48773602 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
48773542 TTTGCCGTAT
*
48773552 ATACTATTACTGGTAGCTTCGCTGCG
1 ATACTATTACTGGCAGCTTCGCTGCG
* * *
48773578 ATACTTTTACTGGCAGTTTTGCTGC
1 ATACTATTACTGGCAGCTTCGCTGC
48773603 AATATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.39
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTCGCTGCG
Found at i:48784383 original size:35 final size:35
Alignment explanation
Indices: 48784341--48784418 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 35
48784331 GAAACCCAAT
48784341 AACCTAAACCAAAACCC-AA-AGCCCA-ACAGGCCCA
1 AACCTAAACC-AAACCCTAACAGCCCACACA-GCCCA
* *
48784375 ACACCTAAACCTAACCCTAACAGCCCACTCAGCCCA
1 A-ACCTAAACCAAACCCTAACAGCCCACACAGCCCA
48784411 AACCTAAA
1 AACCTAAA
48784419 GCATCAAATC
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
34 6 0.16
35 18 0.47
36 12 0.32
37 2 0.05
ACGTcount: A:0.44, C:0.42, G:0.06, T:0.08
Consensus pattern (35 bp):
AACCTAAACCAAACCCTAACAGCCCACACAGCCCA
Found at i:48785716 original size:4 final size:4
Alignment explanation
Indices: 48785701--48785731 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
48785691 TTTTATAATC
*
48785701 TTAT TCAT TTAT TTAT TTAT TTAT TTAT TTA
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTA
48785732 CATTTTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TTAT
Found at i:48787772 original size:4 final size:4
Alignment explanation
Indices: 48787763--48787791 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
48787753 TAATGGACAT
48787763 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
48787792 CATCATGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:48791222 original size:3 final size:3
Alignment explanation
Indices: 48791214--48791250 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48791204 AAACCAACCT
48791214 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
48791251 TCAACCTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48794724 original size:63 final size:63
Alignment explanation
Indices: 48794586--48794769 Score: 183
Period size: 63 Copynumber: 2.9 Consensus size: 63
48794576 CGGCCTGGAC
* * * * * * ** ** *
48794586 ACACGCCCGTGTTCCTGGCCTGTGTGACCCTAAATCCAAAACAATAAGTTACACAACCTGGAC
1 ACACGCTCGTGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAGTGAGTTACACGGCCTAAAA
*
48794649 AGACG-TCTGTGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAGTGAGTTACACGGCCTAAAA
1 ACACGCTC-GTGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAGTGAGTTACACGGCCTAAAA
* * * * *
48794712 ACACGCTCGTGTCCCTA-CTTCATGTGACCTTAAATCCATAACAGTGAGTTATACGGCC
1 ACACGCTCGTGTCCCTAGC-CCGTGTGACCCTAAATCCAAAACAGTGAGTTACACGGCC
48794770 ATATGGCTCA
Statistics
Matches: 100, Mismatches: 18, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
62 2 0.02
63 96 0.96
64 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (63 bp):
ACACGCTCGTGTCCCTAGCCCGTGTGACCCTAAATCCAAAACAGTGAGTTACACGGCCTAAAA
Found at i:48795337 original size:29 final size:28
Alignment explanation
Indices: 48795279--48795335 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
48795269 ATAAACAAAG
**
48795279 AGAAAAAGAAAAGAAAGGTGAAGAAGAA
1 AGAAAAAGAAAAGAAAAATGAAGAAGAA
48795307 AGAAAGAAGAAAAGAAAAAT-AAGAAGAA
1 AGAAA-AAGAAAAGAAAAATGAAGAAGAA
48795335 A
1 A
48795336 AGGGAAAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 14 0.54
29 12 0.46
ACGTcount: A:0.72, C:0.00, G:0.25, T:0.04
Consensus pattern (28 bp):
AGAAAAAGAAAAGAAAAATGAAGAAGAA
Found at i:48804149 original size:18 final size:18
Alignment explanation
Indices: 48804128--48804171 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
48804118 AATTTCATTA
*
48804128 AAAATATAAAAAGT-TCAT
1 AAAATATAAAAA-TAGCAT
*
48804146 AAAATTTAAAAATAGCAT
1 AAAATATAAAAATAGCAT
48804164 AAAATATA
1 AAAATATA
48804172 TTATGATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (18 bp):
AAAATATAAAAATAGCAT
Found at i:48804855 original size:26 final size:26
Alignment explanation
Indices: 48804802--48804857 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
48804792 TATTTTAAAA
* * *
48804802 TATTTTTAAAATACTTTTTATTTTTT
1 TATTTTTAAAATAATTTTTATGTGTT
48804828 TATTTTTAAAATAAATTTTTA-GTGTT
1 TATTTTTAAAAT-AATTTTTATGTGTT
48804854 TATT
1 TATT
48804858 AAAAAATGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (26 bp):
TATTTTTAAAATAATTTTTATGTGTT
Found at i:48805468 original size:15 final size:15
Alignment explanation
Indices: 48805445--48805474 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48805435 AAGACAAAAA
*
48805445 ATATTATTTTCTCTT
1 ATATAATTTTCTCTT
48805460 ATATAATTTTCTCTT
1 ATATAATTTTCTCTT
48805475 TTTTCTCTTT
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:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (15 bp):
ATATAATTTTCTCTT
Found at i:48805488 original size:17 final size:17
Alignment explanation
Indices: 48805466--48805501 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
48805456 TCTTATATAA
48805466 TTTTCTCTTTTTTCTCT
1 TTTTCTCTTTTTTCTCT
* *
48805483 TTTTCTTTTTTTTTTCT
1 TTTTCTCTTTTTTCTCT
48805500 TT
1 TT
48805502 CTTTAGAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TTTTCTCTTTTTTCTCT
Found at i:48806087 original size:5 final size:5
Alignment explanation
Indices: 48806077--48806101 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48806067 TTTGGATTTT
48806077 AATCC AATCC AATCC AATCC AATCC
1 AATCC AATCC AATCC AATCC AATCC
48806102 CAAACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (5 bp):
AATCC
Found at i:48809404 original size:108 final size:108
Alignment explanation
Indices: 48809215--48809645 Score: 722
Period size: 108 Copynumber: 4.0 Consensus size: 108
48809205 ATTAAAATTC
* * * * *
48809215 AAAAGGATATT-TGTCAATTTGGT-TAGACGAGAAATCGAAACCGAGCACCTTAGAGCACGTTCC
1 AAAAGGATATTAAGTC-ATTTGGTGGA-ACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCC
* *
48809278 TCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTTTG
64 TCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
* * *
48809323 AAAAGGATATTAAGCCATTTGGTCGAACGAGAAATCGAAACCCAATACCTTAGGGCACGTTCCTC
1 AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
48809388 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
48809431 AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
1 AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
48809496 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
48809539 AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
1 AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
*
48809604 GAATTTCCAAACGCAAAATATTACCTTATTTTGAAATATTTT
66 GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAA-ATTTT
