Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009591.1 Hibiscus syriacus cultivar Beakdansim tig00116970_pilon, whole genome shotgun sequence
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: 2451160
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 11
Found at i:2117631 original size:2 final size:2
Alignment explanation
Indices: 2117624--2117658 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2117614 TAGAAGTGAA
2117624 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2117659 AGTATGAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2121281 original size:19 final size:19
Alignment explanation
Indices: 2121257--2121325 Score: 129
Period size: 19 Copynumber: 3.6 Consensus size: 19
2121247 GAATGCAAGT
2121257 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
2121276 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
2121295 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
2121314 AGTGTATCGATG
1 AGTGCATCGATG
2121326 TACCCCCTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.23
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:2122774 original size:20 final size:20
Alignment explanation
Indices: 2122734--2122772 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
2122724 TATTGCAGGA
*
2122734 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCAACAAAAG
2122754 ATTTCATGGCCTCAACAAA
1 ATTT-ATGGCCTCAACAAA
2122773 GACCTTGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (20 bp):
ATTTATGGCCTCAACAAAAG
Found at i:2132005 original size:3 final size:3
Alignment explanation
Indices: 2131999--2132075 Score: 59
Period size: 3 Copynumber: 25.3 Consensus size: 3
2131989 TATAGTTTTG
* * * * *
2131999 TAT TAT TAT TAT TAT TAT TAT TAT T-C TAT TTT TAT ATAC TCT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
*
2132044 TCT TACT T-T TATT TAT TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TA-T TAT TAT TAT TAT TAT TAT T
2132076 CATATTCTAC
Statistics
Matches: 57, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
2 3 0.05
3 47 0.82
4 7 0.12
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2132327 original size:2 final size:2
Alignment explanation
Indices: 2132322--2132369 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
2132312 TTTTTTTAAT
2132322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2132362 TA TA TA TA
1 TA TA TA TA
2132370 CTTTTATTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2132380 original size:16 final size:16
Alignment explanation
Indices: 2132320--2132382 Score: 76
Period size: 16 Copynumber: 3.9 Consensus size: 16
2132310 GTTTTTTTTA
2132320 ATTATATA-TATATAT
1 ATTATATATTATATAT
2132335 ATATATATATATATATAT
1 AT-TATATAT-TATATAT
2132353 ATTATATATTATATAT
1 ATTATATATTATATAT
*
2132369 ACTTTTAT-TTATAT
1 A-TTATATATTATAT
2132383 GCATATACAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
15 2 0.05
16 20 0.47
17 12 0.28
18 9 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTATATATTATATAT
Found at i:2132476 original size:26 final size:26
Alignment explanation
Indices: 2132412--2132476 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
2132402 TCACTAACTT
* *
2132412 TTTTATTCTTTATTTATTTTGCTTTA
1 TTTTATTCTTTTTTTATTTTGCCTTA
*
2132438 TTTTATTTGTTTTTTTATTTT-CCTTA
1 TTTTA-TTCTTTTTTTATTTTGCCTTA
*
2132464 TTTTATTCATTTT
1 TTTTATTCTTTTT
2132477 CACTTTTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 6 0.18
26 14 0.42
27 13 0.39
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTATTCTTTTTTTATTTTGCCTTA
Found at i:2136893 original size:7 final size:7
Alignment explanation
Indices: 2136877--2136938 Score: 54
Period size: 7 Copynumber: 8.6 Consensus size: 7
2136867 AGATTCAATC
*
2136877 AAAAACA
1 AAAAAGA
2136884 AAAAAGA
1 AAAAAGA
2136891 AAAGAAGCA
1 AAA-AAG-A
2136900 AAAAAGA
1 AAAAAGA
*
2136907 AAAAA-C
1 AAAAAGA
* *
2136913 AAGAACA
1 AAAAAGA
2136920 AAAAAGA
1 AAAAAGA
2136927 AAAAAGCA
1 AAAAAG-A
2136935 AAAA
1 AAAA
2136939 TCAAAAGGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
6 4 0.09
7 26 0.58
8 11 0.24
9 4 0.09
ACGTcount: A:0.81, C:0.08, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:2136944 original size:21 final size:22
Alignment explanation
Indices: 2136873--2136944 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 22
2136863 GCGAAGATTC
* *
2136873 AATC-AAAAACAAAAAAGAAAA
1 AATCAAAAAAGAAAAAAGCAAA
* *
2136894 GAAGCAAAAAAGAAAAAA-CAAG
1 -AATCAAAAAAGAAAAAAGCAAA
2136916 AA-CAAAAAAGAAAAAAGCAAA
1 AATCAAAAAAGAAAAAAGCAAA
2136937 AATCAAAA
1 AATCAAAA
2136945 GGAAAAGGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
20 14 0.33
21 7 0.17
22 10 0.24
23 11 0.26
ACGTcount: A:0.78, C:0.10, G:0.10, T:0.03
Consensus pattern (22 bp):
AATCAAAAAAGAAAAAAGCAAA
Found at i:2137587 original size:22 final size:22
Alignment explanation
Indices: 2137559--2137609 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
2137549 CCCCATCAAT
*
2137559 CCTTTGATCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
* *
2137581 CCTTTGAGCATCAAATGCGAAA
1 CCTTTGAGCATCAAATACCAAA
2137603 CCTTTGA
1 CCTTTGA
2137610 CCAAACACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:2138854 original size:14 final size:14
Alignment explanation
Indices: 2138835--2138861 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2138825 GATCAGAACT
2138835 TCAAGATTCCAGAG
1 TCAAGATTCCAGAG
2138849 TCAAGATTCCAGA
1 TCAAGATTCCAGA
2138862 CATGCAATCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (14 bp):
TCAAGATTCCAGAG
Found at i:2139401 original size:106 final size:106
Alignment explanation
Indices: 2139279--2139598 Score: 509
Period size: 106 Copynumber: 3.0 Consensus size: 106
2139269 ATCGTACCAT
* *
2139279 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGACAACAAACAACTTCCCAA
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
*
2139344 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGAC
2139385 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
*
2139450 TTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTAGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGAC
* ** * *
2139491 TCGAGACAATGCAAGTTCAACTTCACAACGAAGGGACGGTTGGTTGTCAACAAACAATTTCCCAG
1 TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
* *
2139556 TTCCAGAACCAATTTCAACTTCAC-GAC-AGAGGATATTAGAC
66 TTTCAGAGCCAATTTCAACTTCACAG-CGA-AGGATATTAGAC
2139597 TC
1 TC
2139599 GAAACAATAC
Statistics
Matches: 200, Mismatches: 12, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
105 2 0.01
106 198 0.99
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
TCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAGAC
Found at i:2141496 original size:3 final size:3
Alignment explanation
Indices: 2141490--2141555 Score: 62
Period size: 3 Copynumber: 21.3 Consensus size: 3
2141480 TTATAGTTTG
* * * *
2141490 TAT TAT TAT TAT TAT TAT TAT T-C TAT TTT TAT ATAC TCT TACT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TA-T TA-T
2141537 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
2141556 CATATTCTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 1 0.02
3 42 0.82
4 8 0.16
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:2141569 original size:38 final size:38
Alignment explanation
Indices: 2141498--2141578 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 38
2141488 TGTATTATTA
*
2141498 TTATTATTATTATTCTATTTTTATATACTCTTACTTAT
1 TTATTATTATTATTCTATTTTCATATACTCTTACTTAT
*
2141536 TTATTATTATTA-T-TATTATTCATATTCTACTTACTTAT
1 TTATTATTATTATTCTATT-TTCATATACT-CTTACTTAT
*
2141574 ATATT
1 TTATT
2141579 TATATATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 4 0.11
37 9 0.24
38 25 0.66
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (38 bp):
TTATTATTATTATTCTATTTTCATATACTCTTACTTAT
Found at i:2141943 original size:18 final size:18
Alignment explanation
Indices: 2141896--2141945 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
2141886 GTTCACTTAC
2141896 TTTTTTATTCTTTATTTATT
1 TTTTTTA-T-TTTATTTATT
* *
2141916 TTGCTTTATTTTATTTGTT
1 TT-TTTTATTTTATTTATT
2141935 TTTTTTATTTT
1 TTTTTTATTTT
2141946 CCTTATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
20 3 0.12
21 4 0.15
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTTATTTATT
Found at i:2141963 original size:27 final size:27
Alignment explanation
Indices: 2141898--2141963 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
