Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 310 of 320
Found at i:98857591 original size:18 final size:17
Alignment explanation
Indices: 98857567--98857610 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
98857557 AATTATGGGC
*
98857567 TTATAAATA-AATATTAA
1 TTATAAATATAAT-TAAA
98857584 TTATTAAATATAATTAAA
1 TTA-TAAATATAATTAAA
98857602 TTATAAATA
1 TTATAAATA
98857611 GACACTACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 9 0.38
18 12 0.50
19 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATAAATATAATTAAA
Found at i:98858048 original size:4 final size:4
Alignment explanation
Indices: 98858039--98858064 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
98858029 AGCTAATCTA
98858039 TTCT TTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TT
98858065 TTCTCTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTCT
Found at i:98861113 original size:21 final size:21
Alignment explanation
Indices: 98861056--98861115 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
98861046 TTGATACGTA
*
98861056 TTAATATTTTGATATAT-TATT
1 TTAATATTTTTATATATAT-TT
**
98861077 TTAA-A--TTTATCGATATTT
1 TTAATATTTTTATATATATTT
98861095 TTAATATTTTTATATATATTT
1 TTAATATTTTTATATATATTT
98861116 ATAGTCTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 1 0.03
21 15 0.50
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (21 bp):
TTAATATTTTTATATATATTT
Found at i:98861156 original size:42 final size:43
Alignment explanation
Indices: 98861105--98861199 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
98861095 TTAATATTTT
* * *
98861105 TATATATATTTATAGTCTCA-TATTTACTTTCTTGATAAATTA
1 TATATATATTTATAATCTCATTATTTAATTTCTTAATAAATTA
* *
98861147 TATATATATTTATAATCTTATTTTTTAATTTCTTAATAAATTA
1 TATATATATTTATAATCTCATTATTTAATTTCTTAATAAATTA
98861190 TATATTATAT
1 TATA-TATAT
98861200 ATGCATGCAA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 18 0.39
43 23 0.50
44 5 0.11
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (43 bp):
TATATATATTTATAATCTCATTATTTAATTTCTTAATAAATTA
Found at i:98861805 original size:2 final size:2
Alignment explanation
Indices: 98861793--98861822 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
98861783 ACATTCCATT
*
98861793 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
98861823 AACCAATCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:98871491 original size:37 final size:37
Alignment explanation
Indices: 98871430--98871649 Score: 381
Period size: 37 Copynumber: 6.0 Consensus size: 37
98871420 TACGTATGAT
* *
98871430 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
98871465 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
98871502 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
98871539 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
98871576 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
98871613 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
98871650 TAAAGCTATC
Statistics
Matches: 176, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
35 9 0.05
36 3 0.02
37 164 0.93
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:98871692 original size:52 final size:52
Alignment explanation
Indices: 98871613--98871979 Score: 461
Period size: 52 Copynumber: 7.2 Consensus size: 52
98871603 TAAGTGTAGC
* * **
98871613 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
98871666 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
98871718 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
98871764 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
98871816 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
98871862 CACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
98871914 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
98871966 CACTTTGTCACTTG
1 CACTTT-TCACTTG
98871980 ATCAGAAGTA
Statistics
Matches: 276, Mismatches: 25, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
46 83 0.30
49 1 0.00
52 177 0.64
53 15 0.05
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:98871779 original size:98 final size:98
Alignment explanation
Indices: 98871613--98871971 Score: 520
Period size: 98 Copynumber: 3.6 Consensus size: 98
98871603 TAAGTGTAGC
* * * *
98871613 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
98871678 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
98871711 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
** *
98871776 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
98871809 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
*
98871874 GTCACTTGATCAGATAAGTATAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
98871907 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTT
98871972 GTCACTTGAT
Statistics
Matches: 236, Mismatches: 19, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
98 192 0.81
100 1 0.00
104 43 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:98871980 original size:150 final size:144
Alignment explanation
Indices: 98871624--98871985 Score: 580
Period size: 150 Copynumber: 2.4 Consensus size: 144
98871614 ACTTATCACT
* *
98871624 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATC
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTGATC
*
98871689 AGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
60 AGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
98871754 TATTACTTATCACTTTCCAC
125 TATTACTTATCACTTTCCAC
98871774 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
*
98871839 GTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTATAGCCGAAGC
66 GTATAGCCGAAGCTATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCGAAGC
98871904 TATTACTTATCACTTTCCAC
125 TATTACTTATCACTTTCCAC
98871924 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
98871986 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
144 43 0.21
146 1 0.00
147 1 0.00
150 157 0.78
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (144 bp):
TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
GTATAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTAC
TTATCACTTTCCAC
Found at i:98881622 original size:21 final size:21
Alignment explanation
Indices: 98881596--98881635 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
98881586 TCTGCTCAAA
* *
98881596 CTCCACCTGTTTTGGAGTACG
1 CTCCACCTGCTGTGGAGTACG
98881617 CTCCACCTGCTGTGGAGTA
1 CTCCACCTGCTGTGGAGTA
98881636 TTGCTCGTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.30, G:0.25, T:0.30
Consensus pattern (21 bp):
CTCCACCTGCTGTGGAGTACG
Found at i:98885188 original size:50 final size:50
Alignment explanation
Indices: 98885064--98885312 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
98885054 GATAATAACA
* * ** * *
98885064 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
98885115 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * * *
98885165 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
98885215 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
98885270 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
98885313 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
49 1 0.01
50 90 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:98885239 original size:100 final size:105
Alignment explanation
Indices: 98885063--98885309 Score: 344
Period size: 100 Copynumber: 2.4 Consensus size: 105
98885053 TGATAATAAC
* **
98885063 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGATGGTGCCCATGCCATG
* *
98885128 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
98885165 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCGT-CTCGGTGCCCATGCCAT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGAT-GGTGCCCATGCCAT
98885227 GTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 GTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
98885270 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATC
98885310 TCTTTACCCA
Statistics
Matches: 128, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.39
101 35 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 35 0.27
107 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:98885428 original size:13 final size:13
Alignment explanation
Indices: 98885407--98885438 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
98885397 GCTTAGATCA
*
98885407 TCATCAAATAAAT
1 TCATAAAATAAAT
98885420 TCATAAAATAAAT
1 TCATAAAATAAAT
98885433 TCATAA
1 TCATAA
98885439 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:98885686 original size:30 final size:30
Alignment explanation
Indices: 98885650--98885707 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
98885640 CCTCGACTCT
* *
98885650 AACTTTTTCAAAATTATAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
98885680 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
98885708 AAGGCTCGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:98886273 original size:25 final size:25
Alignment explanation
Indices: 98886245--98886302 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
98886235 TGCTCTCTGT
98886245 TTCTTTCTCTGTTTC-GTCTCTTCTA
1 TTCTTTCTCT-TTTCTGTCTCTTCTA
* *
98886270 TTCTGTT-TCTTTTCTTTCTTTTCTA
1 TTCT-TTCTCTTTTCTGTCTCTTCTA
98886295 TTCTTTCT
1 TTCTTTCT