48809646 CCTTTTTTAA
Statistics
Matches: 307, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
108 299 0.97
109 8 0.03
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (108 bp):
AAAAGGATATTAAGTCATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTC
GAATTTCCAAACGCAAAATATTGCCTTATTTTGAAAATTTTTT
Found at i:48810004 original size:16 final size:16
Alignment explanation
Indices: 48809975--48810009 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48809965 TAAATATGCG
48809975 TATATAAAAAAAATTA
1 TATATAAAAAAAATTA
* *
48809991 TATATTAAATAAATTA
1 TATATAAAAAAAATTA
48810007 TAT
1 TAT
48810010 GTCAAGTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATAAAAAAAATTA
Found at i:48811467 original size:11 final size:11
Alignment explanation
Indices: 48811451--48811485 Score: 70
Period size: 11 Copynumber: 3.2 Consensus size: 11
48811441 NNNNNNNNNN
48811451 TATACATAACT
1 TATACATAACT
48811462 TATACATAACT
1 TATACATAACT
48811473 TATACATAACT
1 TATACATAACT
48811484 TA
1 TA
48811486 CATAATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.37
Consensus pattern (11 bp):
TATACATAACT
Found at i:48811531 original size:9 final size:9
Alignment explanation
Indices: 48811508--48811653 Score: 190
Period size: 9 Copynumber: 16.4 Consensus size: 9
48811498 TAAATTGCTA
*
48811508 ACATAAATT
1 ACATAACTT
*
48811517 ATATAACTT
1 ACATAACTT
48811526 ACATAACTT
1 ACATAACTT
*
48811535 ACATAAATT
1 ACATAACTT
*
48811544 AAATAACTT
1 ACATAACTT
48811553 ACATAACTT
1 ACATAACTT
*
48811562 ACATAGCTT
1 ACATAACTT
*
48811571 AAATAACTT
1 ACATAACTT
48811580 ACATAACTT
1 ACATAACTT
*
48811589 ACATAAATT
1 ACATAACTT
48811598 ACATAACTT
1 ACATAACTT
48811607 ACATAACTT
1 ACATAACTT
48811616 ACATAACTT
1 ACATAACTT
48811625 ACATAA--T
1 ACATAACTT
48811632 ACATAACCTT
1 ACATAA-CTT
*
48811642 -CTTAACTT
1 ACATAACTT
48811650 ACAT
1 ACAT
48811654 TATTGTCTAA
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
7 7 0.06
8 3 0.03
9 107 0.91
10 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (9 bp):
ACATAACTT
Found at i:48816281 original size:42 final size:42
Alignment explanation
Indices: 48816226--48816553 Score: 367
Period size: 42 Copynumber: 7.7 Consensus size: 42
48816216 TTTGTGAAAC
* **
48816226 AAGCGCCGCTAAAGAACACTGCT-TTTAGCGGCGTTTTTGAAC-
1 AAGCGCCGCTAAAGAACA-TGATCTTTAGCGGCGTTTTT-TCCT
* ** *
48816268 AAGCGCCGCTAAAGAACATTA-CTTTTAAAGGCGTTTTATTCCA
1 AAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCCT
48816311 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCT
* * ** * *
48816354 AAGCGCCGTTAAAGAAGATGAGATTTTGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
*
48816396 AAGCGCCGCTAAAAAACAT-ATTCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCT
*
48816438 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
* * *
48816480 AAACGCCGCTACAGAACATGATCTTTAGCGGCGTTTATTTCTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCCT
* * **
48816523 TAGCGCCGCTAAAGAATATTTTCTTTAGCGG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGG
48816554 TATTTTTTTG
Statistics
Matches: 242, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
41 2 0.01
42 144 0.60
43 91 0.38
44 5 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
Found at i:48816528 original size:127 final size:127
Alignment explanation
Indices: 48816229--48816553 Score: 390
Period size: 127 Copynumber: 2.5 Consensus size: 127
48816219 GTGAAACAAG
** * *
48816229 CGCCGCTAAAGAACACTG-CTTTTAGCGGCGTTT-TTGAAC-AAGCGCCGCTAAAGAACATTACT
1 CGCCGCTAAAGAACA-TGAGATTTAGCGGCGTTTATT--TCTAAGCGCCGCTAAAGAACATTTC-
**
48816291 TTTAAAGGCGTTTTATTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAA
62 TTTAGCGGCGTTTTATTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAA
*
48816356 G
127 A
* * * * *
48816357 CGCCGTTAAAGAAGATGAGATTTTGCGGCGTTTTTTTCTAAGCGCCGCTAAAAAACATATTCTTT
1 CGCCGCTAAAGAACATGAGATTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACAT-TTCTTT
*
48816422 AGCGGCGTTTT-TTCCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAA
65 AGCGGCGTTTTATTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAA
* ** * *
48816483 CGCCGCTACAGAACATGATCTTTAGCGGCGTTTATTTCTTTAGCGCCGCTAAAGAATATTTTCTT
1 CGCCGCTAAAGAACATGAGATTTAGCGGCGTTTATTTC-TAAGCGCCGCTAAAGAACA-TTTCTT
48816548 TAGCGG
64 TAGCGG
48816554 TATTTTTTTG
Statistics
Matches: 169, Mismatches: 22, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
126 35 0.21
127 74 0.44
128 56 0.33
129 4 0.02
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (127 bp):
CGCCGCTAAAGAACATGAGATTTAGCGGCGTTTATTTCTAAGCGCCGCTAAAGAACATTTCTTTA
GCGGCGTTTTATTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAA
Found at i:48817981 original size:14 final size:15
Alignment explanation
Indices: 48817948--48817983 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
48817938 AAGTAACATC
48817948 TTTTA-TAAGATACA
1 TTTTACTAAGATACA
48817962 -TTTACTAA-ATACA
1 TTTTACTAAGATACA
48817975 TTTTACTAA
1 TTTTACTAA
48817984 TTGTATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.44
Consensus pattern (15 bp):
TTTTACTAAGATACA
Found at i:48819305 original size:40 final size:40
Alignment explanation
Indices: 48819233--48819308 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
48819223 TAAATTGATG
*
48819233 CCACGTCAGCAAATCGCGTCCTAGAGGGCGCGATTTGTGT
1 CCACGTCAGCAAATCGCGTCCTAGAGGACGCGATTTGTGT
* *
48819273 CCACGTCAGCAAATCGCG-CTTACGTGGACGCGATTT
1 CCACGTCAGCAAATCGCGTCCTA-GAGGACGCGATTT
48819309 CCTAGTGCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 3 0.09
40 29 0.91
ACGTcount: A:0.21, C:0.29, G:0.28, T:0.22
Consensus pattern (40 bp):
CCACGTCAGCAAATCGCGTCCTAGAGGACGCGATTTGTGT
Found at i:48821948 original size:43 final size:42
Alignment explanation
Indices: 48821796--48821980 Score: 162
Period size: 43 Copynumber: 4.3 Consensus size: 42
48821786 NNNNNNNNNA
* *
48821796 AAACGCCGC-AATAGACCCTGAT-TTATAGCGGCG-TTTATACCTC
1 AAACGCCGCTAA-AGACCCTGATCTT-TAGCGGCGCTTT-T-TCAC
* * * *
48821839 AACCGCCGC-AATAGACTCTGATCTATAGCGGCGCTTTCTCAC
1 AAACGCCGCTAA-AGACCCTGATCTTTAGCGGCGCTTTTTCAC
* * * *
48821881 AAACGCCGCCAAAAACCATGATCTTTAGTGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTT-CAC
* * *
48821924 AAACGCCGCTAAAGACCCTTATCTTTAGCGGTGCTTTTATCAA
1 AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTT-TCAC
48821967 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
48821981 GCCAACACCT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
42 31 0.26
43 81 0.69
44 5 0.04
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTTTTCAC
Found at i:48822357 original size:21 final size:21
Alignment explanation
Indices: 48822328--48822440 Score: 109