2141888 TCACTTACTT
*
2141898 TTTTATTC-TTTATTTATTTTGCTTTA
1 TTTTATTCTTTTATTTATTTTGCCTTA
* *
2141924 TTTTATTTGTTTTTTTTATTTT-CCTTA
1 TTTTA-TTCTTTTATTTATTTTGCCTTA
2141951 TTTTATTCATTTT
1 TTTTATTC-TTTT
2141964 CACTTTTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 7 0.21
27 15 0.45
28 11 0.33
ACGTcount: A:0.14, C:0.08, G:0.03, T:0.76
Consensus pattern (27 bp):
TTTTATTCTTTTATTTATTTTGCCTTA
Found at i:2144598 original size:29 final size:31
Alignment explanation
Indices: 2144565--2144627 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
2144555 AAATTTTGCC
* *
2144565 TAGTGAATAAAGT-TTAAGTTTT-AAAAGTT
1 TAGTGAATAAAGTATAAAATTTTGAAAAGTT
**
2144594 TAGTGGTTAAAGTATAAAATTTTGAAAAGTT
1 TAGTGAATAAAGTATAAAATTTTGAAAAGTT
2144625 TAG
1 TAG
2144628 GGACTGAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 11 0.39
30 7 0.25
31 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.40
Consensus pattern (31 bp):
TAGTGAATAAAGTATAAAATTTTGAAAAGTT
Found at i:2149585 original size:38 final size:37
Alignment explanation
Indices: 2149538--2149686 Score: 106
Period size: 38 Copynumber: 4.0 Consensus size: 37
2149528 GAGATTGTTC
* *
2149538 TTCTCAAAACAAAGTGTCGTCTTGCTAGAGACAATTTT
1 TTCTAAAAACAAA-TGTCGTCTCGCTAGAGACAATTTT
* * * * *
2149576 TTCTTAAAACTCAATTTTGTCTCGCTTGAGACAATTTT
1 TTCTAAAAAC-AAATGTCGTCTCGCTAGAGACAATTTT
* * * * *
2149614 CTCTAAAAACAAATTTTGTCTCACTTGAGACAA-TTT
1 TTCTAAAAACAAATGTCGTCTCGCTAGAGACAATTTT
* * * *
2149650 TTCTCAAAATAAATTTCATCTCGCTTA-AGAC-ATTTT
1 TTCTAAAAACAAATGTCGTCTCGC-TAGAGACAATTTT
2149686 T
1 T
2149687 CCTTTGATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
35 1 0.01
36 29 0.32
37 22 0.24
38 37 0.41
39 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.40
Consensus pattern (37 bp):
TTCTAAAAACAAATGTCGTCTCGCTAGAGACAATTTT
Found at i:2149612 original size:20 final size:18
Alignment explanation
Indices: 2149587--2149654 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
2149577 TCTTAAAACT
2149587 CAATTTTGTCTCGCTTGAGA
1 CAATTTT-TCTC-CTTGAGA
** *
2149607 CAA-TTTTCT-CTAAAAA
1 CAATTTTTCTCCTTGAGA
2149623 CAAATTTTGTCTCACTTGAGA
1 C-AATTTT-TCTC-CTTGAGA
2149644 CAATTTTTCTC
1 CAATTTTTCTC
2149655 AAAATAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
16 5 0.14
17 2 0.05
18 6 0.16
19 10 0.27
20 9 0.24
21 5 0.14
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (18 bp):
CAATTTTTCTCCTTGAGA
Found at i:2149630 original size:37 final size:37
Alignment explanation
Indices: 2149556--2149687 Score: 140
Period size: 36 Copynumber: 3.6 Consensus size: 37
2149546 ACAAAGTGTC
* * * * *
2149556 GTCTTGCTAGAGACAATTTTTTCTTAAAACTCAATTTT
1 GTCTCGCTTGAGACAATTTTCTCTAAAAAC-AAATTTT
2149594 GTCTCGCTTGAGACAATTTTCTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTTCTCTAAAAACAAATTTT
* * * *
2149631 GTCTCACTTGAGACAATTTT-TCTCAAAATAAATTTC
1 GTCTCGCTTGAGACAATTTTCTCTAAAAACAAATTTT
* * *
2149667 ATCTCGCTTAAGACATTTTTC
1 GTCTCGCTTGAGACAATTTTC
2149688 CTTTGATATG
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
36 29 0.36
37 25 0.31
38 26 0.32
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (37 bp):
GTCTCGCTTGAGACAATTTTCTCTAAAAACAAATTTT
Found at i:2149681 original size:36 final size:36
Alignment explanation
Indices: 2149556--2149687 Score: 140
Period size: 37 Copynumber: 3.6 Consensus size: 36
2149546 ACAAAGTGTC
* * * *
2149556 GTCTTGCTAGAGACAATTTTTTCTTAAAACTCAATTTT
1 GTCTCGCTTGAGACAA-TTTTTC-TAAAAATAAATTTT
*
2149594 GTCTCGCTTGAGACAATTTTCTCTAAAAACAAATTTT
1 GTCTCGCTTGAGACAATTTT-TCTAAAAATAAATTTT
* * *
2149631 GTCTCACTTGAGACAATTTTTCTCAAAATAAATTTC
1 GTCTCGCTTGAGACAATTTTTCTAAAAATAAATTTT
* *
2149667 ATCTCGCTTAAGAC-ATTTTTC
1 GTCTCGCTTGAGACAATTTTTC
2149688 CTTTGATATG
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
35 7 0.09
36 24 0.30
37 34 0.42
38 16 0.20
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (36 bp):
GTCTCGCTTGAGACAATTTTTCTAAAAATAAATTTT
Found at i:2150084 original size:36 final size:36
Alignment explanation
Indices: 2150019--2150216 Score: 247
Period size: 36 Copynumber: 5.4 Consensus size: 36
2150009 CTTTGAGATT
* *
2150019 GTTTCTCTTGAAACA-AGTTTTTGTCTCTCTTGAGGCA
1 GTTTCCCTTGAAACATA--TTTTGTCTCTCTTGAGACA
* *
2150056 GTTTCTCTTGAAAAATATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
*
2150092 TTTTCCCTTGAAACATATTTTGTCTCTCTCTCGAGACA
1 GTTTCCCTTGAAACATATTTTGTCTCTCT-T-GAGACA
* * *
2150130 ATCTCCCTTGAAACATATTTTGTCTCTCTTGAGATA
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
*
2150166 GTTTCCCTTGAAACATATTTTGTCTCGCTTGAGATC-
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGA-CA
*
2150202 GTTTCTCTTGAAACA
1 GTTTCCCTTGAAACA
2150217 AATCATTCCT
Statistics
Matches: 144, Mismatches: 13, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
36 94 0.65
37 16 0.11
38 34 0.24
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.42
Consensus pattern (36 bp):
GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACA
Found at i:2150148 original size:74 final size:72
Alignment explanation
Indices: 2150019--2150199 Score: 238
Period size: 74 Copynumber: 2.5 Consensus size: 72
2150009 CTTTGAGATT
* * * * *
2150019 GTTTCTCTTGAAACA-AGTTTTTGTCTCTCTTGAGGCAGTTTCTCTTGAAAAATATTTTGTCTCT
1 GTTTCCCTTGAAACATA--TTTTGTCTCTCTTGAGACAATCTCCCTTGAAAAATATTTTGTCTCT
2150083 CTTGAGACA
64 CTTGAGACA
* *
2150092 TTTTCCCTTGAAACATATTTTGTCTCTCTCTCGAGACAATCTCCCTTGAAACATATTTTGTCTCT
1 GTTTCCCTTGAAACATATTTTGTCTCTCT-T-GAGACAATCTCCCTTGAAAAATATTTTGTCTCT
*
2150157 CTTGAGATA
64 CTTGAGACA
*
2150166 GTTTCCCTTGAAACATATTTTGTCTCGCTTGAGA
1 GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGA
2150200 TCGTTTCTCT
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
72 16 0.17
73 15 0.16
74 64 0.67
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (72 bp):
GTTTCCCTTGAAACATATTTTGTCTCTCTTGAGACAATCTCCCTTGAAAAATATTTTGTCTCTCT
TGAGACA
Found at i:2150474 original size:134 final size:133
Alignment explanation
Indices: 2150218--2150723 Score: 652
Period size: 134 Copynumber: 3.8 Consensus size: 133
2150208 CTTGAAACAA
* * * * *
2150218 ATCATTCCTAAAGATGGCCAGCCGTCCTCATCACATAGGAACCGTGTCATCCATCAACTAGATCT
1 ATCATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * ** * *
2150283 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACTAACTGTATTCATCACGTAGGAACTGTGT
66 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAACCGTCCTCAT-AAGTAGGAACCGTGT
2150348 TATC
130 TATC
* * * * * *
2150352 ATCATCCCTAAAGATGACCATCCGTCCTCATCACGTAAGAACCATATCATCCACCGACCAAATCT
1 ATCATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * *
2150417 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAACCATCCTCATAATATAGGAACCATGT
66 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAACCGTCCTCATAA-GTAGGAACCGTGT
2150482 TATC
130 TATC
* * * * * *
2150486 ATCATCCCTAAAGATGGCCAACCTTCCTCATCACGTAGGAATCGTGTCATCCGCTGACCATATCT
1 ATCATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * * * *
2150551 CCTCATTACGTATGAGCCACATCAACCTTAGATAACCAACCGTCCTCATCAAGTAGGAACCGTGT
66 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAACCGTCCTCAT-AAGTAGGAACCGTGT
2150616 TATC
130 TATC
* * *
2150620 ATCATCCCTAAAGATGGCCAGCCATCCTCATCACGTAGGAATCGTGTCATCCACCGAACAGATCT
1 ATCATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
* * *
2150685 CCTCATCACTTAGGAGTAGCGTCAACCTTAGATAGCCAA
66 CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAA
2150724 ACTCATTATC
Statistics
Matches: 318, Mismatches: 52, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
133 1 0.00
134 315 0.99
135 2 0.01
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (133 bp):
ATCATCCCTAAAGATGGCCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
CCTCATCACGTAGGAGTCGCGTCAACCTTAGATAACCAACCGTCCTCATAAGTAGGAACCGTGTT
ATC
Found at i:2163946 original size:25 final size:24
Alignment explanation
Indices: 2163911--2163959 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
2163901 ACAATTGTTT
2163911 TTTTAATTATATAAAATTG-TAAA
1 TTTTAATTATATAAAATTGATAAA
*
2163934 TTTTATATATATATATAATTGATAAA
1 TTTTA-AT-TATATAAAATTGATAAA
2163960 ATTATAGGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 2 0.09
25 11 0.50
26 4 0.18
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTTAATTATATAAAATTGATAAA
Found at i:2163964 original size:25 final size:25
Alignment explanation
Indices: 2163918--2163965 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2163908 TTTTTTTAAT