98886303 TTTGTTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (25 bp):
TTCTTTCTCTTTTCTGTCTCTTCTA
Found at i:98886292 original size:14 final size:14
Alignment explanation
Indices: 98886265--98886310 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
98886255 GTTTCGTCTC
98886265 TTCTATTCTGTTTCTT
1 TTCT-TTCT-TTTCTT
*
98886281 TTCTTTCTTTTCTA
1 TTCTTTCTTTTCTT
*
98886295 TTCTTTCTTTTGTT
1 TTCTTTCTTTTCTT
98886309 TT
1 TT
98886311 ATGTATATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 19 0.70
15 4 0.15
16 4 0.15
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTTCTTTTCTT
Found at i:98886346 original size:19 final size:19
Alignment explanation
Indices: 98886314--98886355 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
98886304 TTGTTTTATG
98886314 TATATATAATATAATATAA
1 TATATATAATATAATATAA
98886333 TATAT-TAATAATAATATAA
1 TATATATAAT-ATAATATAA
98886352 TATA
1 TATA
98886356 AAACATAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TATATATAATATAATATAA
Found at i:98886348 original size:24 final size:25
Alignment explanation
Indices: 98886319--98886387 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
98886309 TTATGTATAT
98886319 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATATATTAATCA
* *
98886343 ATAATATAATATAAAACA-TAATCA
1 ATAATATAATATAATATATTAATCA
* *
98886367 TTACTATAATATAATAATATT
1 ATAATATAATATAAT-ATATT
98886388 TCTTTAACAC
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.11
24 29 0.81
25 2 0.06
26 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
ATAATATAATATAATATATTAATCA
Found at i:98886382 original size:5 final size:5
Alignment explanation
Indices: 98886317--98886356 Score: 57
Period size: 5 Copynumber: 8.2 Consensus size: 5
98886307 TTTTATGTAT
98886317 ATATA ATATA ATATA ATAT- AT-TA ATAATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA ATATA A
98886357 AACATAATCA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.12
5 23 0.72
6 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:98897128 original size:20 final size:20
Alignment explanation
Indices: 98897105--98897142 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
98897095 AACTTCAAAT
98897105 TACATGTATATATATATAGA
1 TACATGTATATATATATAGA
* *
98897125 TACATGTGTATTTATATA
1 TACATGTATATATATATA
98897143 TATCAAATGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (20 bp):
TACATGTATATATATATAGA
Found at i:98914432 original size:15 final size:16
Alignment explanation
Indices: 98914406--98914436 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
98914396 TAATTATAAA
98914406 TAAATATTAAAATTTT
1 TAAATATTAAAATTTT
98914422 TAAAT-TTAAAATTTT
1 TAAATATTAAAATTTT
98914437 AAGTCCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATATTAAAATTTT
Found at i:98914438 original size:14 final size:14
Alignment explanation
Indices: 98914406--98914455 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
98914396 TAATTATAAA
98914406 TAAATATTAAAATTTT
1 TAAAT-TTAAAA-TTT
98914422 TAAATTTAAAATTT
1 TAAATTTAAAATTT
* **
98914436 TAAGTCCAAAATTT
1 TAAATTTAAAATTT
98914450 TAAATT
1 TAAATT
98914456 CGAGACATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
14 18 0.62
15 6 0.21
16 5 0.17
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (14 bp):
TAAATTTAAAATTT
Found at i:98915327 original size:32 final size:33
Alignment explanation
Indices: 98915254--98915327 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
98915244 ATATATATTA
*
98915254 TAATTTTCTCTTTTAACAACAACGCAAATATACTT
1 TAATTTTCTCTTTT-A-AACAACGCAAATATACAT
* * *
98915289 TTATTTTCTCTTTT-AACAACTCAAATATAGAT
1 TAATTTTCTCTTTTAAACAACGCAAATATACAT
98915321 TAATTTT
1 TAATTTT
98915328 TAAGAATCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 21 0.62
35 13 0.38
ACGTcount: A:0.35, C:0.16, G:0.03, T:0.46
Consensus pattern (33 bp):
TAATTTTCTCTTTTAAACAACGCAAATATACAT
Found at i:98922262 original size:13 final size:14
Alignment explanation
Indices: 98922246--98922281 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
98922236 CAATCTCATA
98922246 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
98922259 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
98922272 TCTC-ATTTCA
1 TCTCAATTTCA
98922282 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:98922271 original size:18 final size:19
Alignment explanation
Indices: 98922233--98922273 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
98922223 TGGTTCATGT
98922233 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
98922252 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
98922270 TTTC
1 TTTC
98922274 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:98922463 original size:39 final size:38
Alignment explanation
Indices: 98922396--98922530 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
98922386 ACCAATATGG
* * *
98922396 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTA-TCCGAAGAAATATTTGA
* * * *
98922435 CACCCAGTGTCTCATCGGCCTATCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTATCCGAAGAAATATTTGA
* * * * *
98922473 TACCCAATACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTATCCGAAGAAATAT-TTGA
*
98922514 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
98922531 ACTCGAGGTC
Statistics
Matches: 72, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
38 17 0.24
39 37 0.51
40 3 0.04
41 15 0.21
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTATCCGAAGAAATATTTGA
Found at i:98922796 original size:18 final size:19
Alignment explanation
Indices: 98922770--98922808 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
98922760 TTTCAATTCA
98922770 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
98922789 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
98922807 AT
1 AT
98922809 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:98924134 original size:5 final size:5
Alignment explanation
Indices: 98924124--98924176 Score: 70
Period size: 5 Copynumber: 10.0 Consensus size: 5
98924114 TTACTTATTT
*
98924124 ATATA ATATAA TATATA ATATA ATATA ATATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
98924172 ATATA
1 ATATA
98924177 TATTTTAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
5 32 0.74
6 7 0.16
7 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:98924140 original size:12 final size:12
Alignment explanation
Indices: 98924123--98924178 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
98924113 TTTACTTATT
98924123 TATATAATATAA
1 TATATAATATAA
98924135 TATATAATATAATA
1 TATATAATAT-A-A
98924149 TAATATAATATAA
1 T-ATATAATATAA
*
98924162 TA-ATAATTTAA
1 TATATAATATAA
98924173 TATATA
1 TATATA
98924179 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 14 0.36
13 3 0.08
14 3 0.08
15 9 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:98925581 original size:30 final size:30
Alignment explanation
Indices: 98925545--98925702 Score: 271
Period size: 30 Copynumber: 5.3 Consensus size: 30
98925535 ACTTTTCTCA
98925545 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
* *
98925575 ACTAGCCACACCTTTTCCACCACTAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
98925605 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
98925635 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
*
98925665 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCC
98925695 ACTAGCCA
1 ACTAGCCA
98925703 TGTAACACCC
Statistics
Matches: 119, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 119 1.00
ACGTcount: A:0.25, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCC
Found at i:98932927 original size:27 final size:25
Alignment explanation
Indices: 98932885--98933037 Score: 80
Period size: 25 Copynumber: 5.9 Consensus size: 25
98932875 ATTTTAAATT
98932885 CTATATTACGTGTATATATATTTTATA
1 CTATATTA--TGTATATATATTTTATA
* * *
98932912 CTATTTTATGTATATATCTTTAATA
1 CTATATTATGTATATATATTTTATA
* * *
98932937 TTATATTATTTATATATATATTTTTTTA
1 CTATATTA--TGTATATATA-TTTTATA
* * *
98932965 C-ATGTTATCTTATGTATATATCTTA-A
1 CTATATTAT-GTA--TATATATTTTATA
* * *
98932991 CTAAATTATGTATGTAT-TTTTAACA
1 CTATATTATGTATATATATTTT-ATA
*
98933016 CTATATTATGTACATAT-TTTTA
1 CTATATTATGTATATATATTTTA
98933038 ATATTATCAC
Statistics
Matches: 95, Mismatches: 22, Indels: 21
0.69 0.16 0.15
Matches are distributed among these distances:
23 3 0.03
24 6 0.06
25 41 0.43
26 6 0.06
27 28 0.29
28 11 0.12
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (25 bp):
CTATATTATGTATATATATTTTATA
Found at i:98932947 original size:30 final size:30
Alignment explanation
Indices: 98932907--98932988 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 30
98932897 TATATATATT
*
98932907 TTATACTATTTTATGTATATATCTTTAATA
1 TTATATTATTTTATGTATATATCTTTAATA
* **
98932937 TTATATTA-TTTATATATATAT-TTTTTTA
1 TTATATTATTTTATGTATATATCTTTAATA
* * *
98932965 -CATGTTATCTTATGTATATATCTT
1 TTATATTATTTTATGTATATATCTT
98932989 AACTAAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 5 0.12
28 16 0.38
29 14 0.33
30 7 0.17
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (30 bp):
TTATATTATTTTATGTATATATCTTTAATA
Found at i:98933216 original size:16 final size:15
Alignment explanation