Period size: 21 Copynumber: 5.4 Consensus size: 21
48822318 TTTGACGCTG
48822328 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTTGCTGCAGC
* **
48822349 CTCTACTTCCCTTGCTATAGC
1 CTCTGCTTCCCTTGCTGCAGC
* *
48822370 CTCTGCTTCCCTTGTTGTAGC
1 CTCTGCTTCCCTTGCTGCAGC
* * * * *
48822391 CTATACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGC
* *
48822412 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGC
*
48822433 ATCTGCTT
1 CTCTGCTT
48822441 TAAGTTGCTG
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 75 1.00
ACGTcount: A:0.07, C:0.39, G:0.16, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTTGCTGCAGC
Found at i:48822375 original size:42 final size:42
Alignment explanation
Indices: 48822328--48822429 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 42
48822318 TTTGACGCTG
* * *
48822328 CTCTGCTTCCCTTGCTGCAGCCTCTACTTCCCTTGCTATAGC
1 CTCTGCTTCCCTTGCTGCAGCCTATACTTCCCTCGCTACAGC
* * * * *
48822370 CTCTGCTTCCCTTGTTGTAGCCTATACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTTGCTGCAGCCTATACTTCCCTCGCTACAGC
*
48822412 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTTGCTGC
48822430 CGCATCTGCT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.07, C:0.39, G:0.16, T:0.38
Consensus pattern (42 bp):
CTCTGCTTCCCTTGCTGCAGCCTATACTTCCCTCGCTACAGC
Found at i:48822504 original size:66 final size:66
Alignment explanation
Indices: 48822411--48822557 Score: 208
Period size: 66 Copynumber: 2.2 Consensus size: 66
48822401 CTCGCTGCCG
* * * *
48822411 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGTTGCT-GCTGGAGTTCTTCATA-CTTTCGTT
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGTTG-TAGCTAGAGTTCTTCATATCTTT-GTT
48822474 GAA
64 GAA
* *
48822477 CCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATCTTTGTTGA
48822542 A
66 A
48822543 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
48822558 ATGTTGCCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
65 1 0.01
66 68 0.93
67 4 0.05
ACGTcount: A:0.14, C:0.28, G:0.17, T:0.41
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTACCGCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATCTTTGTTGA
A
Found at i:48822573 original size:66 final size:65
Alignment explanation
Indices: 48822431--48822581 Score: 196
Period size: 66 Copynumber: 2.3 Consensus size: 65
48822421 TCTTGCTGCC
* * *
48822431 GCATCTGCTTTAAGTTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTAC
1 GCATCCGCTTTAAGTTG-TGCTAGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATAC
48822496 T
65 T
* * *
48822497 GCATCTGCTTTAAGTTGTAGCTAGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATG
1 GCATCCGCTTTAAGTTGT-GCTAGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATA
*
48822561 TT
64 CT
*
48822563 GCCTCCGCTTTAAGTTGTG
1 GCATCCGCTTTAAGTTGTG
48822582 TAATTTGCTC
Statistics
Matches: 76, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
65 2 0.03
66 70 0.92
67 4 0.05
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (65 bp):
GCATCCGCTTTAAGTTGTGCTAGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATACT
Found at i:48827840 original size:9 final size:9
Alignment explanation
Indices: 48827791--48828125 Score: 238
Period size: 9 Copynumber: 39.8 Consensus size: 9
48827781 AATTGCACGG
48827791 GTAAGTTAT
1 GTAAGTTAT
48827800 GT-A-TTAT
1 GTAAGTTAT
*
48827807 GTAAGCTAT
1 GTAAGTTAT
*
48827816 GTAAGTTGT
1 GTAAGTTAT
48827825 GT-A-TTAT
1 GTAAGTTAT
48827832 GTAAGTTAT
1 GTAAGTTAT
48827841 -T-A-TTAT
1 GTAAGTTAT
48827847 GTAAGTTAT
1 GTAAGTTAT
*
48827856 GTAAGTAAT
1 GTAAGTTAT
48827865 GT-A-TTAT
1 GTAAGTTAT
*
48827872 GTAAGTTGT
1 GTAAGTTAT
*
48827881 GT-A-TAAT
1 GTAAGTTAT
*
48827888 GTTAGTTAT
1 GTAAGTTAT
**
48827897 CAAAGTTAT
1 GTAAGTTAT
48827906 GT-A-TTAT
1 GTAAGTTAT
48827913 GTAAGTTAT
1 GTAAGTTAT
*
48827922 TTAAGTTAT
1 GTAAGTTAT
*
48827931 GTAAGTTGT
1 GTAAGTTAT
48827940 GT-A-TTAT
1 GTAAGTTAT
48827947 GTAAGTTAT
1 GTAAGTTAT
* *
48827956 GTAGGCTAT
1 GTAAGTTAT
*
48827965 GTAAGTTAA
1 GTAAGTTAT
*
48827974 GTAAGTAAT
1 GTAAGTTAT
48827983 GT-A-TTAT
1 GTAAGTTAT
*
48827990 GTAAGTTGT
1 GTAAGTTAT
*
48827999 GT-A-TAAT
1 GTAAGTTAT
*
48828006 GTTAGTTAT
1 GTAAGTTAT
**
48828015 CAAAGTTAT
1 GTAAGTTAT
48828024 GT-A-TTAT
1 GTAAGTTAT
48828031 GTAAGTTAT
1 GTAAGTTAT
*
48828040 TTAAGTTAT
1 GTAAGTTAT
*
48828049 GTAAGTTGT
1 GTAAGTTAT
48828058 GT-A-TTAT
1 GTAAGTTAT
48828065 GTAAGTTAT
1 GTAAGTTAT
48828074 GT-AGTCTAT
1 GTAAGT-TAT
48828083 GT-A-TTAT
1 GTAAGTTAT
48828090 GTAAGTTAT
1 GTAAGTTAT
*
48828099 -TATGTTATTAT
1 GTAAG---TTAT
48828110 GTAAGTTAT
1 GTAAGTTAT
*
48828119 GCAAGTT
1 GTAAGTT
48828126 TATATATAAG
Statistics
Matches: 253, Mismatches: 43, Indels: 60
0.71 0.12 0.17
Matches are distributed among these distances:
6 4 0.02
7 58 0.23
8 30 0.12
9 154 0.61
11 4 0.02
12 3 0.01
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48827846 original size:15 final size:16
Alignment explanation
Indices: 48827813--48828119 Score: 158
Period size: 16 Copynumber: 18.8 Consensus size: 16
48827803 TTATGTAAGC
*
48827813 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
48827829 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
48827844 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
48827862 AATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
48827878 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
**
48827894 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
48827910 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
48827928 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
*
48827944 TATGTAAGTTATGTAGGC
1 TATGTAAGTTATGTA--T
*
48827962 TATGTAAGTTAAGTAAGT
1 TATGTAAGTTATGT-A-T
*
48827980 AATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
48827996 TGTGT-A-TAATGTTAGT
1 TATGTAAGTTATG-TA-T
**
48828012 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
48828028 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
48828046 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
48828062 TATGTAAGTTATGTAGT
1 TATGTAAGTTATGTA-T
48828079 CTATGT-A-TTATGTA-
1 -TATGTAAGTTATGTAT
*
48828093 -A-GTTA-TTATGTTAT
1 TATGTAAGTTATG-TAT
48828107 TATGTAAGTTATG
1 TATGTAAGTTATG
48828120 CAAGTTTATA
Statistics
Matches: 233, Mismatches: 34, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
11 2 0.01
12 7 0.03
13 2 0.01
15 16 0.07
16 121 0.52
17 22 0.09
18 62 0.27
19 1 0.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:48827875 original size:25 final size:25
Alignment explanation
Indices: 48827797--48828125 Score: 161
Period size: 25 Copynumber: 13.0 Consensus size: 25
48827787 ACGGGTAAGT
*
48827797 TATGTATTATGTAAGCTATGTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
48827822 TGTGTATTATGTAAGTTAT-T-A-T
1 TATGTATTATGTAAGTTATGTAAGT
*
48827844 TATGTAAGTTATGTAAGTAATGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * *
48827869 TATGTAAGTTGTGT-A-TAATGTTAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
**
48827894 TATCAAAGTTATGT-A-TTATGTAAGT
1 TAT-GTA-TTATGTAAGTTATGTAAGT
* *
48827919 TATTTAAGTTATGTAAGTTGTGT-A-T
1 TATGT-A-TTATGTAAGTTATGTAAGT
* *
48827944 TATGTAAGTTATGTAGGCTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
* *
48827971 TAAGTAAGTAATGT-A-TTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
* * * **
48827996 TGTGTATAATGTTAGTTATCAAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
48828021 TATGTATTATGTAAGTTATTTAAGT
1 TATGTATTATGTAAGTTATGTAAGT
*
48828046 TATGTAAGTTGTGT-A-TTATGTAAGT
1 TATGT-A-TTATGTAAGTTATGTAAGT
48828071 TATGTAGTCTATGT-A-TTATGTAAGTTAT
1 TATGTA-T-TATGTAAGTTATGTAAG---T
*
48828099 TATGTTATTATGTAAGTTATGCAAGT
1 TATG-TATTATGTAAGTTATGTAAGT
48828125 T
1 T
48828126 TATATATAAG
Statistics
Matches: 248, Mismatches: 34, Indels: 43
0.76 0.10 0.13
Matches are distributed among these distances:
22 5 0.02
23 14 0.06
24 20 0.08
25 157 0.63
26 7 0.03
27 28 0.11
28 7 0.03
29 10 0.04
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TATGTATTATGTAAGTTATGTAAGT
Found at i:48827929 original size:34 final size:34
Alignment explanation
Indices: 48827891--48827955 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
48827881 GTATAATGTT
48827891 AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
1 AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
** *
48827925 AGTTATGTAAGTTGTGTATTATGTAAGTTAT
1 AGTTATCAAAGTTATGTATTATGTAAGTTAT
48827956 GTAGGCTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (34 bp):
AGTTATCAAAGTTATGTATTATGTAAGTTATTTA
Found at i:48827966 original size:34 final size:33
Alignment explanation
Indices: 48827899--48828085 Score: 136
Period size: 34 Copynumber: 6.0 Consensus size: 33
48827889 TTAGTTATCA
* * *
48827899 AAGTTATGTATTATGTAAGTTATTTAAGTTATGT
1 AAGTTGTGTATTATGTAAGTTATGT-AGCTATGT
48827933 AAGTTGTGTATTATGTAAGTTATGTAGGCTATGT
1 AAGTTGTGTATTATGTAAGTTATGTA-GCTATGT
* *
48827967 AA---GT-TA--A-GTAAGTAATGTA-TTATGT
1 AAGTTGTGTATTATGTAAGTTATGTAGCTATGT
* *
48827992 AAGTTGTGTATAATGTTAGTTA--T--C-A---
1 AAGTTGTGTATTATGTAAGTTATGTAGCTATGT
* * *
48828017 AAGTTATGTATTATGTAAGTTATTTAAGTTATGT
1 AAGTTGTGTATTATGTAAGTTATGT-AGCTATGT
48828051 AAGTTGTGTATTATGTAAGTTATGTAGTCTATGT
1 AAGTTGTGTATTATGTAAGTTATGTAG-CTATGT
48828085 A
1 A
48828086 TTATGTAAGT
Statistics
Matches: 120, Mismatches: 15, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
25 26 0.22
27 12 0.10
28 4 0.03
29 2 0.02
30 3 0.03
31 4 0.03
32 6 0.05
33 3 0.03
34 60 0.50
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.46
Consensus pattern (33 bp):
AAGTTGTGTATTATGTAAGTTATGTAGCTATGT
Found at i:48828017 original size:118 final size:117
Alignment explanation
Indices: 48827796--48828116 Score: 510
Period size: 118 Copynumber: 2.7 Consensus size: 117
48827786 CACGGGTAAG
* * *
48827796 TTATGT-A-TTATGTAAGCTATGTAAGTTGTGTATTATGTAAGTTAT-TA-TTATGTAAGTTATG
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGCTATGTAAGTTATG
48827857 TAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
66 TAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
*
48827909 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGGCTATGTAAGTTAA
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTA-GCTATGTAAGTTAT
48827974 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
65 GTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
48828027 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGTCTATGT-A-TTAT
1 TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAG-CTATGTAAGTTAT
48828090 GTAAGTTATTATGTTATTATGTAAGTT
65 GTAAG-TA--ATG-TATTATGTAAGTT
48828117 ATGCAAGTTT
Statistics
Matches: 193, Mismatches: 5, Indels: 13
0.91 0.02 0.06
Matches are distributed among these distances:
113 6 0.03
114 1 0.01
115 36 0.19
116 10 0.05
117 4 0.02
118 120 0.62
119 3 0.02
120 13 0.07
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (117 bp):
TTATGTAAGTTATTTAAGTTATGTAAGTTGTGTATTATGTAAGTTATGTAGCTATGTAAGTTATG
TAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTA
Found at i:48828320 original size:121 final size:120
Alignment explanation
Indices: 48828172--48828491 Score: 559
Period size: 121 Copynumber: 2.6 Consensus size: 120
48828162 TATCTATCTT
* *
48828172 ATTTATAATTATTTTTAAAATTATAAAATTCATTTCTAATAAAATTGAAATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTAATTTC-AATAAAATTGAAATATAGGTTATATATC
48828237 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
65 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
* *
48828293 ATTTACAATTATTTTTAAAATTATAAAATTTATTGACAATAAAATTGAAATATAGGTTATATATC
1 ATTTACAATTATTTTTAAAATTATAAAATTAATT-TCAATAAAATTGAAATATAGGTTATATATC
48828358 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
65 CATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
*
48828414 ATTTACAATTATTTTTAAAATTATAAAAAATAATTTACAATAAAATTGAAATATAGGTTATATAT
1 ATTTACAATTATTTTTAAAATTAT-AAAATTAATTT-CAATAAAATTGAAATATAGGTTATATAT
48828479 CCATACCATATAT
64 CCATACCATATAT
48828492 ATAAATTTTT
Statistics
Matches: 190, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
121 140 0.74
122 50 0.26
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.40
Consensus pattern (120 bp):
ATTTACAATTATTTTTAAAATTATAAAATTAATTTCAATAAAATTGAAATATAGGTTATATATCC
ATACCATATATGGGGTGATATATTAAAAATATAGGTTTTAATATTTAAAAATAAC
Found at i:48828542 original size:18 final size:18
Alignment explanation
Indices: 48828519--48828607 Score: 101
Period size: 18 Copynumber: 4.8 Consensus size: 18
48828509 ATATATAAAT
48828519 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
48828537 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
**
48828559 TTTTTGTAA-GTAATATA
1 TTTAAGTAATGTAATATA
48828576 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
48828594 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
48828608 GTAAGTAATG
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
17 13 0.21
18 30 0.49
19 3 0.05
20 3 0.05
21 4 0.07
22 8 0.13
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:48828602 original size:31 final size:31
Alignment explanation
Indices: 48828521--48828625 Score: 100
Period size: 31 Copynumber: 3.5 Consensus size: 31
48828511 ATATAAATTT
48828521 TAAGTAATGTAATATA--TT--TAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
* * *
48828548 TAAGT--TATAA-ATTTTTGTAAGTAA-TATATT
1 TAAGTAATGTAATATATTT-T-AGTAAGTA-ATG