*
2163918 TATATAAAATTGTAAATTTTATATA
1 TATATAAAATTGTAAATATTATATA
*
2163943 TATATATAATTGATAAA-ATTATA
1 TATATAAAATTG-TAAATATTATA
2163966 GGAAAAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TATATAAAATTGTAAATATTATATA
Found at i:2166386 original size:3 final size:3
Alignment explanation
Indices: 2166378--2166498 Score: 143
Period size: 3 Copynumber: 39.7 Consensus size: 3
2166368 TCATTTAAAT
** * *
2166378 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
2166426 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
2166472 ATA TTA ATA TTA ATA TTA TATA TTA TT
1 TTA TTA TTA TTA TTA TTA T-TA TTA TT
2166499 TAATAAATAA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
3 92 0.94
4 6 0.06
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:2174637 original size:114 final size:114
Alignment explanation
Indices: 2174437--2174658 Score: 408
Period size: 114 Copynumber: 1.9 Consensus size: 114
2174427 CACGTTCTCG
* *
2174437 TAGTAGGAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
*
2174502 GGTATAAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTATAAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
2174551 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
*
2174616 GGTATAAACCCTAAAACCAATCATTGGAATTGAAAGATGAATT
66 GGTATAAACCCCAAAACCAATCATTGGAATTGAAAGATGAATT
2174659 GCATGATCGT
Statistics
Matches: 104, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
114 104 1.00
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
GGTATAAACCCCAAAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
Found at i:2175580 original size:35 final size:34
Alignment explanation
Indices: 2175508--2175573 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
2175498 TTCAACCAGA
*
2175508 AATAGAATATTGAGGCATTTTGAAGGCTCATAAC
1 AATAGAATATTGAGGCATTTTAAAGGCTCATAAC
*
2175542 AATATGAATATTTG-GGCATTTTAAAGGTTCAT
1 AATA-GAATA-TTGAGGCATTTTAAAGGCTCAT
2175574 CTCAATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 4 0.14
35 21 0.75
36 3 0.11
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (34 bp):
AATAGAATATTGAGGCATTTTAAAGGCTCATAAC
Found at i:2176741 original size:54 final size:54
Alignment explanation
Indices: 2176655--2176928 Score: 467
Period size: 54 Copynumber: 5.1 Consensus size: 54
2176645 CAATGATTGA
*
2176655 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAT
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
*
2176709 GAACATCTGAGCAGAAGCCACAAAAAAAGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
2176763 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
* *
2176817 GAATATCTGAGCAGAAGCCACAAAAAAAGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
** ***
2176871 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
2176925 GAAC
1 GAAC
2176929 CTACTATTCT
Statistics
Matches: 208, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 208 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (54 bp):
GAACATCTGAGCAGAAGCCACAAAAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:2177310 original size:18 final size:18
Alignment explanation
Indices: 2177277--2177324 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
2177267 ATCTACACTC
2177277 TTCAAAGATAGATTCTCTT
1 TTCAAAGAT-GATTCTCTT
*
2177296 TTTAAAGATGATTCTCTT
1 TTCAAAGATGATTCTCTT
2177314 TTCAAAGATGA
1 TTCAAAGATGA
2177325 AAGCTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 19 0.70
19 8 0.30
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCAAAGATGATTCTCTT
Found at i:2178320 original size:76 final size:76
Alignment explanation
Indices: 2178003--2178925 Score: 1518
Period size: 76 Copynumber: 12.4 Consensus size: 76
2177993 TATTTCCCAA
* *
2178003 CATCTG-AAGTCCTTCAAT-CATGATGTTT--AAAAAG-CTTC-GGATC-TTTTGA--TTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
2178059 AAGCCTT----T
65 AAGCCTTAGGGT
2178067 CATCTGTAAGTCCTTC--TGCATGATGTTTCCAAAAAG-CTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178129 AG-CTTAGGGT
66 AGCCTTAGGGT
* *
2178139 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
2178204 AAAGCCTTAGGGT
64 AAAGCCTTAGGGT
*
2178217 CATCTGTAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178282 AGCCTTAGGGT
66 AGCCTTAGGGT
2178293 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178358 AGCCTTAGGGT
66 AGCCTTAGGGT
2178369 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178431 AGCCTTAGGGT
66 AGCCTTAGGGT
2178442 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178506 AGCCTTAGGGT
66 AGCCTTAGGGT
2178517 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178582 AGCCTTAGGGT
66 AGCCTTAGGGT
*
2178593 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC--
2178658 AAAGCCTTAGGGT
64 AAAGCCTTAGGGT
2178671 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
2178736 AGCCTTAGGGT
66 AGCCTTAGGGT
2178747 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC-GGAGC-TTTTGAT-TTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
2178809 A-CCTTCGGGT
66 AGCCTTAGGGT
*
2178819 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
2178884 AAACCTTCGGGT
65 AAGCCTTAGGGT
*
2178896 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
2178926 TTAACATTTC
Statistics
Matches: 818, Mismatches: 13, Indels: 43
0.94 0.01 0.05
Matches are distributed among these distances:
63 1 0.00
64 16 0.02
65 9 0.01
66 10 0.01
67 4 0.00
68 9 0.01
69 4 0.00
70 5 0.01
72 66 0.08
73 73 0.09
74 47 0.06
75 121 0.15
76 269 0.33
77 41 0.05
78 143 0.17
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:2178801 original size:378 final size:376
Alignment explanation
Indices: 2178003--2178925 Score: 1554
Period size: 378 Copynumber: 2.5 Consensus size: 376
2177993 TATTTCCCAA
* *
2178003 CATCTG-AAGTCCTTCAAT-CATGATGTTT--AAAAAG-CTTCGGATCTTTTGATTTTCAAAAGC
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTGATTTTC-AAAGC
2178063 CTT---TCATCTGTAAGTCCTTC--TGCATGATGTTTCCAAAAAG-CTTCGGGAGCTTTTTGATG
65 CTTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG
*
2178122 TTTTCAAAG-CTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
130 TTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGA
*
2178186 GCTTTTTGATGTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGTATGATGTTTCCAA
195 GCTTTTTGATGTTTCC-AAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAA
*
2178251 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCAT
259 AAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCAT
2178316 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
324 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
2178369 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG-GCTTTTTGATGTTTCAAAG
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGC-TTTTGAT-TTTCAAAG
2178433 CCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
64 CCTT-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGA
2178498 TG-TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
128 TGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGG
*
2178562 GAGCTTTTTGATGTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
193 GAGCTTTTTGATGTTTCCAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
2178626 AAAAGCCTTCGGGAGCTTTTTGATGTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTG
258 AAAAGCCTTCGGGAGCTTTTTGATGTTTCC--AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTG
2178691 CATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
321 CATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
2178747 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTGATTTTTCAAA-C
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTGA-TTTTCAAAGC
*
2178811 CTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
65 CTT-GGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
* * *
2178876 GTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTT
129 GTTTTC-AAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
2178926 TTAACATTTC
Statistics
Matches: 525, Mismatches: 11, Indels: 29
0.93 0.02 0.05
Matches are distributed among these distances:
366 6 0.01
367 11 0.02
368 10 0.02
370 7 0.01
371 21 0.04
372 4 0.01
375 17 0.03
376 74 0.14
377 93 0.18
378 239 0.46
379 43 0.08
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (376 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGAGCTTTTGATTTTCAAAGCC
TTGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGT
TTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAG
CTTTTTGATGTTTCCAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAA
AGCCTTCGGGAGCTTTTTGATGTTTCCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGA
TGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:2178913 original size:454 final size:441
Alignment explanation
Indices: 2178003--2178925 Score: 1554
Period size: 454 Copynumber: 2.1 Consensus size: 441
2177993 TATTTCCCAA
* *
2178003 CATCTG-AAGTCCTTCAAT-CATGATGTTTAAAAAGCTTCGGATCTTTTGATTTTCAAAAGCCTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTAAAAAGCTTCGGAGCTTTTGATTTTCAAAAGCCTT
2178066 TCATCTGTAAGTCCTTCTGCATGATGTTTCCAAAAAGCTTCGGGAGCTTTTTGATGTTTTCAAAG
66 TCATCTGTAAGTCCTTCTGCATGATGTTTCCAAAAAGCTTCGGGAGCTTTTTGATGTTTTCAAAG
2178131 CTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
131 CTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
*
2178196 GTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGTATGATGTTTCCAAAAAGCCTTCG
196 GTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
2178261 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
261 GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
*
2178326 AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCA
326 AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCA
*
2178391 TGATGTTTCCAAAAAGCCTTCGGGCTTTTTGATGTTTCAAAGCCTTAGGGT
391 TGATGTTTCCAAAAAGCCTTCGGGCTTTTTGATGTTTCAAAACCTTAGGGT
2178442 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTC-AA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT--AAAAAG-CTTC-GGAGC-TTTTGAT-TTTCAAA
2178506 AGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
60 AGCCTT----TCATCTGTAAGTCCTTC--TGCATGATGTTTCCAAAAAG-CTTCGGGAGCTTTTT
*
2178571 GATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
118 GATGTTTTCAAAG-CTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
2178636 GGGAGCTTTTTGATGTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
182 GGGAGCTTTTTGATGTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTT
2178701 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGT
247 CCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGT
*
2178766 GCATGATGTTTCCAAAAAGCCTTC-GGAGC-TTTTGAT-TTTTCAAA-CCTTCGGGTCATCTGTA
312 GCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTA
*
2178827 AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAAACCTTC
377 AGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTC-GG-GCTTTTTGATG-TTTC-AAAACCTTA
2178892 GGGT
438 GGGT
*
2178896 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTTCAGTGCATGATGTTT
2178926 TTAACATTTC
Statistics
Matches: 455, Mismatches: 9, Indels: 25
0.93 0.02 0.05
Matches are distributed among these distances:
439 6 0.01
440 11 0.02
441 10 0.02
443 6 0.01
444 4 0.01
445 4 0.01
446 15 0.03
447 4 0.01
450 67 0.15
451 10 0.02
452 38 0.08
453 37 0.08
454 243 0.53
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (441 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTAAAAAGCTTCGGAGCTTTTGATTTTCAAAAGCCTT
TCATCTGTAAGTCCTTCTGCATGATGTTTCCAAAAAGCTTCGGGAGCTTTTTGATGTTTTCAAAG
CTTAGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGAT
GTTTCCAAAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCG
GGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCA
AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTACAGTGCA
TGATGTTTCCAAAAAGCCTTCGGGCTTTTTGATGTTTCAAAACCTTAGGGT
Found at i:2179063 original size:3 final size:3
Alignment explanation
Indices: 2179055--2179142 Score: 81
Period size: 3 Copynumber: 28.7 Consensus size: 3
2179045 TCATTTAAAT
** * *
2179055 TTA TTA TTA TTA TTA AAA TTA TTA -TA TTA GTA TAAA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA
*
2179101 TTA TTA TTA TTTA TTA TTA ATA TTA TT- TATA TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT
2179143 TAATAAATAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
2 3 0.04
3 57 0.83
4 9 0.13
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:2179102 original size:20 final size:19
Alignment explanation
Indices: 2179050--2179142 Score: 93
Period size: 18 Copynumber: 4.9 Consensus size: 19
2179040 ATTTTTCATT
2179050 TAAATTTATTATTATTATTA
1 TAAA-TTATTATTATTATTA
*
2179070 -AAATTATTA-TATTAGTA
1 TAAATTATTATTATTATTA
2179087 TAAATTATTATTTATTATTA
1 TAAATTATTA-TTATTATTA
* * *
2179107 TTATTTATTATTAATATTA
1 TAAATTATTATTATTATTA
**
2179126 TTTA-TATTATTATTATT
1 TAAATTATTATTATTATT
2179143 TAATAAATAA
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
17 7 0.11
18 27 0.44
19 13 0.21
20 15 0.24
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (19 bp):
TAAATTATTATTATTATTA
Found at i:2179139 original size:31 final size:31
Alignment explanation
Indices: 2179055--2179144 Score: 82
Period size: 29 Copynumber: 3.0 Consensus size: 31
2179045 TCATTTAAAT
* * *
2179055 TTATTATTATTATTAAAATTATTA-TATT-A
1 TTATTAATATTATTTATATTATTATTATTTA
* *
2179084 GTATAAATTATTATTTATTATTA---TTATTTA
1 TTATTAA-TATTATTTA-TATTATTATTATTTA
2179114 TTATTAATATTATTTATATTATTATTATTTA
1 TTATTAATATTATTTATATTATTATTATTTA
2179145 ATAAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
28 5 0.11
29 17 0.36
30 14 0.30
31 11 0.23
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
TTATTAATATTATTTATATTATTATTATTTA
Found at i:2182455 original size:25 final size:25
Alignment explanation
Indices: 2182417--2182470 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
2182407 TAACACCCTA
2182417 ATTTTGTCTAAACATCCCAAATCAG
1 ATTTTGTCTAAACATCCCAAATCAG
*
2182442 ATTTTGTCTGAACATCCCAAATCAG
1 ATTTTGTCTAAACATCCCAAATCAG
2182467 ATTT
1 ATTT
2182471 GAGGGGGATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.35
Consensus pattern (25 bp):
ATTTTGTCTAAACATCCCAAATCAG
Found at i:2185253 original size:2 final size:2
Alignment explanation
Indices: 2185209--2185234 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2185199 TATTCGACAA
2185209 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2185235 TTGTAAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2185366 original size:22 final size:22
Alignment explanation
Indices: 2185338--2185386 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
2185328 CTTTAAGTTC
*
2185338 TCAGGTTTGTGTATTATGAATG
1 TCAGGTTTGTGTATCATGAATG
2185360 TCAGGTTTGTGTATCATGAATG
1 TCAGGTTTGTGTATCATGAATG
2185382 TCAGG
1 TCAGG
2185387 GGTGTAAACG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.08, G:0.29, T:0.41
Consensus pattern (22 bp):
TCAGGTTTGTGTATCATGAATG
Found at i:2185777 original size:29 final size:29
Alignment explanation
Indices: 2185735--2185790 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
2185725 GTCGACACAA
2185735 TGAATTCTCTTTAAGATTTAAATTCATAC
1 TGAATTCTCTTTAAGATTTAAATTCATAC
2185764 TGAATTCTCTTTAAGATTTAAATTCAT
1 TGAATTCTCTTTAAGATTTAAATTCAT
2185791 GGGATCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.07, T:0.46
Consensus pattern (29 bp):
TGAATTCTCTTTAAGATTTAAATTCATAC
Found at i:2188715 original size:45 final size:45
Alignment explanation
Indices: 2188580--2188792 Score: 198
Period size: 45 Copynumber: 4.7 Consensus size: 45
2188570 ACATCGGACC
* * **
2188580 CTACTTTACCAACACCAACATCTTTAGTTTTATCT-AAACCATCCC
1 CTACTTTATCAACACCAACATCTTTACTTTTATCTGAAA-CATCGT
* ** * * *
2188625 CTACTTTACCGGCATCAACATCTTTAGTTTTAT-TCGAAGCATCGT
1 CTACTTTATCAACACCAACATCTTTACTTTTATCT-GAAACATCGT
* *
2188670 CTACTTTATCAACATCAACATCTTTACTTTTAGT-TGAAACGTCGT
1 CTACTTTATCAACACCAACATCTTTACTTTTA-TCTGAAACATCGT
* * * * * *
2188715 CTACCTTATCATCGCCAACATCTTTACTTTTATCCGAAGCATCAT
1 CTACTTTATCAACACCAACATCTTTACTTTTATCTGAAACATCGT
* *
2188760 CTACCTTATCAGCACCAACATCTTTACTTTTAT
1 CTACTTTATCAACACCAACATCTTTACTTTTAT
2188793 ATTTACTTTT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
44 2 0.01
45 136 0.96
46 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.37
Consensus pattern (45 bp):
CTACTTTATCAACACCAACATCTTTACTTTTATCTGAAACATCGT
Found at i:2188792 original size:24 final size:24
Alignment explanation
Indices: 2188720--2188792 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
2188710 GTCGTCTACC
* *
2188720 TTATCATCGCCAACATCTTTACTT
1 TTATCAGCACCAACATCTTTACTT
* * * * *
2188744 TTATCCGAAGCATCATC--TAC-C
1 TTATCAGCACCAACATCTTTACTT
2188765 TTATCAGCACCAACATCTTTACTT
1 TTATCAGCACCAACATCTTTACTT
2188789 TTAT
1 TTAT
2188793 ATTTACTTTT
Statistics