Indices: 98933192--98933239 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
98933182 TAATTATTAT
*
98933192 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
98933208 TATTTTAATATTTTA
1 TATTTTAATATTTTA
98933223 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
98933239 T
1 T
98933240 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:98933227 original size:7 final size:8
Alignment explanation
Indices: 98933192--98933243 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
98933182 TAATTATTAT
*
98933192 TATTCTAA
1 TATTTTAA
*
98933200 TATTTTGA
1 TATTTTAA
98933208 TATTTTAA
1 TATTTTAA
98933216 TATTTT-A
1 TATTTTAA
98933223 TATTTTATA
1 TATTTTA-A
*
98933232 TATTTTAT
1 TATTTTAA
98933240 TATT
1 TATT
98933244 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:98945438 original size:108 final size:108
Alignment explanation
Indices: 98945245--98945461 Score: 398
Period size: 108 Copynumber: 2.0 Consensus size: 108
98945235 ATATTGATTC
98945245 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
1 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
* *
98945310 AATTGATTCAAGGGACTATTATGTCGTCTATCAAGTCTAATTA
66 AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
*
98945353 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAGTGGACGAATTAAGCAAAATAAGCA
1 ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
*
98945418 AATCGATTCAAGGGAATATTATGTTGTCTATCAAGTCTAATTA
66 AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
98945461 A
1 A
98945462 AGAGATACCT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (108 bp):
ACCTATTATCTAACATTTAACTAATATTAAGTTGCATAAAATGGACGAATTAAGCAAAATAAGCA
AATCGATTCAAGGGAATATTATGTCGTCTATCAAGTCTAATTA
Found at i:98954004 original size:130 final size:130
Alignment explanation
Indices: 98953709--98954198 Score: 455
Period size: 130 Copynumber: 3.8 Consensus size: 130
98953699 TAAAGACCTA
* * * * * * ** * * * *
98953709 AAGGAATACTCGATTGTTTTGAACAAACGAGAAATCACAACCCAGCACGATAAGGCATGATTCC-
1 AAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* * * * ** * * *
98953773 CGAATTGTCGAACACCGAGTATTGCCCTCGTTTTAAAGGATTTTTAGAAGAGC-CGAGTGAAATT
66 CGAATTGCCAAACACCAAATATCACCTTCGTTTT-AGGGA-TTTTAAAAGA-CACGAGTGAAATT
98953837 TTG
128 TTG
* * * * * * *
98953840 AAGGGGTATTTGATTATTTTAAAC-AATCGAGAAATTGCTACCCAACACGTTAGGGCACGATCCC
1 AAGGGATATTCGATTATTTTGAGCAAAT-GCGAAATTGCAACCCAACACGTTAGGGCACGATTCC
* * * * *
98953904 ACGAATTGCCAAATACCAGATATCGCCTTCGTTTTAGGGATTTTAAAAGACACGAGCGAAATTTT
65 GCGAATTGCCAAACACCAAATATCACCTTCGTTTTAGGGATTTTAAAAGACACGAGTGAAATTTT
*
98953969 A
130 G
* *
98953970 AAGTGATATTCGATTATTTTGAGCAAATGCGAAATCGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* * * * * * * * *
98954035 CGAATTGCCAAACATCAAATCTCATCTTCGTTTAAGGGATTTTAAAAGATATGAATGGAATTTCG
66 CGAATTGCCAAACACCAAATATCACCTTCGTTTTAGGGATTTTAAAAGACACGAGTGAAATTTTG
* *
98954100 AAGGGAAATTCAATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
* * * **
98954165 CGAATTGCAAAACATCAAATTTCGTCTTCGTTTT
66 CGAATTGCCAAACACCAAATATCACCTTCGTTTT
98954199 GAAGAATTTT
Statistics
Matches: 296, Mismatches: 59, Indels: 9
0.81 0.16 0.02
Matches are distributed among these distances:
129 1 0.00
130 216 0.73
131 53 0.18
132 26 0.09
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.28
Consensus pattern (130 bp):
AAGGGATATTCGATTATTTTGAGCAAATGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCG
CGAATTGCCAAACACCAAATATCACCTTCGTTTTAGGGATTTTAAAAGACACGAGTGAAATTTTG
Found at i:98954575 original size:17 final size:17
Alignment explanation
Indices: 98954553--98954590 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
98954543 GAAAAGTATT
* *
98954553 TTAAGATAAGAAATCTA
1 TTAAGATAAAAAATATA
98954570 TTAAGATAAAAAATATA
1 TTAAGATAAAAAATATA
98954587 TTAA
1 TTAA
98954591 TATATAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (17 bp):
TTAAGATAAAAAATATA
Found at i:98962105 original size:47 final size:47
Alignment explanation
Indices: 98961996--98962106 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
98961986 CCGGGATAAG
* * *
98961996 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
98962043 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
98962090 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
98962107 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:98965442 original size:18 final size:18
Alignment explanation
Indices: 98965419--98965479 Score: 61
Period size: 18 Copynumber: 3.2 Consensus size: 18
98965409 TATACATAAA
98965419 AATATAATAAATATATAT
1 AATATAATAAATATATAT
*
98965437 AATATAATATATACATAATAT
1 AATATAATA-A-ATAT-ATAT
*
98965458 AGTATTAA-AAATATATAT
1 AATA-TAATAAATATATAT
98965476 AATA
1 AATA
98965480 CATACACATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 16 0.46
19 4 0.11
20 4 0.11
21 8 0.23
22 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATAATAAATATATAT
Found at i:98965448 original size:37 final size:39
Alignment explanation
Indices: 98965405--98965479 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
98965395 TGATATTAAA
98965405 AATATATACATAA-A-AATA-TAATAAATATATATAATAT
1 AATATATACATAATATAATATTAA-AAATATATATAATAT
*
98965442 AATATATACATAATATAGTATTAAAAATATATATAATA
1 AATATATACATAATATAATATTAAAAATATATATAATA
98965480 CATACACATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
37 13 0.38
38 1 0.03
39 17 0.50
40 3 0.09
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (39 bp):
AATATATACATAATATAATATTAAAAATATATATAATAT
Found at i:98965456 original size:25 final size:24
Alignment explanation
Indices: 98965401--98965474 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
98965391 AGTGTGATAT
* *
98965401 TAAAAATATATACATAAAAATATAA
1 TAAATATATATA-ATAAATATATAA
98965426 TAAATATATATAATATAATATATACA
1 TAAATATATATAATA-AATATATA-A
98965452 T-AATATAGTATTAA-AAATATATA
1 TAAATATA-TA-TAATAAATATATA
98965475 TAATACATAC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 3 0.07
25 32 0.74
26 5 0.12
27 3 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (24 bp):
TAAATATATATAATAAATATATAA
Found at i:98965478 original size:23 final size:23
Alignment explanation
Indices: 98965405--98965479 Score: 75
Period size: 23 Copynumber: 3.2 Consensus size: 23
98965395 TGATATTAAA
*
98965405 AATATATACATAAAAATATA-AT
1 AATATATATATAAAAATATATAT
98965427 AA-ATATATATAATATAATATATACAT
1 AATATATATATAA-A-AATATAT--AT
98965453 AATATAGTAT-TAAAAATATATAT
1 AATATA-TATATAAAAATATATAT
98965476 AATA
1 AATA
98965480 CATACACATT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
21 9 0.20
22 3 0.07
23 12 0.27
25 7 0.16
26 5 0.11
27 6 0.13
28 3 0.07
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.36
Consensus pattern (23 bp):
AATATATATATAAAAATATATAT
Found at i:98965733 original size:24 final size:24
Alignment explanation
Indices: 98965666--98965722 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
98965656 TAGTAATTAT
* * * *
98965666 AATACTAATACTAATAATAAATAC
1 AATAATAATAGTAAAAATAAACAC
*
98965690 AATAATAGTAGTAAAAATAAACAC
1 AATAATAATAGTAAAAATAAACAC
98965714 AATAATAAT
1 AATAATAAT
98965723 CATGAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.61, C:0.09, G:0.04, T:0.26
Consensus pattern (24 bp):
AATAATAATAGTAAAAATAAACAC
Found at i:98966585 original size:11 final size:12
Alignment explanation
Indices: 98966564--98966597 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
98966554 TTCGAATAAT
98966564 AAAAGAAAAAAG
1 AAAAGAAAAAAG
98966576 AAAA-AAAAAAG
1 AAAAGAAAAAAG
98966587 AAAAGAAAAAA
1 AAAAGAAAAAA
98966598 CCTTAAGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:98976543 original size:16 final size:16
Alignment explanation
Indices: 98976524--98976554 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
98976514 CAAAGAGTAC
*
98976524 AACAGAAGAAGAATAT
1 AACAGAAGAAAAATAT
98976540 AACAGAAGAAAAATA
1 AACAGAAGAAAAATA
98976555 ATAAATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.16, T:0.10
Consensus pattern (16 bp):
AACAGAAGAAAAATAT
Found at i:98983128 original size:3 final size:3
Alignment explanation
Indices: 98983120--98983145 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
98983110 CCAACACTTG
98983120 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
98983146 ACAACAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:98987166 original size:44 final size:43
Alignment explanation
Indices: 98987093--98987181 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
98987083 CTGTTAATTC
* * *
98987093 AAAATAATGCTCCTAAGTATGAACCTAAACTGTTCATCCGAAAA
1 AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCC-AAAA
* * *
98987137 AAAATTATACTCCTAAGCATGAGCTTAAACTATTCATCCAAAA
1 AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCCAAAA
98987180 AA
1 AA
98987182 TGAAGCTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 6 0.15
44 33 0.85
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (43 bp):
AAAATAATACTCCTAAGCATGAACCTAAACTATTCATCCAAAA
Found at i:98994557 original size:16 final size:15
Alignment explanation
Indices: 98994536--98994583 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
98994526 GATGTGAATA
98994536 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
98994552 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