48828578 TAAGTAATGTAATATATTTTAGTAAGTAATG
1 TAAGTAATGTAATATATTTTAGTAAGTAATG
48828609 TAAGTAATGTAATATAT
1 TAAGTAATGTAATATAT
48828626 ACTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 2 0.03
25 4 0.07
26 1 0.02
27 6 0.10
29 2 0.03
30 10 0.16
31 24 0.39
32 7 0.11
33 5 0.08
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (31 bp):
TAAGTAATGTAATATATTTTAGTAAGTAATG
Found at i:48828664 original size:13 final size:13
Alignment explanation
Indices: 48828648--48828739 Score: 82
Period size: 13 Copynumber: 6.9 Consensus size: 13
48828638 GTAAGTCATG
48828648 TATTTAAGTAATA
1 TATTTAAGTAATA
*
48828661 TATTTAAGCAA-A
1 TATTTAAGTAATA
*
48828673 T-TCTAGTAAGTAATG
1 TAT-T--TAAGTAATA
48828688 TATTTAAGTAATA
1 TATTTAAGTAATA
48828701 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
48828713 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
48828728 TATTTAAGTAAT
1 TATTTAAGTAAT
48828740 GTAAGTTATA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
11 1 0.02
12 7 0.11
13 36 0.57
14 12 0.19
15 6 0.10
16 1 0.02
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:48828689 original size:40 final size:40
Alignment explanation
Indices: 48828631--48828739 Score: 173
Period size: 40 Copynumber: 2.7 Consensus size: 40
48828621 TATATACTTT
*
48828631 AATTTTAGTAAGTCATGTATTTAAGTAATATATTTAAGCA
1 AATTTTAGTAAGTAATGTATTTAAGTAATATATTTAAGCA
* *
48828671 AATTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTA
1 AATTTTAGTAAGTAATGTATTTAAGTAATATATTTAAGCA
* *
48828711 AATTTTAGTAATTAATATATTTAAGTAAT
1 AATTTTAGTAAGTAATGTATTTAAGTAAT
48828740 GTAAGTTATA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.44
Consensus pattern (40 bp):
AATTTTAGTAAGTAATGTATTTAAGTAATATATTTAAGCA
Found at i:48828805 original size:11 final size:11
Alignment explanation
Indices: 48828774--48828806 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
48828764 ATATATTAAT
48828774 AATTCATTGAC
1 AATTCATTGAC
48828785 -ATTCATTGAC
1 AATTCATTGAC
*
48828795 AATTCACTGAC
1 AATTCATTGAC
48828806 A
1 A
48828807 GTCAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:48829945 original size:12 final size:12
Alignment explanation
Indices: 48829928--48829959 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
48829918 AAAATCTCGC
*
48829928 AAAACAGACTAG
1 AAAACAAACTAG
48829940 AAAACAAACTAG
1 AAAACAAACTAG
48829952 AAAACAAA
1 AAAACAAA
48829960 ACCCAAGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.69, C:0.16, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAACAAACTAG
Found at i:48830393 original size:16 final size:16
Alignment explanation
Indices: 48830374--48830434 Score: 86
Period size: 16 Copynumber: 3.8 Consensus size: 16
48830364 AAATTTGAGT
48830374 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
** *
48830390 ATACCAAAATAAGAATT
1 ATACCAAAATAATTA-G
48830407 ATACCAAAATAATTAG
1 ATACCAAAATAATTAG
48830423 ATACCAAAATAA
1 ATACCAAAATAA
48830435 GAAAACAGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.59, C:0.13, G:0.05, T:0.23
Consensus pattern (16 bp):
ATACCAAAATAATTAG
Found at i:48830413 original size:33 final size:33
Alignment explanation
Indices: 48830373--48830437 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
48830363 GAAATTTGAG
48830373 TATACCAAAATAATTAGATACCAAAATAAGAAT
1 TATACCAAAATAATTAGATACCAAAATAAGAAT
48830406 TATACCAAAATAATTAGATACCAAAATAAGAA
1 TATACCAAAATAATTAGATACCAAAATAAGAA
48830438 AACAGGTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.23
Consensus pattern (33 bp):
TATACCAAAATAATTAGATACCAAAATAAGAAT
Found at i:48830793 original size:14 final size:14
Alignment explanation
Indices: 48830756--48830794 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
48830746 CTCCTCTGAT
*
48830756 TTTTTTTCTTTGTA
1 TTTTTTTCTTTCTA
**
48830770 TTTTGGTCTTTCTA
1 TTTTTTTCTTTCTA
48830784 TTTTTTTCTTT
1 TTTTTTTCTTT
48830795 TCCTTTCGAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.05, C:0.10, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTTTTCTTTCTA
Found at i:48832796 original size:42 final size:42
Alignment explanation
Indices: 48832705--48832825 Score: 156
Period size: 42 Copynumber: 2.9 Consensus size: 42
48832695 GATAAAATGT
* * * **
48832705 CATTAGCGGCACTTTTCCATAAAACGCCGCTAAATACCTCAG
1 CATTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCAAAG
* *
48832747 CACTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGGCCAAAG
1 CATTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCAAAG
48832789 CATTAGCGGCGCTTATT--AAAAAACGCCGCTAAAGACC
1 CATTAGCGGCGCTT-TTCCAAAAAACGCCGCTAAAGACC
48832826 CGAAAGTAGG
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 19 0.28
42 48 0.70
43 2 0.03
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.19
Consensus pattern (42 bp):
CATTAGCGGCGCTTTTCCAAAAAACGCCGCTAAAGACCAAAG
Found at i:48832901 original size:39 final size:38
Alignment explanation
Indices: 48832856--48832970 Score: 140
Period size: 40 Copynumber: 2.9 Consensus size: 38
48832846 TTTGCTTTGG
* * *
48832856 CTTTTTTGCGGCGTTTTTATTAAAACCGCCGCTAATGGTT
1 CTTTTTAGCGGCG-TTTTATTAAAA-CGCCGCTAATGCTC
*
48832896 CTTTTTAGCGGCGTGTTATTTAAAACGCCGCTAATGCTC
1 CTTTTTAGCGGCGTTTTA-TTAAAACGCCGCTAATGCTC
*
48832935 CTATTTTAGCGGCGTTTTCTTAAAAACGCCGCTAAT
1 CT-TTTTAGCGGCGTTTTATT-AAAACGCCGCTAAT
48832971 TCTCGATTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
39 20 0.30
40 46 0.70
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (38 bp):
CTTTTTAGCGGCGTTTTATTAAAACGCCGCTAATGCTC
Found at i:48832988 original size:40 final size:38
Alignment explanation
Indices: 48832856--48833010 Score: 132
Period size: 40 Copynumber: 3.9 Consensus size: 38
48832846 TTTGCTTTGG
* *
48832856 CTTTTTTGCGGCGTTTTTATTAAAACCGCCGCTAATGGT-T
1 CTTTTTAGCGGCG-TTTTATTAAAAACGCCGCTAAT--TCT
* * *
48832896 CTTTTTAGCGGCGTGTTATTTAAAACGCCGCTAATGCT
1 CTTTTTAGCGGCGTTTTATTAAAAACGCCGCTAATTCT
*
48832934 CCTATTTTAGCGGCGTTTTCTTAAAAACGCCGCTAATTCT
1 -CT-TTTTAGCGGCGTTTTATTAAAAACGCCGCTAATTCT
** * * *
48832974 CGATTTTTTCCGGCGTTTTTTGTTAAAACGCCACTAA
1 C--TTTTTAGCGGCGTTTTAT-TAAAAACGCCGCTAA
48833011 AGGTGCCGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 22 0.23
40 58 0.61
41 14 0.15
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (38 bp):
CTTTTTAGCGGCGTTTTATTAAAAACGCCGCTAATTCT
Found at i:48836014 original size:42 final size:42
Alignment explanation
Indices: 48835963--48836249 Score: 486
Period size: 42 Copynumber: 6.8 Consensus size: 42
48835953 GTTTACAAAC
* *
48835963 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
48836005 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
48836047 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