Matches: 34, Mismatches: 12, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 13 0.38
22 3 0.09
23 3 0.09
24 15 0.44
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.38
Consensus pattern (24 bp):
TTATCAGCACCAACATCTTTACTT
Found at i:2190655 original size:39 final size:37
Alignment explanation
Indices: 2190576--2190650 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
2190566 AAAAGTAAAG
2190576 AAGAACTTGTTTTTTTTATTACCTTCCTCGCGTATAT
1 AAGAACTTGTTTTTTTTATTACCTTCCTCGCGTATAT
2190613 AAGAACTTGTTTTTTTTATTACCTTCCTCGCGTATAT
1 AAGAACTTGTTTTTTTTATTACCTTCCTCGCGTATAT
2190650 A
1 A
2190651 TAAGATCGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.48
Consensus pattern (37 bp):
AAGAACTTGTTTTTTTTATTACCTTCCTCGCGTATAT
Found at i:2191544 original size:21 final size:21
Alignment explanation
Indices: 2191515--2191579 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
2191505 TTTTCTATAA
* *
2191515 TAAATGGTCAAATTAAAGAAT
1 TAAAAGGTCAAATTAAAAAAT
*
2191536 TAAAAGGTCAATTTAAAAAAT
1 TAAAAGGTCAAATTAAAAAAT
* * * *
2191557 TGAATGGCCAACTTAAAAAAT
1 TAAAAGGTCAAATTAAAAAAT
2191578 TA
1 TA
2191580 GTGAGCATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.52, C:0.08, G:0.12, T:0.28
Consensus pattern (21 bp):
TAAAAGGTCAAATTAAAAAAT
Found at i:2193502 original size:18 final size:18
Alignment explanation
Indices: 2193481--2193523 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2193471 ATTGTTTTTA
* *
2193481 AAATAAAAGATAATAATT
1 AAATAAAAGAAAACAATT
2193499 AAATAAAAGAAAACAATT
1 AAATAAAAGAAAACAATT
2193517 AAATAAA
1 AAATAAA
2193524 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAACAATT
Found at i:2194307 original size:19 final size:19
Alignment explanation
Indices: 2194283--2194320 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
2194273 AAATAATATC
*
2194283 CTAAAACTTAATTAAAATA
1 CTAAAACATAATTAAAATA
*
2194302 CTAAAACATATTTAAAATA
1 CTAAAACATAATTAAAATA
2194321 AAATACAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (19 bp):
CTAAAACATAATTAAAATA
Found at i:2194351 original size:75 final size:72
Alignment explanation
Indices: 2194139--2194362 Score: 224
Period size: 75 Copynumber: 3.0 Consensus size: 72
2194129 AAAACATCTT
* **
2194139 AAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATA-ACTAAAAAT-TAATATTTAAAAT
1 AAATCCTAATTAAAATAC-TAAAACTATTTAAACTAAAATACAAAAAAAATATAAT-TTTAAAAT
*
2194202 AATATTC-A
64 AATATCCTA
* * *
2194210 AAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAGGATA-AATATAAA
1 AAATCCTAATTAAAATACTAAAA-CTATTTAAACTAAAATA-C-AAAA-AA-AATATAATTTTAA
2194274 AATAATATCCTA
61 AATAATATCCTA
* *
2194286 AAA-CTTAATTAAAATACTAAAACATATTTAAAATAAAATACAAAGATAAAATATAATGTTTAAA
1 AAATCCTAATTAAAATACTAAAAC-TATTTAAACTAAAATACAAA-A-AAAATATAAT-TTTAAA
*
2194350 ATATTATCCTA
62 ATAATATCCTA
2194361 AA
1 AA
2194363 CTTGAGTTTA
Statistics
Matches: 127, Mismatches: 14, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
70 5 0.04
71 34 0.27
73 6 0.05
74 10 0.08
75 63 0.50
76 9 0.07
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (72 bp):
AAATCCTAATTAAAATACTAAAACTATTTAAACTAAAATACAAAAAAAATATAATTTTAAAATAA
TATCCTA
Found at i:2201523 original size:18 final size:18
Alignment explanation
Indices: 2201502--2201544 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2201492 GTTGTTTTTA
* *
2201502 AAATAAAAGATAATAATT
1 AAATAAAAGAAAACAATT
2201520 AAATAAAAGAAAACAATT
1 AAATAAAAGAAAACAATT
2201538 AAATAAA
1 AAATAAA
2201545 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.02, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAACAATT
Found at i:2202264 original size:24 final size:24
Alignment explanation
Indices: 2202169--2202275 Score: 66
Period size: 24 Copynumber: 4.6 Consensus size: 24
2202159 AAATCCTAAT
*
2202169 TAAAACACTTAAAA-CTATTTAAAC
1 TAAAATAC-TAAAACCTATTTAAAC
** *
2202193 TAAAATAACTAAAAAATATTTAAAA
1 TAAAAT-ACTAAAACCTATTTAAAC
* *
2202218 TAATAAT-CTAAATCC----T-AAT
1 TAA-AATACTAAAACCTATTTAAAC
2202237 TAAAATACTAAAACCTATTTAAAC
1 TAAAATACTAAAACCTATTTAAAC
*
2202261 TAAAATGCCTAAAAC
1 TAAAAT-ACTAAAAC
2202276 AAAGATAAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
18 3 0.05
19 12 0.19
20 1 0.02
23 1 0.02
24 23 0.37
25 20 0.32
26 3 0.05
ACGTcount: A:0.56, C:0.14, G:0.01, T:0.29
Consensus pattern (24 bp):
TAAAATACTAAAACCTATTTAAAC
Found at i:2202273 original size:68 final size:73
Alignment explanation
Indices: 2202158--2202344 Score: 226
Period size: 76 Copynumber: 2.6 Consensus size: 73
2202148 TAAAACATCT
* *
2202158 TAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAACT-AA-AAA-AT-AT-TTAAA
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATAACTAAACAAAGATAATATAAAA
2202217 ATAATAAT-C
65 ATAAT-ATCC
**
2202226 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATGCCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAACT-AAACAAAGAT--AATATAA
2202291 AAATAATATCC
63 AAATAATATCC
* *
2202302 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAA
2202345 AAAGATAAAA
Statistics
Matches: 101, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
67 5 0.05
68 36 0.36
70 2 0.02
71 3 0.03
72 2 0.02
75 4 0.04
76 49 0.49
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (73 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAACTAAACAAAGATAATATAAAAA
TAATATCC
Found at i:2203445 original size:17 final size:17
Alignment explanation
Indices: 2203425--2203461 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2203415 TTCGTATCGA
2203425 TACACTAACTGTATCAG
1 TACACTAACTGTATCAG
*
2203442 TACACTAACTGTATCGG
1 TACACTAACTGTATCAG
2203459 TAC
1 TAC
2203462 CACCGACACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (17 bp):
TACACTAACTGTATCAG
Found at i:2210430 original size:17 final size:16
Alignment explanation
Indices: 2210401--2210442 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2210391 AATTCAGATC
2210401 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
2210418 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
2210433 AATTATTTTA
1 AATTATTTTA
2210443 AAAGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:2218421 original size:89 final size:89
Alignment explanation
Indices: 2218266--2218536 Score: 382
Period size: 89 Copynumber: 3.0 Consensus size: 89
2218256 AATATTGCAA
* *
2218266 ATTTGGTCTTCCCAAAAGAGTAGCGAAGCAAATCAATTTTC-AGTCTGATCTCCCCGGAAGAGTA
1 ATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAA-TTTCGAGTCTGATCTCCCCGGAAGAATA
*
2218330 GAGGAACATATTCTTCTTATTTCAG
65 GAGGAATATATTCTTCTTATTTCAG
* * *
2218355 ATTTGGTCTTCCCGAAAGAGTAGCAAAGCAAATCAGTTTCGGGTCTGATCTCCCCGGAAGAATAG
1 ATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCCCGGAAGAATAG
* *
2218420 AGGAGTATATTTTTCTTATTTCAG
66 AGGAATATATTCTTCTTATTTCAG
* * * * * * *
2218444 ATTCGGTATTCCCGAAAGAATAGCGAAGCAAATCAATCTCGAGTCTAATCTCCCCAGAAGATTAG
1 ATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCCCGGAAGAATAG
*
2218509 AGGAATAAATTCTTCTTATTTCAG
66 AGGAATATATTCTTCTTATTTCAG
2218533 ATTT
1 ATTT
2218537 CGTTTTCTAA
Statistics
Matches: 159, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 4 0.03
89 155 0.97
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (89 bp):
ATTTGGTCTTCCCGAAAGAGTAGCGAAGCAAATCAATTTCGAGTCTGATCTCCCCGGAAGAATAG
AGGAATATATTCTTCTTATTTCAG
Found at i:2218879 original size:81 final size:82
Alignment explanation
Indices: 2218566--2218913 Score: 448
Period size: 82 Copynumber: 4.3 Consensus size: 82
2218556 AATTCTAATA
* * *
2218566 TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTGATCTGACTATCCAAAAAAGAGGC
1 TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTAATCTGACTACCCGAAAAAGAGGC
* *
2218631 ACAGATCAAGTCTGGTC
66 ACATATCAAGTCTGATC
* * * *
2218648 TCCCTTGAATGAATAGTAGAGCAGACCTGTCTTCTAAAATTAATCTGACTACCCGAAAAAAAGGC
1 TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTAATCTGACTACCCGAAAAAGAGGC
2218713 AC-TGATCAAGTCTGATC
66 ACAT-ATCAAGTCTGATC
* * * * * *
2218730 TCCACTGAATAAATAGTAGAGAAGACCCGTCTTCTAAAATTAATTTGACTACTCGAAAAAGAGGC
1 TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTAATCTGACTACCCGAAAAAGAGGC
2218795 ACATATCAAGTCTGATC
66 ACATATCAAGTCTGATC
* * * * * * * *
2218812 TCCCCTCAATGAATAGTGGAGCTGA-CCATCTTCCAAAATTGATTTGAATACCCGAAAAAGAGCC
1 TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTAATCTGACTACCCGAAAAAGAGGC
2218876 ACATATCAAGTCTGATC
66 ACATATCAAGTCTGATC
* *
2218893 TTCCCTGAAAGAATAGTGGAG
1 TCCCCTGAATGAATAGTGGAG