98994567 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
98994583 A
1 A
98994584 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:98994559 original size:24 final size:24
Alignment explanation
Indices: 98994532--98994587 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
98994522 TAATGATGTG
*
98994532 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
98994556 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
98994580 AATAATAA
1 AATAATAA
98994588 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:98994566 original size:8 final size:8
Alignment explanation
Indices: 98994532--98994583 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
98994522 TAATGATGTG
*
98994532 AATAATAA
1 AATATTAA
98994540 AATATATAA
1 AATAT-TAA
98994549 AATA-TAA
1 AATATTAA
98994556 AATATTAA
1 AATATTAA
*
98994564 AATATCAA
1 AATATTAA
*
98994572 AATATTAG
1 AATATTAA
98994580 AATA
1 AATA
98994584 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:98994765 original size:25 final size:25
Alignment explanation
Indices: 98994737--98994785 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
98994727 CGTGATAATA
**
98994737 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATACATACATAATATAGTG
98994762 TTAAAAATACATACATAATATAGT
1 TTAAAAATACATACATAATATAGT
98994786 TAAGATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (25 bp):
TTAAAAATACATACATAATATAGTG
Found at i:98994878 original size:27 final size:27
Alignment explanation
Indices: 98994772--98994883 Score: 72
Period size: 27 Copynumber: 4.2 Consensus size: 27
98994762 TTAAAAATAC
* * *
98994772 ATACATAATATAGT-TAAGATATATAC
1 ATACATAAAATAGTATAAAATATATAT
* *
98994798 ATGAGATAACAT-GTA-AAAA-ATATAT
1 AT-ACATAAAATAGTATAAAATATATAT
* * * *
98994823 ATATAT-AAATAATATAATATTAAAGATAT
1 ATACATAAAATAGTATAA-A--ATATATAT
98994852 ATACATAAAATAGTATAAAATATATAT
1 ATACATAAAATAGTATAAAATATATAT
98994879 ATACA
1 ATACA
98994884 CGTAATATAG
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
23 3 0.05
24 5 0.08
25 9 0.14
26 8 0.12
27 18 0.28
28 1 0.02
29 11 0.17
30 10 0.15
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.33
Consensus pattern (27 bp):
ATACATAAAATAGTATAAAATATATAT
Found at i:98994893 original size:29 final size:27
Alignment explanation
Indices: 98994743--98994893 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 27
98994733 AATATTAAAA
* * *
98994743 ATATGTACATAATATAGTGTTAAA-A-
1 ATATATACATAATATAGTATAAAATAT
* *
98994768 ATACATACATAATATAGT-TAAGATAT
1 ATATATACATAATATAGTATAAAATAT
* * * *
98994794 ATACATGAGATAACAT-GTAAAAAATATAT
1 ATATAT-ACATAATATAGT-ATAAA-ATAT
* * * *
98994823 ATATATAAATAATATAATAT-TAA-AG
1 ATATATACATAATATAGTATAAAATAT
*
98994848 ATATATACATAAAATAGTATAAAATAT
1 ATATATACATAATATAGTATAAAATAT
98994875 ATATATACACGTAATATAG
1 ATATATACA--TAATATAG
98994894 AATTTAAAAT
Statistics
Matches: 94, Mismatches: 21, Indels: 18
0.71 0.16 0.14
Matches are distributed among these distances:
24 3 0.03
25 35 0.37
26 11 0.12
27 18 0.19
28 10 0.11
29 17 0.18
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (27 bp):
ATATATACATAATATAGTATAAAATAT
Found at i:98994956 original size:23 final size:25
Alignment explanation
Indices: 98994913--98994958 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
98994903 TGTACCTAAT
98994913 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
98994938 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
98994959 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:98995482 original size:30 final size:29
Alignment explanation
Indices: 98995447--98995588 Score: 212
Period size: 30 Copynumber: 4.7 Consensus size: 29
98995437 GTACAAGTGA
98995447 TGGTGGAGAAAGTGTGGCTAGTGGAGTTGG
1 TGGTGGA-AAAGTGTGGCTAGTGGAGTTGG
*
98995477 TGGTGGAAAAAGAGTGGCTAGTGGAGTTGG
1 TGGTGG-AAAAGTGTGGCTAGTGGAGTTGG
98995507 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGG
1 TGGTGGAAAA-GTGTGGCTAGTGGAGTTGG
* *
98995537 TGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
1 TGGTGG-AAAAGTGTGGCTAGTGGAGTTGG
98995567 TGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGAAAA-GTGTGGCTAGT
98995589 TGAGAAAAGT
Statistics
Matches: 103, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
29 8 0.08
30 90 0.87
31 5 0.05
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.25
Consensus pattern (29 bp):
TGGTGGAAAAGTGTGGCTAGTGGAGTTGG
Found at i:98995537 original size:60 final size:60
Alignment explanation
Indices: 98995447--98995588 Score: 259
Period size: 60 Copynumber: 2.4 Consensus size: 60
98995437 GTACAAGTGA
*
98995447 TGGTGGAGAAA-GTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGG
1 TGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
98995507 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
1 TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
98995567 TGGTGGAAAAGGTGTGGCTAGT
1 TGGTGGAAAAGGTGTGGCTAGT
98995589 TGAGAAAAGT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
59 3 0.04
60 77 0.96
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.25
Consensus pattern (60 bp):
TGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTAG
Found at i:98996337 original size:73 final size:73
Alignment explanation
Indices: 98996209--98996667 Score: 625
Period size: 73 Copynumber: 6.2 Consensus size: 73
98996199 TAGACATTAA
* ** *
98996209 AAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTTAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
98996274 AATTTTTGAC
64 GATTTTTGAC
* *
98996284 AAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
98996349 TTTTTGAA
66 TTTTTGAC
* *
98996357 AAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
98996422 ATTTTTTTTAC
65 A--TTTTTGAC
* * **
98996433 GAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
98996498 GATTTTTGAC
64 GATTTTTGAC
* **
98996508 AAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
98996573 TTTTTGAC
66 TTTTTGAC
* * * *
98996581 AAACAGAAATTGAAATTACCTCAGCGTATTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
98996646 -TTTT-AA
66 TTTTTGAC
*
98996652 AAACAGAAATTAAAAA
1 AAACAGAAATTGAAAA
98996668 CCAGAAATTG
Statistics
Matches: 345, Mismatches: 34, Indels: 14
0.88 0.09 0.04
Matches are distributed among these distances:
71 15 0.04
72 4 0.01
73 157 0.46
74 52 0.15
75 66 0.19
76 14 0.04
77 37 0.11
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:98996666 original size:13 final size:14
Alignment explanation
Indices: 98996648--98996681 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
98996638 TGAGTTGATT
98996648 TTAAAAA-CAGAAA
1 TTAAAAACCAGAAA
98996661 TTAAAAACCAGAAA
1 TTAAAAACCAGAAA
*
98996675 TTGAAAA
1 TTAAAAA
98996682 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (14 bp):
TTAAAAACCAGAAA
Found at i:99005126 original size:15 final size:16
Alignment explanation
Indices: 99005101--99005131 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
99005091 GAGTATGGAT
99005101 ATGCAATGAATGAATG
1 ATGCAATGAATGAATG
99005117 ATGC-ATGAATGAATG
1 ATGCAATGAATGAATG
99005132 CATGAATGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
ATGCAATGAATGAATG
Found at i:99006710 original size:15 final size:14
Alignment explanation
Indices: 99006692--99006743 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
99006682 TAATGATGTG
99006692 AATAATAAATATATA
1 AATAATAAATAT-TA
99006707 AAT-ATAAATATTA
1 AATAATAAATATTA
99006720 AA-ATATCAAATATTA
1 AATA-AT-AAATATTA
99006735 GAATAATAA
1 -AATAATAA
99006744 TAATTAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 4 0.12
14 10 0.31
15 13 0.41
16 4 0.12
17 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AATAATAAATATTA
Found at i:99007035 original size:27 final size:25
Alignment explanation
Indices: 99006890--99007035 Score: 91
Period size: 25 Copynumber: 5.7 Consensus size: 25
99006880 TAATATTAAA
* *
99006890 ATATGTACATAATATAGTGTTAAAA-
1 ATATATACATAATATAGT-ATAAAAT
* *
99006915 ATACATACATAATTTAGT-TAAGATAT
1 ATATATACATAATATAGTATAA-A-AT
* * * *
99006941 ATACATAAGATAACAT-GTAAAAAAAT
1 ATATAT-ACATAATATAGT-ATAAAAT
* * * *
99006967 ATATATAAATAATATAATATTAAAG
1 ATATATACATAATATAGTATAAAAT
*
99006992 ATATATACATAAAATAGTATAAAAT
1 ATATATACATAATATAGTATAAAAT
99007017 ATATATACACGTAATATAG
1 ATATATACA--TAATATAG
99007036 AATTTAAAAT
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 56 0.61
26 16 0.17
27 14 0.15
28 2 0.02
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATATACATAATATAGTATAAAAT
Found at i:99007090 original size:24 final size:23
Alignment explanation
Indices: 99007055--99007099 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
99007045 TGTACCTAAT
99007055 ATATTAAAAAATATATATAATATA
1 ATATTAAAAAATATA-ATAATATA
*
99007079 ATATTAAGAAATATAATAATA
1 ATATTAAAAAATATAATAATA
99007100 ACAAAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTAAAAAATATAATAATATA
Found at i:99019346 original size:23 final size:23
Alignment explanation
Indices: 99019327--99019380 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
99019317 TGTATACACG
99019327 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
99019350 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
99019372 TAC-TAATAA
1 TACATAATAA