48836089 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
*
48836131 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
* *
48836173 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGA-A
*
48836215 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG
48836250 TTTTTTTTCT
Statistics
Matches: 234, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
41 1 0.00
42 233 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
Found at i:48836305 original size:84 final size:82
Alignment explanation
Indices: 48835963--48836336 Score: 444
Period size: 84 Copynumber: 4.5 Consensus size: 82
48835953 GTTTACAAAC
* * *
48835963 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
* *
48836028 TCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGC-ATTTG-A
48836047 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
*
48836112 TCTTTAGCGGCGTTTAGAA
66 TCTTTAGCGGCATTT-G-A
*
48836131 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
**
48836196 TCTTTAGCGGCGCTT-A
66 TCTTTAGCGGCATTTGA
* ****** *
48836212 AGGGAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAAC
1 A---AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTAGAAAAAAACGCCGCTAAAGAAC
* **
48836277 ATGTTCTTTAGTGGCATTTTTT
62 ATGTTCTTTAGCGGCA-TTTGA
* * * *
48836299 ACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT
48836337 TTATACAAAA
Statistics
Matches: 258, Mismatches: 25, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
81 2 0.01
83 4 0.02
84 217 0.84
85 32 0.12
86 2 0.01
87 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCATTTGA
Found at i:48836305 original size:126 final size:126
Alignment explanation
Indices: 48835963--48836336 Score: 482
Period size: 126 Copynumber: 3.0 Consensus size: 126
48835953 GTTTACAAAC
* * * *
48835963 AAAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAGAACATGT
* *
48836028 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAA
66 TCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
*
48836089 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAGACCATGT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAGAACATGT
* *
48836154 TCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGG
66 TCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-A
* * ****** *
48836215 GAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTCTAATCGCCGCTAAAGAACATG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTAGAAAAAAACGCCGCTAAAGAACATG
* **** * * *
48836280 TTCTTTAGTGGC-ATTTTTTACAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
65 TTCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
48836337 TTATACAAAA
Statistics
Matches: 221, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
125 1 0.00
126 188 0.85
127 32 0.14
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (126 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTAGAAAAAAACGCCGCTAAAGAACATGT
TCTTTAGCGGCGATTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:48836428 original size:14 final size:14
Alignment explanation
Indices: 48836405--48836438 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
48836395 GCCCTCCTGT
*
48836405 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
48836419 AGCAACATTTCAAA
1 AGCAACATTTCAAA
48836433 AGCAAC
1 AGCAAC
48836439 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:48836730 original size:21 final size:21
Alignment explanation
Indices: 48836662--48836732 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
48836652 TTTTGCTCTG
* *
48836662 CTCTGCTTCTCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
48836683 CTCCGCTTCCCTCGCTGCAGT
1 CTCTGCTTCCCTCGCTGCAGC
* * *
48836704 CGCTGCTTCCCTCGCTTCCGC
1 CTCTGCTTCCCTCGCTGCAGC
48836725 CTCTGCTT
1 CTCTGCTT
48836733 TAAGTTGTAG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.45, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:48842231 original size:11 final size:9
Alignment explanation
Indices: 48842183--48842697 Score: 98
Period size: 7 Copynumber: 60.0 Consensus size: 9
48842173 AATTGCAATG
48842183 GTAAGTTAT
1 GTAAGTTAT
48842192 GTAAGTTAT
1 GTAAGTTAT
48842201 GTAAGTTAAAT
1 GTAAGTT--AT
48842212 GT-A-TTAT
1 GTAAGTTAT
48842219 GTAAGTTAAAT
1 GTAAGTT--AT
48842230 GTAAG-T-T
1 GTAAGTTAT
48842237 GTAAGTTAT
1 GTAAGTTAT
*
48842246 -TATGTATTAT
1 GTAAG--TTAT
48842256 GTAAG-T-T
1 GTAAGTTAT
48842263 GTAAGTTAAAT
1 GTAAGTT--AT
*
48842274 GT-A-TTGT
1 GTAAGTTAT
48842281 GTAAG-T-T
1 GTAAGTTAT
48842288 GTAAGTTAAAT
1 GTAAGTT--AT
48842299 GT-A-TTAT
1 GTAAGTTAT
48842306 GTAAG-T-T
1 GTAAGTTAT
48842313 GTAAGTTAT
1 GTAAGTTAT
*
48842322 -TATGTATTAT
1 GTAAG--TTAT
48842332 GTAAG-T-T
1 GTAAGTTAT
48842339 GTAAGTTAAAT
1 GTAAGTT--AT
*
48842350 GT-A-TTGT
1 GTAAGTTAT
48842357 GTAAG-T-T
1 GTAAGTTAT
48842364 GTAAGTTAAAT
1 GTAAGTT--AT
48842375 GT-A-TTAT
1 GTAAGTTAT
48842382 GTAAG-T-T
1 GTAAGTTAT
48842389 GTAAGTTAT
1 GTAAGTTAT
*
48842398 -TATGTATTAT
1 GTAAG--TTAT
48842408 GTAAG-T-T
1 GTAAGTTAT
48842415 GTAAGTTAAAT
1 GTAAGTT--AT
*
48842426 GT-A-TTGT
1 GTAAGTTAT
48842433 GTAAG-T-T
1 GTAAGTTAT
48842440 GTAAGTTAAAT
1 GTAAGTT--AT
48842451 GT-A-TTAT
1 GTAAGTTAT
48842458 GTAAG-T-T
1 GTAAGTTAT
48842465 GTAAGTTAT
1 GTAAGTTAT
*
48842474 -TATGTATTAT
1 GTAAG--TTAT
48842484 GTAAG-T-T
1 GTAAGTTAT
48842491 GTAAGTTAT
1 GTAAGTTAT
*
48842500 -TATGTATTAT
1 GTAAG--TTAT
48842510 GTAAG-T-T
1 GTAAGTTAT
48842517 GTAAGTTAT
1 GTAAGTTAT
*
48842526 -TATGTATTAT
1 GTAAG--TTAT
48842536 GTAAG-T-T
1 GTAAGTTAT
48842543 GTAAGTTAAAT
1 GTAAGTT--AT
*
48842554 GT-A-TTGT
1 GTAAGTTAT
48842561 GTAAG-T-T
1 GTAAGTTAT
48842568 GTAAGTTAAAT
1 GTAAGTT--AT
48842579 GT-A-TTAT
1 GTAAGTTAT
*
48842586 GTCAGTTAAAT
1 GTAAGTT--AT
48842597 GT-A-TTAT
1 GTAAGTTAT
48842604 GTAAG--AT
1 GTAAGTTAT
48842611 GTAAGTTAAAT
1 GTAAGTT--AT
48842622 GT-A-TTAT
1 GTAAGTTAT
48842629 GTAAG-T-T
1 GTAAGTTAT
48842636 GTAAGTTAT
1 GTAAGTTAT
*
48842645 -TATGTATTAT
1 GTAAG--TTAT
*
48842655 GTAAGTAAT
1 GTAAGTTAT
48842664 GTAAGTTAAAT
1 GTAAGTT--AT
48842675 GT-A-TTAT
1 GTAAGTTAT
48842682 GTAAG-T-T
1 GTAAGTTAT
48842689 GTAAGTTAT
1 GTAAGTTAT
48842698 TATGTATTAT
Statistics
Matches: 381, Mismatches: 20, Indels: 210
0.62 0.03 0.34
Matches are distributed among these distances:
7 147 0.39
8 64 0.17
9 61 0.16
10 41 0.11
11 68 0.18
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:48842283 original size:25 final size:25
Alignment explanation
Indices: 48842228--48842707 Score: 695
Period size: 25 Copynumber: 19.1 Consensus size: 25
48842218 TGTAAGTTAA
*