2218914 TAGATTTCCC
Statistics
Matches: 232, Mismatches: 32, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
81 68 0.29
82 163 0.70
83 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (82 bp):
TCCCCTGAATGAATAGTGGAGCAGACCCGTCTTCTAAAATTAATCTGACTACCCGAAAAAGAGGC
ACATATCAAGTCTGATC
Found at i:2219037 original size:7 final size:7
Alignment explanation
Indices: 2219025--2219058 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
2219015 TTTCATCCTA
2219025 ATATATT
1 ATATATT
2219032 ATATATT
1 ATATATT
2219039 ATATATT
1 ATATATT
2219046 AT-TATT
1 ATATATT
2219052 AT-TATT
1 ATATATT
2219058 A
1 A
2219059 AATAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 11 0.41
7 16 0.59
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATATT
Found at i:2221038 original size:17 final size:16
Alignment explanation
Indices: 2221009--2221050 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2220999 AATGCAGAAC
2221009 AATT-TTTTATCTTTTAA
1 AATTATTTTATC--TTAA
2221026 AATTATTTT-TCTTAA
1 AATTATTTTATCTTAA
2221041 AATTATTTTA
1 AATTATTTTA
2221051 AATGATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
AATTATTTTATCTTAA
Found at i:2221654 original size:23 final size:23
Alignment explanation
Indices: 2221555--2221654 Score: 58
Period size: 23 Copynumber: 4.3 Consensus size: 23
2221545 AAAACTACAG
* *
2221555 CGTAGAATT-TGCACCGAAGTACTA
1 CGTAGAATTGT-C-CCGAAGGACCA
* * * *
2221579 CATAGATTTGTCCCGAAGTACCG
1 CGTAGAATTGTCCCGAAGGACCA
* ** * *
2221602 CGTAAAATCATCCGGAAGGATCA
1 CGTAGAATTGTCCCGAAGGACCA
**
2221625 CAAAGAATTGTCCCGAAGGACCA
1 CGTAGAATTGTCCCGAAGGACCA
2221648 CGTAGAA
1 CGTAGAA
2221655 CCCTCGACTC
Statistics
Matches: 53, Mismatches: 22, Indels: 3
0.68 0.28 0.04
Matches are distributed among these distances:
23 44 0.83
24 8 0.15
25 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGTCCCGAAGGACCA
Found at i:2221882 original size:57 final size:57
Alignment explanation
Indices: 2221734--2221942 Score: 201
Period size: 58 Copynumber: 3.6 Consensus size: 57
2221724 ATTATTTCAC
* * * * *
2221734 ATAGTATTATTCAATTTATCATTTGTTCACATA-AA-ATATATACTCATAGTATTTCAC
1 ATAGCATTACTCAATTTATCATTTATTCACATAGAACA-ATATACTCATAG-ATTTTAT
* *
2221791 ATAGCATTACCTAAATTTATTATTTATTCACATAGAACAAT-TACTCATAGCATTTTAT
1 ATAGCATTA-CTCAATTTATCATTTATTCACATAGAACAATATACTCATAG-ATTTTAT
* * * *
2221849 ATCGTATTACTCAACTTATCATTTATTCACATAGAAC-ATATACTCAATAGTTTTTCAT
1 ATAGCATTACTCAATTTATCATTTATTCACATAGAACAATATACTC-ATAGATTTT-AT
* * * *
2221907 GTAGCATTATTCAAATTATCATTTATTCCCATAGAA
1 ATAGCATTACTCAATTTATCATTTATTCACATAGAA
2221943 TATATTCACA
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
56 2 0.02
57 42 0.33
58 77 0.61
59 4 0.03
60 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.06, T:0.42
Consensus pattern (57 bp):
ATAGCATTACTCAATTTATCATTTATTCACATAGAACAATATACTCATAGATTTTAT
Found at i:2227872 original size:33 final size:33
Alignment explanation
Indices: 2227830--2227903 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
2227820 GAGATGACAA
*
2227830 TTTATTAATAACTCAAATTTCTTTTATTAATAT
1 TTTATTAATAACTCAAATTTATTTTATTAATAT
* *
2227863 TTTATTAATAACTTAAATTTATTTTATTAATTT
1 TTTATTAATAACTCAAATTTATTTTATTAATAT
2227896 TTTATTAA
1 TTTATTAA
2227904 ATTCTAATCC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.58
Consensus pattern (33 bp):
TTTATTAATAACTCAAATTTATTTTATTAATAT
Found at i:2229783 original size:24 final size:24
Alignment explanation
Indices: 2229751--2229813 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
2229741 CAGTCGAAAC
* *
2229751 TGCCGCGTAGAATTTGCATTGAAG
1 TGCCACGTAGAATTTGCATCGAAG
**
2229775 TGCCACGTAGAATAAGCATCGAAG
1 TGCCACGTAGAATTTGCATCGAAG
* *
2229799 TGTCACATAG-ATTTG
1 TGCCACGTAGAATTTG
2229814 TCCTGAAGGA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
23 3 0.10
24 28 0.90
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (24 bp):
TGCCACGTAGAATTTGCATCGAAG
Found at i:2229832 original size:23 final size:23
Alignment explanation
Indices: 2229806--2229879 Score: 89
Period size: 23 Copynumber: 3.2 Consensus size: 23
2229796 AAGTGTCACA
*
2229806 TAGATTTGTCCTGAAGGACCGCG
1 TAGAATTGTCCTGAAGGACCGCG
* *
2229829 TAGAATTGTTCC-GAAGGACCACA
1 TAGAATTG-TCCTGAAGGACCGCG
2229852 TAGAATTGT-CTCGAAGGACCGCG
1 TAGAATTGTCCT-GAAGGACCGCG
2229875 TAGAA
1 TAGAA
2229880 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.02
22 1 0.02
23 38 0.88
24 3 0.07
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (23 bp):
TAGAATTGTCCTGAAGGACCGCG
Found at i:2230061 original size:58 final size:57
Alignment explanation
Indices: 2229949--2230171 Score: 254
Period size: 57 Copynumber: 3.9 Consensus size: 57
2229939 TAACCATTTA
* * * * *
2229949 ATTATTTCACATAGTATTATTCAATTTATCATTTGTTCACATAAAACATGTACTCAT
1 ATTATTTCACATAGCATTATTAAATTTATCATTTATTCACATAGAACATATACTCAT
*
2230006 ATTATTTCACATAGCATTATCTAAATTTATTATTTATTCACATAGAACA-ATTACTCAT
1 ATTATTTCACATAGCATTAT-TAAATTTATCATTTATTCACATAGAACATA-TACTCAT
** * * * * *
2230064 AGGATTTTATATCGCATTACTCAATTTATCATTTATTCACATAGAACATATACTCAT
1 ATTATTTCACATAGCATTATTAAATTTATCATTTATTCACATAGAACATATACTCAT
* *
2230121 AGTT-TTTCATATAGCATTATTCAAA-TTATCATTTATTCCCATAGAACATAT
1 A-TTATTTCACATAGCATTATT-AAATTTATCATTTATTCACATAGAACATAT
2230172 TCACATAAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
57 92 0.66
58 48 0.34
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (57 bp):
ATTATTTCACATAGCATTATTAAATTTATCATTTATTCACATAGAACATATACTCAT
Found at i:2236301 original size:22 final size:22
Alignment explanation
Indices: 2236274--2236319 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
2236264 CTAATTACAT
* * *
2236274 ATTTTGATGAATTTGGAGATGAG
1 ATTTGGATCAATTTAGAG-TGAG
2236297 ATTTGGATCAATTTAGAGTGAG
1 ATTTGGATCAATTTAGAGTGAG
2236319 A
1 A
2236320 GTCATAGTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.33, C:0.02, G:0.28, T:0.37
Consensus pattern (22 bp):
ATTTGGATCAATTTAGAGTGAG
Found at i:2243918 original size:31 final size:31
Alignment explanation
Indices: 2243877--2243956 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
2243867 TAATTATAGG
*
2243877 GTATTGTTTTGTTGAGTCCCACAATTGTAAA
1 GTATTATTTTGTTGAGTCCCACAATTGTAAA
* * *
2243908 GTATTATTTTGTTGACTCCCTCAATTGTAGA
1 GTATTATTTTGTTGAGTCCCACAATTGTAAA
2243939 GTATTATTTTGTTGAGTC
1 GTATTATTTTGTTGAGTC
2243957 TCCAACTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (31 bp):
GTATTATTTTGTTGAGTCCCACAATTGTAAA
Found at i:2244506 original size:3 final size:3
Alignment explanation
Indices: 2244498--2244558 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
2244488 AGAGAGATTT
2244498 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
2244546 GAG GAG GAG GAG G
1 GAG GAG GAG GAG G
2244559 TGGATACCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:2247772 original size:40 final size:39
Alignment explanation
Indices: 2247721--2247859 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 39
2247711 ATGATGTTGC
* *
2247721 TCCTTCATGATGAGGAGTTCTGATCGCTGGATGACATTGT
1 TCCTTCGTGATGAGGAGTTCTGATCGATGGATGA-ATTGT
** * * *
2247761 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATG-ATGTGAC
1 TCCTTCGTGATGAGGAGTTCT-G--ATCGATGGATGAAT-TG-T
* * *
2247804 TCCTTCGTGATGAGGAGTTCTGATTGGTGGATGATTTTGT
1 TCCTTCGTGATGAGGAGTTCTGATCGATGGATGA-ATTGT
2247844 TCCTTCGTGATGAGGA
1 TCCTTCGTGATGAGGA
2247860 CGTTTGGTCA
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
40 41 0.53
41 5 0.06
42 4 0.05
43 27 0.35
ACGTcount: A:0.19, C:0.15, G:0.29, T:0.36
Consensus pattern (39 bp):
TCCTTCGTGATGAGGAGTTCTGATCGATGGATGAATTGT
Found at i:2247783 original size:137 final size:137
Alignment explanation
Indices: 2247477--2247789 Score: 380
Period size: 137 Copynumber: 2.3 Consensus size: 137
2247467 CAACTGGTGT
* * * * * *
2247477 ATGACACTGTTCCTTCATGATGAGGACGTCTGATCATTTTTGAAGATATTTGATATAACACAGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGATAACACAGTT
* * * * * *
2247542 CCTTCGTGATGAGGACATCTGGTTATCTGAGGATGACTCGGTTCCTACGTGATGAGGAGTTCTGG
66 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGACTCGGCTCCTACATGATGAGGAGTTCTGA
2247607 TCAGTGG
131 TCAGTGG
* * * * *
2247614 ATAACATTGTTCTTTCGTGATGAGGATGTCTGGTCATCTTTAAATATATTTGAGATAACACGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGATAACACAGTT
* * *
2247679 CCTTCGTGATGAGTATATCTGGCTATCTAAGAATGA-T-GTTGCTCCTTCATGATGAGGAGTTCT