99019381 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:99019361 original size:3 final size:3
Alignment explanation
Indices: 99019330--99019400 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
99019320 ATACACGTAC
* * * *
99019330 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
99019377 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
99019401 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99019884 original size:11 final size:12
Alignment explanation
Indices: 99019864--99019901 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
99019854 AAAGAAAAAA
99019864 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
99019877 GAAGAGAGAAGG
1 GAAGAGAGAAGG
99019889 G-AGAGAGAAGG
1 GAAGAGAGAAGG
99019900 GA
1 GA
99019902 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:99020029 original size:6 final size:7
Alignment explanation
Indices: 99020012--99020036 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
99020002 AAAAAATATT
99020012 TTTTTTC
1 TTTTTTC
99020019 TTTTTTC
1 TTTTTTC
99020026 TTTTTTC
1 TTTTTTC
99020033 TTTT
1 TTTT
99020037 GCTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:99021024 original size:44 final size:44
Alignment explanation
Indices: 99020995--99022039 Score: 324
Period size: 44 Copynumber: 23.8 Consensus size: 44
99020985 CCTTTATTTT
* * *
99020995 AATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
*
99021039 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * *
99021083 AATCTGCTCCATTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** ** **
99021129 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021173 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATC-----T-A-CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTC
** * * *
99021227 AATCCGCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * **
99021271 AATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021315 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * **
99021361 GGTCTACTCCCCTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021405 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTAT-TTT
1 AATC-----T-A-CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTATCTTC
** * * *
99021459 AATCCGCTCCACTGTAA-CTTCAGAGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * **
99021503 AATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021547 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * * * * *
99021593 GGTCTACTCCCCTGTAACCTCAGGGTGATAAGA--CCTGA--TGC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* ** * *
99021634 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTACTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * *
99021673 ATTTTAAT-C-C-----TCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * **
99021710 AATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021754 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * * * * *
99021800 GGTCTACTCCCCTGTAACCTCAGGGTGATAAGA--CCTGA--TGC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* ** * *
99021841 GATCTACTCTGCTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTACTCCACTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * *
99021880 ATTTTAAT-C-C-----TCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * **
99021917 AATCTACTCCGCTGTAATCTCAGAGAGATAAGATCT-CTGGCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* * *
99021961 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTC
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * * *
99022007 GGTCTACTCCCCTGTAACCTCAGGGTGATAAGA
1 AATCTACTCCACTGTAATCTCAGGGAGATAAGA
99022040 CCTGATGCGA
Statistics
Matches: 759, Mismatches: 155, Indels: 172
0.70 0.14 0.16
Matches are distributed among these distances:
32 24 0.03
33 4 0.01
34 2 0.00
37 18 0.02
38 2 0.00
39 12 0.02
40 2 0.00
41 58 0.08
42 2 0.00
43 4 0.01
44 376 0.50
45 10 0.01
46 170 0.22
47 4 0.01
49 2 0.00
50 1 0.00
51 3 0.00
52 2 0.00
53 4 0.01
54 53 0.07
55 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTACTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
Found at i:99021364 original size:232 final size:219
Alignment explanation
Indices: 99021176--99022125 Score: 1518
Period size: 207 Copynumber: 4.4 Consensus size: 219
99021166 TGGCTTCAAT
*
99021176 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
*
99021241 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
99021306 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
* *
99021371 CCTGTAATCTCAGGGAGATAAGATCTCTGGCTTC
196 CCTGTAACCTCAGGGTGATAAGA----------C
*
99021405 AATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
1 ---CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCA
*
99021470 CTGTAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAG
63 CTGTAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAG
99021535 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
128 ATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTAC
99021600 TCCCCTGTAACCTCAGGGTGATAAGAC
193 TCCCCTGTAACCTCAGGGTGATAAGAC
*
99021627 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA-----T-C-C--
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
99021683 T--C-TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
99021745 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
99021810 CCTGTAACCTCAGGGTGATAAGAC
196 CCTGTAACCTCAGGGTGATAAGAC
*
99021834 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAA-----T-C-C--
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
99021890 T--C-TCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
99021952 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
99022017 CCTGTAACCTCAGGGTGATAAGAC
196 CCTGTAACCTCAGGGTGATAAGAC
*
99022041 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
99022106 TAA-TCTCAGGGAGATAGGAT
66 TAACT-TCAGGGAGATAGGAT
99022126 CTGAAATTCT
Statistics
Matches: 700, Mismatches: 5, Indels: 39
0.94 0.01 0.05
Matches are distributed among these distances:
207 408 0.58
208 1 0.00
210 1 0.00
212 2 0.00
213 2 0.00
214 2 0.00
216 1 0.00
219 66 0.09
222 1 0.00
232 216 0.31
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (219 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAACTTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
CCTGTAACCTCAGGGTGATAAGAC
Found at i:99021440 original size:142 final size:141
Alignment explanation
Indices: 99021272--99021552 Score: 334
Period size: 144 Copynumber: 2.0 Consensus size: 141
99021262 ACTAGCTTCA
** * *
99021272 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGGCTTCAATCTGCTCCACTGTAACCT
1 ATCTACTCTACTGTAACT-TCA-AGAGATAAGATCCT-TGACTTCAATCCGCTCCACTGTAACCT
* * ** *
99021335 CAGGGAGATAAGATCTGAA-ATTCTTCGGTCTACTCCCCTGTAATCTCAGGGAGATAAGATCTCT
63 CAGAGAGATAAGAT-T-AATA-GCTTCAATCTACTCCCCTGTAATCTCAGAGAGATAAGATCTCT
99021399 GGCTTCAATCTGATGTG
125 GGCTTCAATCTGATGTG
* * * *
99021416 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCTACTGTAACTTCA-AGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCA
* * *
99021481 GAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTT
65 GAGAGATAAGATTAATAGCTTCAATCTACTCCCCTGTAATCTCAGAGAGATAAGATCTCTGGCTT
99021546 CAATCTG
130 CAATCTG
99021553 CTCCACTGTA
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
142 51 0.43
143 2 0.02
144 62 0.53
145 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (141 bp):
ATCTACTCTACTGTAACTTCAAGAGATAAGATCCTTGACTTCAATCCGCTCCACTGTAACCTCAG
AGAGATAAGATTAATAGCTTCAATCTACTCCCCTGTAATCTCAGAGAGATAAGATCTCTGGCTTC
AATCTGATGTG
Found at i:99022153 original size:131 final size:131
Alignment explanation
Indices: 99021918--99022174 Score: 356
Period size: 131 Copynumber: 2.0 Consensus size: 131
99021908 ACTAGCTTCA
* *
99021918 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
* *
99021983 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCCCTGTAACCTCAGGGTGATAAGACCTGATGC
66 GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
99022048 G
131 G
* * * * *
99022049 ATCTACTCTGCTGTAA-CTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCACTGTAATCT
1 ATCTACTCCGCTGTAATC-TCAGAGAGATAAGATCTC-TGACTTCAATCCGCTCCACTGTAACCT
* * ** *
99022112 CAGGGAGATAGGATCTGAAATTCTTTGGTCTGTTCCACTGTAATCTCAGGGAGATAAGACCTG
64 CAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTG
99022175 TATAATAAAC
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
130 2 0.02
131 108 0.98
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (131 bp):
ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGACTTCAATCCGCTCCACTGTAACCTCA
GGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGC
G
Found at i:99033725 original size:23 final size:23
Alignment explanation
Indices: 99033706--99033759 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
99033696 TGTATACACG
99033706 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
99033729 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
99033751 TAC-TAATAA
1 TACATAATAA
99033760 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:99033740 original size:3 final size:3
Alignment explanation
Indices: 99033709--99033779 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
99033699 ATACACGTAC
* * * *