48842228 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842254 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842279 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842304 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842330 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842355 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842380 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842406 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842431 GTGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842456 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
*
48842482 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
*
48842508 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842534 ATGTAAGTTGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842559 GTGTAAGTTGTAAGTTAAATG---T
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842581 AT-T-A--TGTCAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842602 ATGTAAGATGTAAGTTAAATGTATT
1 ATGTAAGTTGTAAGTTAAATGTATT
*
48842627 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842653 ATGTAAGTAATGTAAGTTAAATGTATT
1 ATGTAAGT--TGTAAGTTAAATGTATT
*
48842680 ATGTAAGTTGTAAGTTATTATGTATT
1 ATGTAAGTTGTAAGTTA-AATGTATT
48842706 AT
1 AT
48842708 TTAATAAAAT
Statistics
Matches: 419, Mismatches: 21, Indels: 28
0.90 0.04 0.06
Matches are distributed among these distances:
18 12 0.03
20 1 0.00
21 4 0.01
22 3 0.01
23 1 0.00
25 209 0.50
26 165 0.39
27 15 0.04
28 9 0.02
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (25 bp):
ATGTAAGTTGTAAGTTAAATGTATT
Found at i:48842324 original size:76 final size:76
Alignment explanation
Indices: 48842228--48842707 Score: 762
Period size: 76 Copynumber: 6.4 Consensus size: 76
48842218 TGTAAGTTAA
48842228 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
48842293 TTAAATGTATT
66 TTAAATGTATT
48842304 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
48842369 TTAAATGTATT
66 TTAAATGTATT
48842380 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
48842445 TTAAATGTATT
66 TTAAATGTATT
* *
48842456 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAA
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGTTGTAA
*
48842521 GTTATTATGTATT
65 GTTA-AATGTATT
* * *
48842534 ATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGTTGTAAGTTAAATGTA---T-T-A--TGTCAG
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
48842591 TTAAATGTATT
66 TTAAATGTATT
* * * *
48842602 ATGTAAGATGTAAGTTA-AATGTATTATGTAAGTTGTAAGTTATTATGTATTATGTAAGTAATGT
1 ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTA-AATGTATTGTGTAAGT--TGT
48842666 AAGTTAAATGTATT
63 AAGTTAAATGTATT
48842680 ATGTAAGTTGTAAGTTATTATGTATTAT
1 ATGTAAGTTGTAAGTTATTATGTATTAT
48842708 TTAATAAAAT
Statistics
Matches: 377, Mismatches: 14, Indels: 23
0.91 0.03 0.06
Matches are distributed among these distances:
68 47 0.12
69 13 0.03
71 1 0.00
72 2 0.01
73 2 0.01
74 1 0.00
76 200 0.53
77 46 0.12
78 56 0.15
79 9 0.02
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.46
Consensus pattern (76 bp):
ATGTAAGTTGTAAGTTATTATGTATTATGTAAGTTGTAAGTTAAATGTATTGTGTAAGTTGTAAG
TTAAATGTATT
Found at i:48842675 original size:53 final size:51
Alignment explanation
Indices: 48842595--48842707 Score: 208
Period size: 53 Copynumber: 2.2 Consensus size: 51
48842585 TGTCAGTTAA
48842595 ATGTATTATGTAAGATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
1 ATGTATTATGTAAGATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
48842646 ATGTATTATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
1 ATGTATTATGTAAG--ATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
48842699 ATGTATTAT
1 ATGTATTAT
48842708 TTAATAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 14 0.23
53 46 0.77
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (51 bp):
ATGTATTATGTAAGATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
Found at i:48842975 original size:74 final size:75
Alignment explanation
Indices: 48842743--48842969 Score: 440
Period size: 74 Copynumber: 3.1 Consensus size: 75
48842733 AACATTACTA
48842743 ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
1 ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
48842808 ATA-TTTTTT
66 ATATTTTTTT
48842817 ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
1 ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
48842882 ATATTTTTTT
66 ATATTTTTTT
48842892 -TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
1 ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
48842956 ATATTTTTTT
66 ATATTTTTTT
48842966 ATAT
1 ATAT
48842970 TTTATTTTAT
Statistics
Matches: 151, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
74 142 0.94
75 9 0.06
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (75 bp):
ATATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCAC
ATATTTTTTT
Found at i:48843133 original size:13 final size:13
Alignment explanation
Indices: 48843115--48843185 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
48843105 ATTTATAATT
48843115 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
48843128 ATTTAAGTAACAT
1 ATTTAAGTAATAA
48843141 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
48843154 ATTTAAGTAACAT
1 ATTTAAGTAATAA
48843167 ATTTAAGTAATAA
1 ATTTAAGTAATAA
48843180 ATTTAA
1 ATTTAA
48843186 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:48843144 original size:26 final size:26
Alignment explanation
Indices: 48843114--48843185 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
48843104 TATTTATAAT
48843114 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
48843140 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
48843166 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
48843186 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:48843212 original size:17 final size:17
Alignment explanation
Indices: 48843190--48843488 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
48843180 ATTTAAACAA
48843190 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
48843207 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
48843224 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
48843241 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* * *
48843264 ATTTAAGTAATTAAT-A
1 ATTTTAGTAAGTAATGT
* *
48843280 AATTTA--AA-CAA---
1 ATTTTAGTAAGTAATGT
48843291 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
48843308 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
48843325 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
48843342 AAACAAATTTTAGTAAGTAATGT
1 ------ATTTTAGTAAGTAATGT
* *
48843365 ATTTTAG-AAATAAATTT
1 ATTTTAGTAAGT-AATGT
*
48843382 AAACAAATTTATGTAAGTAATGT
1 -----ATTTTA-GTAAGTAATGT
48843405 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