66 CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGACTCG--GCTCCTACATGATGAGGAGTTCT
2247742 GATC-GCTGG
129 GATCAG-TGG
* *
2247751 ATGACATTGTTCCTTCGTGATGAGGACATCTGGTTATCT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCT
2247790 AAGGATGATG
Statistics
Matches: 148, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
135 1 0.01
136 2 0.01
137 145 0.98
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (137 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGATAACACAGTT
CCTTCGTGATGAGGACATCTGGCTATCTAAGAATGACTCGGCTCCTACATGATGAGGAGTTCTGA
TCAGTGG
Found at i:2247808 original size:43 final size:43
Alignment explanation
Indices: 2247761--2247956 Score: 121
Period size: 43 Copynumber: 4.4 Consensus size: 43
2247751 ATGACATTGT
2247761 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGAC
1 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGAC
** * ** * *
2247804 TCCTTCGTGATGAGGAGTTCTGATT-GGT--GGATGATTTTG-T
1 TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGA-TGTGAC
* * * * ***
2247844 TCCTTCGTGATGAGGACGTTTGGTCATCTTTAAAGATTTTTTAGATAACAC
1 TCCTTCGTGATGAGGACATCTGGTTATC--TAAGGA-----T-GATGTGAC
*
2247895 GGTTCCTTCATGATGAGGACATCTGGTTATCTAAGGATGATGTGAC
1 ---TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGAC
2247941 TCCTTCGTGATGAGGA
1 TCCTTCGTGATGAGGA
2247957 GTTCTGATTG
Statistics
Matches: 109, Mismatches: 28, Indels: 32
0.64 0.17 0.19
Matches are distributed among these distances:
40 26 0.24
41 3 0.03
42 1 0.01
43 38 0.35
45 2 0.02
46 5 0.05
47 1 0.01
50 2 0.02
51 2 0.02
52 5 0.05
54 24 0.22
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.36
Consensus pattern (43 bp):
TCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGAC
Found at i:2247815 original size:83 final size:83
Alignment explanation
Indices: 2247676--2247860 Score: 273
Period size: 83 Copynumber: 2.2 Consensus size: 83
2247666 AGATAACACG
* *
2247676 GTTCCTTCGTGATGAGTATATCTGGCTATCTAAGAATGATGTTGCTCCTTCATGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCCTTCATGATGAGGAGTTC
2247741 TGATCGCTGGATGACATT
66 TGATCGCTGGATGACATT
* * *
2247759 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATG-TGACTCCTTCGTGATGAGGAGTT
1 GTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTG-CTCCTTCATGATGAGGAGTT
* * **
2247823 CTGATTGGTGGATGATTTT
65 CTGATCGCTGGATGACATT
2247842 GTTCCTTCGTGATGAGGAC
1 GTTCCTTCGTGATGAGGAC
2247861 GTTTGGTCAT
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
82 2 0.02
83 90 0.98
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (83 bp):
GTTCCTTCGTGATGAGGACATCTGGCTATCTAAGAATGATGTTGCTCCTTCATGATGAGGAGTTC
TGATCGCTGGATGACATT
Found at i:2247928 original size:220 final size:220
Alignment explanation
Indices: 2247539--2248009 Score: 669
Period size: 220 Copynumber: 2.1 Consensus size: 220
2247529 ATATAACACA
* *
2247539 GTTCCTTCGTGATGAGGACATCTGGTTATCTGAGGATGACTCGGTTCCTACGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCGGCTCCTACGTGATGAGGAGTTC
* * * *
2247604 TGGTCAGTGGATAACATTGTTCTTTCGTGATGAGGATGTCTGGTCATCTTTAAATATATTTGAGA
66 TGATCAGTGGATAACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
* * *
2247669 TAACACGGTTCCTTCGTGATGAGTATATCTGGCTATCTAAGAATGATGTTG-CTCCTTCATGATG
131 TAACACGGTTCCTTCATGATGAGGACATCTGGCTATCTAAGAATGATG-TGACTCCTTCATGATG
2247733 AGGAGTTCTGATCGCTGGATGACATT
195 AGGAGTTCTGATCGCTGGATGACATT
*
2247759 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGA-T-GTGACTCCTTCGTGATGAGGAGT
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCG-G-CTCCTACGTGATGAGGAGT
** * ** * * *
2247822 TCTGATTGGTGGATGATTTTGTTCCTTCGTGATGAGGACGTTTGGTCATCTTTAAAGATTTTTTA
64 TCTGATCAGTGGATAACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGA
* * *
2247887 GATAACACGGTTCCTTCATGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGAT
129 GATAACACGGTTCCTTCATGATGAGGACATCTGGCTATCTAAGAATGATGTGACTCCTTCATGAT
* *
2247952 GAGGAGTTCTGATTGGTGGATGACATT
194 GAGGAGTTCTGATCGCTGGATGACATT
* *
2247979 GTTCCTTCGTGATGAGGACGTCTGGTCATCT
1 GTTCCTTCGTGATGAGGACATCTGGTTATCT
2248010 TTAAAGATAT
Statistics
Matches: 223, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
218 1 0.00
219 4 0.02
220 218 0.98
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.36
Consensus pattern (220 bp):
GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGACTCGGCTCCTACGTGATGAGGAGTTC
TGATCAGTGGATAACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
TAACACGGTTCCTTCATGATGAGGACATCTGGCTATCTAAGAATGATGTGACTCCTTCATGATGA
GGAGTTCTGATCGCTGGATGACATT
Found at i:2248005 original size:137 final size:137
Alignment explanation
Indices: 2247759--2248074 Score: 533
Period size: 137 Copynumber: 2.3 Consensus size: 137
2247749 GGATGACATT
2247759 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTC
** * * *
2247824 TGATTGGTGGATGATTTTGTTCCTTCGTGATGAGGACGTTTGGTCATCTTTAAAGATTTTTTAGA
66 TGATTGGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
2247889 TAACACG
131 TAACACG
*
2247896 GTTCCTTCATGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTC
2247961 TGATTGGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
66 TGATTGGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
2248026 TAACACG
131 TAACACG
* ** * *
2248033 GTTCCTTCGTGATGTGGATGTCTGGCTATCTAATGATGATGT
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGT
2248075 TGATGGACAC
Statistics
Matches: 167, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
137 167 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (137 bp):
GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTGACTCCTTCGTGATGAGGAGTTC
TGATTGGTGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGTCATCTTTAAAGATATTTGAGA
TAACACG
Found at i:2248597 original size:124 final size:124
Alignment explanation
Indices: 2248377--2248605 Score: 395
Period size: 124 Copynumber: 1.8 Consensus size: 124
2248367 CCAATGTTGC
*
2248377 TGACACAATATCCTTCGTCGTGAAATTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCT
1 TGACACAATATCCTTCGTCATGAAATTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCT
*
2248442 CGAATAGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT
66 CGAATAGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT
* * *
2248501 TGACACGATATCCTTCGTCATGAAGTTGAAATCGTGGATGGCCCTTTCGTCGTGAAGTTGAGCCT
1 TGACACAATATCCTTCGTCATGAAATTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCT
* *
2248566 TGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
66 CGAATAGGATATCCTTCGTCGTGAAGTTGAAATCCAATCT
2248606 TTGATTGTAT
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
124 98 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (124 bp):
TGACACAATATCCTTCGTCATGAAATTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCT
CGAATAGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGT
Found at i:2248747 original size:103 final size:103
Alignment explanation
Indices: 2248565--2248769 Score: 365
Period size: 103 Copynumber: 2.0 Consensus size: 103
2248555 AAGTTGAGCC
*
2248565 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGATTGTATTTCTTTGAGTTCAA
1 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGATTGTATTGCTTTGAGTTCAA
* *
2248630 TATCCTTTGTTGTGAAGTTGAAATTGACTCTGAATGAT
66 TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAT
* *
2248668 TTGAATTGGATATCCTTCGTTGTGAAGTTGAAATCCAATCTTTGGTTGTATTGCTTTGAGTTCAA
1 TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGATTGTATTGCTTTGAGTTCAA
2248733 TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
66 TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGA
2248770 AACTGAAAAG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (103 bp):
TTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTTTGATTGTATTGCTTTGAGTTCAA
TATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAT
Found at i:2250135 original size:31 final size:31
Alignment explanation
Indices: 2250093--2250203 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 31
2250083 CAAAATGGAC
2250093 CTTCAAAATGTCCCAACATGATGATGTGAGT
1 CTTCAAAATGTCCCAACATGATGATGTGAGT
* * * *
2250124 CTTCAAGATGTCCCAATCATTGATAATATG-GAC
1 CTTCAAAATGTCCCAA-CA-TGATGATGTGAG-T
* *
2250157 CTTCAAAATGACCCAACATGACGATGTGAGT
1 CTTCAAAATGTCCCAACATGATGATGTGAGT
*
2250188 CTTCAAGATGTCCCAA
1 CTTCAAAATGTCCCAA
2250204 TTATTGATTA
Statistics
Matches: 64, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
31 36 0.56
32 6 0.09
33 22 0.34
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (31 bp):