99033709 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
99033756 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
99033780 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:99034263 original size:13 final size:12
Alignment explanation
Indices: 99034245--99034282 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
99034235 AAGAAAAAAA
99034245 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
99034258 GAAGAGAGAAGG
1 GAAGAGAGAAGG
99034270 G-AGAGAGAAGG
1 GAAGAGAGAAGG
99034281 GA
1 GA
99034283 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:99034789 original size:8 final size:8
Alignment explanation
Indices: 99034776--99034800 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
99034766 GGTGTTCGGC
99034776 GCAAGTGG
1 GCAAGTGG
99034784 GCAAGTGG
1 GCAAGTGG
99034792 GCAAGTGG
1 GCAAGTGG
99034800 G
1 G
99034801 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:99039528 original size:20 final size:20
Alignment explanation
Indices: 99039498--99039536 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
99039488 TAAAAAAATT
99039498 ATAATTTTTATACTTATTTTA
1 ATAATTTTTATACTT-TTTTA
99039519 ATAA-TTTTATACTTTTTT
1 ATAATTTTTATACTTTTTT
99039537 GATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
ATAATTTTTATACTTTTTTA
Found at i:99051376 original size:6 final size:6
Alignment explanation
Indices: 99051365--99051395 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
99051355 TTTCCTTTCT
*
99051365 TCACCC TCACCC TCACCC TCACCC TCTCCC T
1 TCACCC TCACCC TCACCC TCACCC TCACCC T
99051396 TCATTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.13, C:0.65, G:0.00, T:0.23
Consensus pattern (6 bp):
TCACCC
Found at i:99054023 original size:14 final size:14
Alignment explanation
Indices: 99054004--99054031 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
99053994 CATTTGTCTC
99054004 TTTTGACACAAAAT
1 TTTTGACACAAAAT
99054018 TTTTGACACAAAAT
1 TTTTGACACAAAAT
99054032 CAGATATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (14 bp):
TTTTGACACAAAAT
Found at i:99056989 original size:47 final size:47
Alignment explanation
Indices: 99056880--99056990 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
99056870 CCGGGATAAG
*
99056880 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * * *
99056927 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
99056974 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
99056991 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:99057760 original size:4 final size:4
Alignment explanation
Indices: 99057751--99057827 Score: 64
Period size: 4 Copynumber: 18.8 Consensus size: 4
99057741 CCCTTTTCTA
** * * * **
99057751 TTTC TTTC TTTC TTTC TTTC TTTC TCAC GTTTGC TCTC TGTA ACTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC TTTC
*
99057801 TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
99057828 TTTTTAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
4 53 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.05, C:0.26, G:0.04, T:0.65
Consensus pattern (4 bp):
TTTC
Found at i:99062846 original size:18 final size:18
Alignment explanation
Indices: 99062825--99062911 Score: 129
Period size: 18 Copynumber: 4.8 Consensus size: 18
99062815 CGTTTACGAT
99062825 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* *
99062843 ACTATTTACGTATACGGT
1 ACTATTCACGTATACGGC
*
99062861 ACTATTCATGTATACGGC
1 ACTATTCACGTATACGGC
*
99062879 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
*
99062897 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
99062912 AGTAGTTGGG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:99062874 original size:36 final size:36
Alignment explanation
Indices: 99062819--99062911 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
99062809 TACGACCGTT
* *
99062819 TACGATACTATTCACGTATACGGCACTATTTACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
99062855 TACGGTACTATTCATGTATACGGCACTATTCACGTA
1 TACGGTACTATTCACGTATACGGCACTATTCACGTA
*
99062891 TACGGTACTGTTCACGTATAC
1 TACGGTACTATTCACGTATAC
99062912 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGCACTATTCACGTA
Found at i:99067117 original size:42 final size:42
Alignment explanation
Indices: 99067070--99067153 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
99067060 CATGGGATAA
99067070 TTGCAATTTTGGTCCCTAATTGTATAGGGACATTGCAAGTTG
1 TTGCAATTTTGGTCCCTAATTGTATAGGGACATTGCAAGTTG
99067112 TTGCAATTTTGGTCCCTAATTGTATAGGGACATTGCAAGTTG
1 TTGCAATTTTGGTCCCTAATTGTATAGGGACATTGCAAGTTG
99067154 ATCCTTAAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (42 bp):
TTGCAATTTTGGTCCCTAATTGTATAGGGACATTGCAAGTTG
Found at i:99080347 original size:20 final size:20
Alignment explanation
Indices: 99080322--99080364 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
99080312 AATGGTTTAA
99080322 AAATTA-ATTTAGTAATATTT
1 AAATTATATTTA-TAATATTT
*
99080342 AAATTATATTTATAATTTTT
1 AAATTATATTTATAATATTT
99080362 AAA
1 AAA
99080365 AAATGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTATATTTATAATATTT
Found at i:99083313 original size:17 final size:18
Alignment explanation
Indices: 99083278--99083315 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
99083268 TTTTTTTAGA
**
99083278 TTTACTTTTTTTTTGTTC
1 TTTACTTTTTGATTGTTC
99083296 TTTACTTTTTGATT-TTC
1 TTTACTTTTTGATTGTTC
99083313 TTT
1 TTT
99083316 TTATTTGCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (18 bp):
TTTACTTTTTGATTGTTC
Found at i:99084364 original size:114 final size:113
Alignment explanation
Indices: 99084233--99084677 Score: 655
Period size: 114 Copynumber: 3.9 Consensus size: 113
99084223 TTTTATAGTT
*
99084233 GATTAGGTTATATAAATTGTTAGTGTTTAGTAGTTTAGTGTATTAGTGTTATTGTGAATTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTG-TATTGTGAATTTTTTA
99084298 GTAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
65 GTAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
99084347 TATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTGTTAGTGTATTGT-AATTTTTTTA
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAA-TTTTTTA
* *
99084411 GTAATATATTTAAAAAAAATATTTTTACAGCTATTTTATTAGTAATTTAA
65 GTAATATATTT-AAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
99084461 GGTTAGGTTATATAAATTGTTAATGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAATTTTTTAG
*
99084526 TAATATATTTAAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTAAAAAA-ATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
99084575 GATTAAGTTA-AT--ATTGTTAGTGTTTAGTGGTTTAATGTGTATTAGTGTATTGTGATTTTTCT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTT-A-GTGTATTAGTGTATTGTGA---AT-T
* *
99084637 TTTTAGTAATGTATTTAAAAAAATAATTTTATAGTTATTTT
60 TTTTAGTAATATATTTAAAAAAATAATTTTATAGCTATTTT
99084678 GTGTTAGTAT
Statistics
Matches: 304, Mismatches: 17, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
111 20 0.07
112 3 0.01
113 51 0.17
114 188 0.62
115 1 0.00
116 19 0.06
117 22 0.07
ACGTcount: A:0.32, C:0.01, G:0.16, T:0.51
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGAATTTTTTAG
TAATATATTTAAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:99084702 original size:111 final size:106
Alignment explanation
Indices: 99084471--99084722 Score: 296
Period size: 111 Copynumber: 2.3 Consensus size: 106
99084461 GGTTAGGTTA
*
99084471 TATAAATTGTTAATGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
*
99084536 AAAAAATATATTTTTATAGCTATTTTATTAGTAATTTAAGAT
66 AAAAAATATAATTTTATAGCTATTTTATTAGTAA-TTAAGAT
99084578 TAAGTTAATATTGTTAGTGTTTAGTGGTTTAATGTGTATTAGTGTATTGTGATTTTTCTTTTTAG
1 T-A--TAA-ATTGTTAGTGTTTAGTGGTTT-A-GTGTATTAGTGTATTGTGA---TT-TTTTTAG
* * * *
99084643 TAATGTATTTAAAAAA-ATAATTTTATAGTTATTTTGTGTTAGT-A-TATGAT
56 TAATATATTTAAAAAATATAATTTTATAGCTA-TTT-TATTAGTAATTAAGAT
*
99084693 TATAAATTGTTAGTGTTTA-TAGTTTAGTGT
1 TATAAATTGTTAGTGTTTAGTGGTTTAGTGT
99084723 TTTGTGATTT
Statistics
Matches: 126, Mismatches: 7, Indels: 23
0.81 0.04 0.15
Matches are distributed among these distances:
107 1 0.01
108 5 0.04
109 1 0.01
110 8 0.06
111 34 0.27
112 4 0.03
113 19 0.15
114 1 0.01
115 6 0.05
116 15 0.12
117 26 0.21
118 6 0.05
ACGTcount: A:0.30, C:0.01, G:0.16, T:0.53
Consensus pattern (106 bp):
TATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAGTAATATATTT
AAAAAATATAATTTTATAGCTATTTTATTAGTAATTAAGAT
Found at i:99084764 original size:15 final size:16
Alignment explanation
Indices: 99084735--99084766 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
99084725 TGTGATTTTT
99084735 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
99084751 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
99084766 T
1 T
99084767 TATTATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:99086864 original size:33 final size:32
Alignment explanation
Indices: 99086827--99086904 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
99086817 CAGTACTCTG
*
99086827 CTCCTTCCGGCTCGTATCCACC-CATGTACTCAA
1 CTCCTTCCGGC-CGTATCCACCGC-CGTACTCAA
*
99086860 CTCC-TCCAGAGCCGTATCCACCGCCGTACTCTA
1 CTCCTTCC-G-GCCGTATCCACCGCCGTACTCAA
*
99086893 CTCCTCCCGGCC
1 CTCCTTCCGGCC
99086905 CATTTCCACC
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
32 6 0.16
33 27 0.71
34 5 0.13