*
48843422 ATTTTAGTAA-TAAATTT
1 ATTTTAGTAAGT-AATGT
*
48843439 AAACAAATTTTAGTAAGTAATTT
1 ------ATTTTAGTAAGTAATGT
48843462 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
48843479 ATTTTAGTAA
1 ATTTTAGTAA
48843489 TAAATTTAAC
Statistics
Matches: 224, Mismatches: 20, Indels: 76
0.70 0.06 0.24
Matches are distributed among these distances:
11 5 0.02
13 4 0.02
14 4 0.02
16 10 0.04
17 137 0.61
18 5 0.02
22 5 0.02
23 48 0.21
24 6 0.03
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.44
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:48843236 original size:57 final size:57
Alignment explanation
Indices: 48843157--48843497 Score: 375
Period size: 57 Copynumber: 6.5 Consensus size: 57
48843147 GTAATAAATT
** *
48843157 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
48843214 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTA--TT--
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* * *
48843267 TAAGTAAT-TA----A-T-A-AATTTAAACA-AATTTT-AGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAA-ACAAATTTTAGTAAGTAATGTATTTTAG
48843315 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
* *
48843372 -AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
*
48843412 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTTAG
1 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
48843469 TAAGTAATGTATTTTAGTAATAAATTTAA
1 TAAGTAATGTATTTTAGTAATAAATTTAA
48843498 CATTCAATCG
Statistics
Matches: 238, Mismatches: 14, Indels: 64
0.75 0.04 0.20
Matches are distributed among these distances:
40 18 0.08
41 6 0.03
44 14 0.06
45 16 0.07
46 4 0.02
47 9 0.04
48 9 0.04
49 2 0.01
50 8 0.03
52 7 0.03
53 10 0.04
54 1 0.00
55 4 0.02
56 17 0.07
57 113 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAG
Found at i:48843251 original size:40 final size:40
Alignment explanation
Indices: 48843207--48843317 Score: 177
Period size: 44 Copynumber: 2.7 Consensus size: 40
48843197 TAAGTAATGT
48843207 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
48843247 ATTTTAGTAAGTAATGTATTTAAGTAATTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTT---T-AGTAATAAATTTAAACAA
48843291 ATTTTAGTAAGTAATGTATTTTAGTAA
1 ATTTTAGTAAGTAATGTATTTTAGTAA
48843318 GTAATGTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
40 25 0.38
41 1 0.02
43 1 0.02
44 38 0.58
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:48843293 original size:101 final size:100
Alignment explanation
Indices: 48843174--48843476 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
48843164 CATATTTAAG
48843174 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
1 TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
*
48843239 TTAAACAAATTTTAGTAAGTAATGTATTTAAGTAA
66 TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
48843274 TTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 -TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
48843339 TTTAAACAAATTTTAGTAAGTAATGTATTTTAG--A
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
48843373 -AATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
1 TAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA
*
48843436 TTTAAACAAATTTTAGTAAGTAATTTATTTTAGTAA
65 TTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
48843472 GTAAT
1 -TAAT
48843477 GTATTTTAGT
Statistics
Matches: 195, Mismatches: 2, Indels: 10
0.94 0.01 0.05
Matches are distributed among these distances:
96 4 0.02
97 90 0.46
99 2 0.01
101 99 0.51
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (100 bp):
TAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAAT
TTAAACAAATTTTAGTAAGTAATGTATTTTAGTAA
Found at i:48843355 original size:40 final size:40
Alignment explanation
Indices: 48843308--48843414 Score: 189
Period size: 40 Copynumber: 2.7 Consensus size: 40
48843298 TAAGTAATGT
48843308 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
48843348 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
48843388 A-TTTATGTAAGTAATGTATTTTAGTAA
1 ATTTTA-GTAAGTAATGTATTTTAGTAA
48843415 GTAATGTATT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 4 0.06
40 60 0.94
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (40 bp):
ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:48843468 original size:97 final size:97
Alignment explanation
Indices: 48843157--48843465 Score: 521
Period size: 97 Copynumber: 3.1 Consensus size: 97
48843147 GTAATAAATT
** *
48843157 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
48843222 GTATTTTAGTAATAAATTTAAACAAATTTTAG
66 GTATTTTAGTAATAAATTTAAACAAATTTTAG
48843254 TAAGTAATGTATTTAAGTAATTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
1 TAAGTAATGTATTTAAG--A--AATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAG
48843319 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
62 TAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
48843355 TAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTTAGTAAGTAA
1 TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTTAGTAAGTAA
48843419 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
65 TGTATTTTAGTAATAAATTTAAACAAATTTTAG
*
48843452 TAAGTAATTTATTT
1 TAAGTAATGTATTT
48843466 TAGTAAGTAA
Statistics
Matches: 202, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
96 4 0.02
97 102 0.50
99 1 0.00
101 95 0.47
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (97 bp):
TAAGTAATGTATTTAAGAAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTTAGTAAGTAAT
GTATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:48844847 original size:11 final size:11
Alignment explanation
Indices: 48844831--48844870 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
48844821 GATGATAATA
48844831 CATTAGTTACC
1 CATTAGTTACC
48844842 CATTAGTTACC
1 CATTAGTTACC
*
48844853 CACTAGTTACC
1 CATTAGTTACC
48844864 CA-TAGTT
1 CATTAGTT
48844871 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:48845416 original size:14 final size:14
Alignment explanation
Indices: 48845397--48845426 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
48845387 CACGAACAGC
48845397 AAGATGATTAACTA
1 AAGATGATTAACTA
48845411 AAGATGATTAACTA
1 AAGATGATTAACTA
48845425 AA
1 AA
48845427 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:48846772 original size:27 final size:27
Alignment explanation
Indices: 48846740--48846791 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
48846730 TCTTACTTTT
* *
48846740 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
*
48846767 AAATAAATAATTACTAACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
48846792 TTTGTTTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Done.