ACGTcount: A:0.15, C:0.47, G:0.14, T:0.23
Consensus pattern (32 bp):
CTCCTTCCGGCCGTATCCACCGCCGTACTCAA
Found at i:99088836 original size:11 final size:11
Alignment explanation
Indices: 99088820--99088854 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
99088810 CCCTTCCCCC
99088820 CTCCCTTCTCT
1 CTCCCTTCTCT
99088831 CTCCCTTCTCT
1 CTCCCTTCTCT
99088842 CTTCCC-TCTCT
1 C-TCCCTTCTCT
99088853 CT
1 CT
99088855 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:99089343 original size:3 final size:3
Alignment explanation
Indices: 99089335--99089359 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
99089325 TGTATTTCAA
99089335 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
99089360 GTACATTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:99089450 original size:124 final size:127
Alignment explanation
Indices: 99089322--99089569 Score: 328
Period size: 124 Copynumber: 2.0 Consensus size: 127
99089312 ATATTACATT
* *
99089322 TTTTGTATTTCAATATTATTATTATTATTATTATTAT-TGT-ACATTAGTGTATA-TCTTCATGT
1 TTTTGTATTTCAATATTATTATTATTATTATTATTATAT-TAACATTACTATATATTCTT-AT-T
* * * *
99089384 -ATGTATATATATATGTAGTAATGTTTTT-ATTACTTTATTTTAATAT-TTTTTATTATAATAGC
63 AATGTATATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
*
99089446 TTTTGTATTTCAATATTATTATTATTTTTATTATTATCATTAACATTACTATATATTCTTATTAG
1 TTTTGTATTTCAATATTATTATTATTATTATTATTAT-ATTAACATTACTATATATTCTTATTA-
* *
99089511 ATGTATATATACATATATTACTGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
64 ATGTATATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATA
99089570 TTTACTTTTT
Statistics
Matches: 107, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
124 36 0.34
125 2 0.02
126 14 0.13
127 28 0.26
128 17 0.16
129 10 0.09
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (127 bp):
TTTTGTATTTCAATATTATTATTATTATTATTATTATATTAACATTACTATATATTCTTATTAAT
GTATATATACATATAGTAATGTTTTTAATGACTTTATTTTAATATCATTTTATTATAATAGC
Found at i:99103020 original size:43 final size:43
Alignment explanation
Indices: 99102971--99103297 Score: 146
Period size: 43 Copynumber: 7.4 Consensus size: 43
99102961 GAAGCAGGTC
*
99102971 GAAGACATAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* ** * * * *
99103014 GAAGACAAAAGATCTTG-C-CTTTCTGCAT-TGACAGCGAAGCAGATC
1 GAAGACAAAA-ACCTTGCCTCTTTC-GGTTGTGATA--G-AGCTGGTT
*
99103059 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * *** ** * * *
99103102 GAAGACAAAAGATCTTGCCTTCCTAC-ATTAACAGCGAAGCAGATC
1 GAAGACAAAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
* * *
99103147 GAAGACACAAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * ** * * *
99103190 GAAGAAAAAAGATCTTG-CT-TTCCTGCAT-TGACAGCGAAGCAGGTC
1 GAAGACAAAA-ACCTTGCCTCTTTC-GGTTGTGATA--G-AGCTGGTT
* * * *
99103235 GAAAAGACAAACCTTGCCTCTCTCGGTTGTGATAGAGCTGGTT
1 GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
*
99103278 GAAGACAAAAGATCTTGCCT
1 GAAGACAAAA-ACCTTGCCT
99103298 TCCTACATTA
Statistics
Matches: 194, Mismatches: 69, Indels: 41
0.64 0.23 0.13
Matches are distributed among these distances:
42 14 0.07
43 59 0.30
44 54 0.28
45 52 0.27
46 15 0.08
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (43 bp):
GAAGACAAAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:99103082 original size:88 final size:88
Alignment explanation
Indices: 99102933--99103544 Score: 842
Period size: 88 Copynumber: 7.0 Consensus size: 88
99102923 CAATGAAGTT
* * * * *
99102933 AAAGATCTTGCCTTCCTGCATTGATAGTGAAGCAGGTCGAAGACATAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
99102998 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
* *
99103021 AAAGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
99103086 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
* *
99103109 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
* *
99103174 TGTGATGGAGCTGGTTGAAGAAA
66 TGTGATAGAGCTGGTTGAAGACA
* * * *
99103197 AAAGATCTTGCTTTCCTGCATTGACAGCGAAGCAGGTCGAAAAGACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
99103262 TGTGATAGAGCTGGTTGAAGACA
66 TGTGATAGAGCTGGTTGAAGACA
* *
99103285 AAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
* *
99103350 TGTGATGGAGCTGGTTGAAGAAAA
66 TGTGATAGAGCTGGTTGAAG-ACA
* *
99103374 AAAGATCTTGCTTTCCTGCATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTCTCTCGA
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTCTCG-
*
99103437 G-TGTAGA-AGAGTTGGTTGAAGACA
64 GTTGT-GATAGAGCTGGTTGAAGACA
** * ** * * * *
99103461 ACTGATTTTATCTTCCTGCGTTGACAGTGAAGCAGGTCGAAG--ACAAACCTTACCTCTCTCGGT
1 AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
*
99103524 TGT-AGTGGAGCTGGTTGAAGA
66 TGTGA-TAGAGCTGGTTGAAGA
99103545 ATTGCAGATC
Statistics
Matches: 471, Mismatches: 45, Indels: 18
0.88 0.08 0.03
Matches are distributed among these distances:
84 1 0.00
85 1 0.00
86 29 0.06
87 43 0.09
88 353 0.75
89 44 0.09
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (88 bp):
AAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGT
TGTGATAGAGCTGGTTGAAGACA
Found at i:99105313 original size:3 final size:3
Alignment explanation
Indices: 99105305--99105340 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
99105295 TAAAGTTGAC
* *
99105305 ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
99105341 GCTTTTATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:99105710 original size:15 final size:16
Alignment explanation
Indices: 99105690--99105722 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
99105680 CACCTATATA
99105690 TATATATA-CATATTT
1 TATATATAGCATATTT
99105705 TATATATATGCATATTT
1 TATATATA-GCATATTT
99105722 T
1 T
99105723 TCTTCTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATATAGCATATTT
Found at i:99105710 original size:17 final size:17
Alignment explanation
Indices: 99105688--99105722 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
99105678 TACACCTATA
99105688 TATATATATACATATTT
1 TATATATATACATATTT
*
99105705 TATATATATGCATATTT
1 TATATATATACATATTT
99105722 T
1 T
99105723 TCTTCTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (17 bp):
TATATATATACATATTT
Found at i:99110419 original size:27 final size:27
Alignment explanation
Indices: 99110389--99110451 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
99110379 CCTACCAAAA
*
99110389 AGGCACAACTAGTCGTGCCTGTCAGAT
1 AGGCACAACTAGTCGCGCCTGTCAGAT
* *
99110416 AGGCTCAACTAGTTGCGCCTGTCAGAT
1 AGGCACAACTAGTCGCGCCTGTCAGAT
*
99110443 AGGCGCAAC
1 AGGCACAAC
99110452 ATGTATGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.25, C:0.27, G:0.27, T:0.21
Consensus pattern (27 bp):
AGGCACAACTAGTCGCGCCTGTCAGAT
Found at i:99118227 original size:21 final size:21
Alignment explanation
Indices: 99118201--99118241 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
99118191 AGACGAGCAA
* *
99118201 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
99118222 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
99118242 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:99126845 original size:10 final size:10
Alignment explanation
Indices: 99126830--99126866 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
99126820 CTCTCATTTC
99126830 TTTTTTCAAT
1 TTTTTTCAAT
99126840 TTTTTTCAAT
1 TTTTTTCAAT
*
99126850 TTTTTTCATT
1 TTTTTTCAAT
99126860 TTTTTTC
1 TTTTTTC
99126867 CTTATCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTCAAT
Found at i:99127880 original size:27 final size:28
Alignment explanation
Indices: 99127846--99127906 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
99127836 GATTTCACTT
* *
99127846 AATTAAATTA-ACTTTTAAT-TTTGTAA
1 AATTAAAATATACTTTTAATATTTATAA
* *
99127872 TATTAAAATATAGTTTTAATATTTATAA
1 AATTAAAATATACTTTTAATATTTATAA
99127900 AATTAAA
1 AATTAAA
99127907 TTTATATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.29
27 8 0.29
28 12 0.43
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (28 bp):
AATTAAAATATACTTTTAATATTTATAA
Found at i:99131100 original size:22 final size:22
Alignment explanation
Indices: 99131074--99131123 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
99131064 TAGTAAACAA
*
99131074 ATATATAAATATAAATAAATATTT
1 ATATA-AAATA-AAATAAAAATTT
99131098 ATATAAAATAAAATAAAAATTT
1 ATATAAAATAAAATAAAAATTT
99131120 ATAT
1 ATAT
99131124 TTAAATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 15 0.60
23 5 0.20
24 5 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATAAAATAAAATAAAAATTT
Found at i:99131112 original size:18 final size:18
Alignment explanation
Indices: 99131067--99131109 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
99131057 AACATGTTAG
*
99131067 TAAACAAATATATAAATA
1 TAAATAAATATATAAATA
* *
99131085 TAAATAAATATTTATATA
1 TAAATAAATATATAAATA
99131103 -AAATAAA
1 TAAATAAA
99131110 ATAAAAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATAAATATATAAATA
Found at i:99131174 original size:24 final size:23
Alignment explanation
Indices: 99131131--99131181 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
99131121 TATTTAAATT
* *
99131131 ATTAGATATGAAAAACTAATATG
1 ATTAGATACGAAAAACTAATAAG
*
99131154 ATTAGATACGAAAAAATTAATAAG
1 ATTAGATACG-AAAAACTAATAAG
99131178 ATTA
1 ATTA
99131182 TGAAAACTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (23 bp):
ATTAGATACGAAAAACTAATAAG
Found at i:99131801 original size:33 final size:33
Alignment explanation
Indices: 99131764--99131830 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
99131754 TTGAACTTGC
99131764 ATCCCCCTACAAGCAAGGTAAGATTTCAAGCTT
1 ATCCCCCTACAAGCAAGGTAAGATTTCAAGCTT
*
99131797 ATCCCCCTACACGCAAGGTAAGATTTCAAGCTT
1 ATCCCCCTACAAGCAAGGTAAGATTTCAAGCTT
99131830 A
1 A
99131831 GTATCACTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (33 bp):
ATCCCCCTACAAGCAAGGTAAGATTTCAAGCTT
Found at i:99132143 original size:22 final size:22
Alignment explanation
Indices: 99132115--99132159 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
99132105 AGGATATTGA
99132115 ATTTCTTATTATTTTACTCAAC
1 ATTTCTTATTATTTTACTCAAC
99132137 ATTTCTTATTATTTTACTCAAC
1 ATTTCTTATTATTTTACTCAAC
99132159 A
1 A
99132160 AAAGTAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTCTTATTATTTTACTCAAC
Found at i:99135198 original size:22 final size:21
Alignment explanation
Indices: 99135155--99135198 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
99135145 TCTTGATATA
*
99135155 ATTTTTAAAAATTTTATATTT
1 ATTTTTAAAAATTTCATATTT
*
99135176 ATTTTTATAAAATTTCATTTTT
1 ATTTTTA-AAAATTTCATATTT
99135198 A
1 A
99135199 AGTTATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTAAAAATTTCATATTT
Found at i:99139546 original size:22 final size:23
Alignment explanation
Indices: 99139518--99139571 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
99139508 ACAAACGAAT
*
99139518 AGAGAGCACTA-AAGTGCTATAC
1 AGAGAGCACTAGAAGTGCTAAAC
* *
99139540 AGAGAGCAC-AGATGTGTTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
99139562 AGAGAGCACT
1 AGAGAGCACT
99139572 TAACATGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 26 0.96
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.17
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:99140762 original size:7 final size:7
Alignment explanation
Indices: 99140752--99140846 Score: 58
Period size: 7 Copynumber: 14.1 Consensus size: 7
99140742 ACTTTATGTT
99140752 TTATATA
1 TTATATA
99140759 -T-TATA
1 TTATATA
99140764 TTATATA
1 TTATATA
*
99140771 TAATATA
1 TTATATA
*
99140778 ATA-ATA
1 TTATATA
*
99140784 TAATATA
1 TTATATA
99140791 TTATATA
1 TTATATA
99140798 TTA-ATA
1 TTATATA
*
99140804 CTTAAATA
1 -TTATATA
99140812 TTA-AGT-
1 TTATA-TA
*
99140818 TAATATA
1 TTATATA
*
99140825 ATATATA
1 TTATATA
*
99140832 ATATATA
1 TTATATA
*
99140839 TTTTATA
1 TTATATA
99140846 T
1 T
99140847 AAAAAATATC
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.06
6 13 0.19
7 49 0.71
8 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:99142650 original size:55 final size:53
Alignment explanation
Indices: 99142563--99142866 Score: 277
Period size: 49 Copynumber: 5.8 Consensus size: 53
99142553 ATTAGGGTTT
* *
99142563 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGACAA-TGGTAA-GTTTCTAAGGC
* * * * * *
99142618 AAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAGTT--TCTAAGGC
* * * * *
99142673 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGACATTGGTGAG-TTCTTAAGGC
1 -AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAGTTTC-TAAGGC
* * * *
99142726 AAGGATACCATGTAAGACCATGTCGAGACATGGCCATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAGTTTCTAAGGC
* * *
99142775 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAGTTTCTAAGGC
* * *
99142824 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAG
99142867 GTACCCGCGT
Statistics
Matches: 215, Mismatches: 28, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
49 87 0.40
52 7 0.03
53 39 0.18
54 9 0.04
55 69 0.32
56 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGACAAGACATGACAATGGTAAGTTTCTAAGGC
Found at i:99143079 original size:16 final size:16
Alignment explanation
Indices: 99143058--99143088 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99143048 ATAAATTTGA
99143058 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
99143074 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
99143089 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:99145460 original size:46 final size:46
Alignment explanation
Indices: 99145408--99145727 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
99145398 AGTGTGCTCT
* * * *
99145408 CTGATATGATATGTGTAAGACCATGGTTGAAAGATATCATGGCGAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99145454 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99145500 CTGATATGAAATGTGTAAGACTATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
99145546 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** * *
99145592 ATGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
99145638 GTGACATGAAATGAATAAGACCATGGTTAAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
99145684 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
99145728 TCATGTCAAA
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 247 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:99146032 original size:16 final size:17
Alignment explanation
Indices: 99146013--99146045 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99146003 ATGATGGAGC
99146013 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
99146029 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
99146046 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:99156996 original size:20 final size:19
Alignment explanation
Indices: 99156964--99157001 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
99156954 TGGTAATTAC
99156964 TTAAGTTGTAATTCGATTTT
1 TTAAGTTGTAATTC-ATTTT
99156984 TTAAGTT-TAAATTCATTT
1 TTAAGTTGT-AATTCATTT
99157002 ATAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
TTAAGTTGTAATTCATTTT
Found at i:99162418 original size:12 final size:12
Alignment explanation
Indices: 99162401--99162448 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
99162391 AAGCTGCTCA
99162401 TATTAGTTGTTT
1 TATTAGTTGTTT
*
99162413 TATTAGTTATTCT
1 TATTAGTTGTT-T
* *
99162426 TGTTAGCTGTTT
1 TATTAGTTGTTT
99162438 TATTAGTTGTT
1 TATTAGTTGTT
99162449 AATGATGTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
12 20 0.69
13 9 0.31
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (12 bp):
TATTAGTTGTTT
Found at i:99175287 original size:18 final size:18
Alignment explanation
Indices: 99175264--99175338 Score: 123
Period size: 18 Copynumber: 4.2 Consensus size: 18
99175254 CCCAACTACT
*
99175264 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
99175282 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
99175300 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
99175318 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
99175336 GTA
1 GTA
99175339 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 52 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:99176268 original size:23 final size:26
Alignment explanation
Indices: 99176229--99176284 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 26
99176219 ACAATTTGGC
*
99176229 CTTTAA-ACTCT-ATTTTTT-TTTCA
1 CTTTAATACTCTAATTTTTTGTCTCA
99176252 CTTTAATACT-TAATTTTTTGTCTCA
1 CTTTAATACTCTAATTTTTTGTCTCA
*
99176277 TTTTAATA
1 CTTTAATA
99176285 TTTGAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.25
24 10 0.36
25 11 0.39
ACGTcount: A:0.25, C:0.14, G:0.02, T:0.59
Consensus pattern (26 bp):
CTTTAATACTCTAATTTTTTGTCTCA
Found at i:99176458 original size:20 final size:20
Alignment explanation
Indices: 99176425--99176463 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
99176415 CTAAAATGAG
99176425 AAAAAAAAAGTATT-AAAGT
1 AAAAAAAAAGTATTCAAAGT
*
99176444 AAAAAAATAGATATTCAAAG
1 AAAAAAAAAG-TATTCAAAG
99176464 ATCAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.10, T:0.21
Consensus pattern (20 bp):
AAAAAAAAAGTATTCAAAGT
Found at i:99177452 original size:7 final size:7
Alignment explanation
Indices: 99177434--99177466 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
99177424 TTACATATAA
99177434 TAAAATT
1 TAAAATT
99177441 T-AAATT
1 TAAAATT
99177447 TAAAATAT
1 TAAAAT-T
99177455 TAAAATT
1 TAAAATT
99177462 TAAAA
1 TAAAA
99177467 ATATTAAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
7 11 0.46
8 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TAAAATT
Found at i:99177469 original size:16 final size:15
Alignment explanation
Indices: 99177434--99177474 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
99177424 TTACATATAA
99177434 TAAAAT-TT-AAATT
1 TAAAATATTAAAATT
99177447 TAAAATATTAAAATT
1 TAAAATATTAAAATT
99177462 TAAAAATATTAAA
1 T-AAAATATTAAA
99177475 CTTACCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 6 0.24
14 2 0.08
15 6 0.24
16 11 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAAATATTAAAATT
Found at i:99177973 original size:14 final size:14
Alignment explanation
Indices: 99177954--99177983 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
99177944 GATGCATCAT
99177954 CACTTTCCACCATG
1 CACTTTCCACCATG
99177968 CACTTTCCACCATG
1 CACTTTCCACCATG
99177982 CA
1 CA
99177984 AAAATAATCT
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:0.23, C:0.43, G:0.07, T:0.27
Consensus pattern (14 bp):
CACTTTCCACCATG
Done.