CTTCAAAATGTCCCAACATGATGATGTGAGT
Found at i:2250172 original size:33 final size:30
Alignment explanation
Indices: 2250090--2250230 Score: 111
Period size: 33 Copynumber: 4.4 Consensus size: 30
2250080 AATCAAAATG
*
2250090 GACCTTCAAAATGTCCCAACATGATGATGT
1 GACCTTCAAAATGTCCCAACATGATGATAT
* * *
2250120 GAGTCTTCAAGATGTCCCAATCATTGATAATAT
1 GA-CCTTCAAAATGTCCCAA-CA-TGATGATAT
* * *
2250153 GGACCTTCAAAATGACCCAACATGACGATGT
1 -GACCTTCAAAATGTCCCAACATGATGATAT
* * * *
2250184 GAGTCTTCAAGATGTCCCAATTATTGATTATAT
1 GA-CCTTCAAAATGTCCCAA-CA-TGATGATAT
2250217 AGACCTTCAAAATG
1 -GACCTTCAAAATG
2250231 GCCCTCATTA
Statistics
Matches: 84, Mismatches: 19, Indels: 13
0.72 0.16 0.11
Matches are distributed among these distances:
30 4 0.05
31 35 0.42
32 5 0.06
33 36 0.43
34 4 0.05
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (30 bp):
GACCTTCAAAATGTCCCAACATGATGATAT
Found at i:2250188 original size:64 final size:64
Alignment explanation
Indices: 2250087--2250230 Score: 243
Period size: 64 Copynumber: 2.2 Consensus size: 64
2250077 TCTAATCAAA
* *
2250087 ATGGACCTTCAAAATGTCCCAACATGATGATGTGAGTCTTCAAGATGTCCCAATCATTGATAAT
1 ATGGACCTTCAAAATGACCCAACATGACGATGTGAGTCTTCAAGATGTCCCAATCATTGATAAT
* *
2250151 ATGGACCTTCAAAATGACCCAACATGACGATGTGAGTCTTCAAGATGTCCCAATTATTGATTAT
1 ATGGACCTTCAAAATGACCCAACATGACGATGTGAGTCTTCAAGATGTCCCAATCATTGATAAT
*
2250215 ATAGACCTTCAAAATG
1 ATGGACCTTCAAAATG
2250231 GCCCTCATTA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 75 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGGACCTTCAAAATGACCCAACATGACGATGTGAGTCTTCAAGATGTCCCAATCATTGATAAT
Found at i:2250603 original size:13 final size:13
Alignment explanation
Indices: 2250585--2250610 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2250575 AAGGGAATGG
2250585 TTTTGGTTCTTCA
1 TTTTGGTTCTTCA
2250598 TTTTGGTTCTTCA
1 TTTTGGTTCTTCA
2250611 AATTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (13 bp):
TTTTGGTTCTTCA
Found at i:2263063 original size:31 final size:31
Alignment explanation
Indices: 2263013--2263101 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
2263003 ATGATCTCCT
* * *
2263013 AATTATAGGGTATTGTTTTGTTGAGTCCCAC
1 AATTGTAGAGTATTATTTTGTTGAGTCCCAC
* *
2263044 AATTGTAGAGTATTATTTTGTTGACTCCCTC
1 AATTGTAGAGTATTATTTTGTTGAGTCCCAC
*
2263075 AATTGTAGAGTATTACTTTGTTGAGTC
1 AATTGTAGAGTATTATTTTGTTGAGTC
2263102 TCCAACTATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.24, C:0.12, G:0.20, T:0.44
Consensus pattern (31 bp):
AATTGTAGAGTATTATTTTGTTGAGTCCCAC
Found at i:2263659 original size:3 final size:3
Alignment explanation
Indices: 2263644--2263706 Score: 117
Period size: 3 Copynumber: 21.0 Consensus size: 3
2263634 AGAGAGATTT
*
2263644 GAG GAG AAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
2263692 GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG
2263707 AAATGAATTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:2271163 original size:9 final size:9
Alignment explanation
Indices: 2271135--2271168 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
2271125 ATATTAATCT
2271135 TTAATTAAA
1 TTAATTAAA
*
2271144 TT-ATAAAA
1 TTAATTAAA
2271152 TTAATTAAA
1 TTAATTAAA
2271161 TTAATTAA
1 TTAATTAA
2271169 CATAAGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTAATTAAA
Found at i:2272116 original size:23 final size:23
Alignment explanation
Indices: 2272086--2272140 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
2272076 AAAACTCCAT
2272086 TCACTATTCCGACCACCGGCCGG
1 TCACTATTCCGACCACCGGCCGG
*
2272109 TCACTATTCCGACCACCGGTCGG
1 TCACTATTCCGACCACCGGCCGG
*
2272132 TAACTATTC
1 TCACTATTC
2272141 ACGCTGCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.38, G:0.18, T:0.24
Consensus pattern (23 bp):
TCACTATTCCGACCACCGGCCGG
Found at i:2272901 original size:18 final size:18
Alignment explanation
Indices: 2272878--2272939 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
2272868 GCATGATTTG
2272878 TAATAATTTATAA-AATAA
1 TAATAATTT-TAATAATAA
*
2272896 TAATAATTTTAATTATAA
1 TAATAATTTTAATAATAA
* *
2272914 TAATAAGATATTATTAATAA
1 TAAT-A-ATTTTAATAATAA
2272934 TAATAA
1 TAATAA
2272940 AAGTAAAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
17 3 0.08
18 18 0.49
19 2 0.05
20 14 0.38
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAATAATTTTAATAATAA
Found at i:2272999 original size:7 final size:7
Alignment explanation
Indices: 2272983--2273016 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
2272973 TCATTATTTA
2272983 CATT-TT
1 CATTCTT
2272989 CATTCTT
1 CATTCTT
2272996 CATTCTT
1 CATTCTT
*
2273003 TATTCTT
1 CATTCTT
2273010 CATTCTT
1 CATTCTT
2273017 TACATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (7 bp):
CATTCTT
Found at i:2273009 original size:14 final size:14
Alignment explanation
Indices: 2272990--2273018 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
2272980 TTACATTTTC
2272990 ATTCTTCATTCTTT
1 ATTCTTCATTCTTT
2273004 ATTCTTCATTCTTT
1 ATTCTTCATTCTTT
2273018 A
1 A
2273019 CATTCATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.21, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTCTTCATTCTTT
Found at i:2276558 original size:15 final size:15
Alignment explanation
Indices: 2276546--2276595 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
2276536 AGAATGAATG
2276546 AATAAAAAATGAAAA
1 AATAAAAAATGAAAA
*
2276561 AATAAAAAATAAAAA
1 AATAAAAAATGAAAA
2276576 AATGAAAAAAAATGAAAA
1 AAT---AAAAAATGAAAA
2276594 AA
1 AA
2276596 GAGGAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
18 13 0.43
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (15 bp):
AATAAAAAATGAAAA
Found at i:2276577 original size:10 final size:11
Alignment explanation
Indices: 2276542--2276595 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
2276532 AGAAAGAATG
*
2276542 AATGAATAAAA
1 AATGAAAAAAA
2276553 AATGAAAAAATA
1 AATGAAAAAA-A
*
2276565 AA-AAATAAAAA
1 AATGAA-AAAAA
2276576 AATG-AAAAAA
1 AATGAAAAAAA
2276586 AATGAAAAAA
1 AATGAAAAAA
2276596 GAGGAAAAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
11 20 0.56
12 7 0.19
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (11 bp):
AATGAAAAAAA
Found at i:2276593 original size:19 final size:19
Alignment explanation
Indices: 2276542--2276624 Score: 70
Period size: 19 Copynumber: 4.5 Consensus size: 19
2276532 AGAAAGAATG
2276542 AATGAATAAAAAATG-AAAA
1 AATGAA-AAAAAATGAAAAA
2276561 AAT---AAAAAAT-AAAAA
1 AATGAAAAAAAATGAAAAA
2276576 AATGAAAAAAAATGAAAAA
1 AATGAAAAAAAATGAAAAA
* *
2276595 AGA-GGAAAAAAAGGAAAAA
1 A-ATGAAAAAAAATGAAAAA
*
2276614 GAAAGAAAAAA
1 -AATGAAAAAA
2276625 TGAAAAGAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
15 14 0.26
18 7 0.13
19 24 0.45
20 8 0.15
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.08
Consensus pattern (19 bp):
AATGAAAAAAAATGAAAAA
Found at i:2276594 original size:7 final size:7
Alignment explanation
Indices: 2276546--2276576 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
2276536 AGAATGAATG
2276546 AATAAAA
1 AATAAAA
2276553 AATGAAAA
1 AAT-AAAA
2276561 AATAAAA
1 AATAAAA
2276568 AATAAAA
1 AATAAAA
2276575 AA
1 AA
2276577 ATGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:2276602 original size:10 final size:9
Alignment explanation
Indices: 2276571--2276638 Score: 55
Period size: 10 Copynumber: 7.1 Consensus size: 9
2276561 AATAAAAAAT
*
2276571 AAAAAAATGA
1 AAAAAAA-GG
*
2276581 AAAAAAATG
1 AAAAAAAGG
2276590 AAAAAAGAGG
1 AAAAAA-AGG
2276600 AAAAAAAGG
1 AAAAAAAGG
*
2276609 AAAAAGAAAG
1 AAAAA-AAGG
* *
2276619 AAAAAATGA
1 AAAAAAAGG
2276628 AAAGAAAAGG
1 AAA-AAAAGG
2276638 A
1 A
2276639 GGGTTCGAGA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
9 18 0.39
10 28 0.61
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.04
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:2276622 original size:18 final size:17
Alignment explanation
Indices: 2276601--2276634 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2276591 AAAAAGAGGA
2276601 AAAAAAGGAAAAAGAAAG
1 AAAAAAGG-AAAAGAAAG
*
2276619 AAAAAATGAAAAGAAA
1 AAAAAAGGAAAAGAAA
2276635 AGGAGGGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (17 bp):
AAAAAAGGAAAAGAAAG
Found at i:2276630 original size:8 final size:8
Alignment explanation
Indices: 2276549--2276595 Score: 60
Period size: 8 Copynumber: 5.8 Consensus size: 8
2276539 ATGAATGAAT
2276549 AAAAAATG
1 AAAAAATG
2276557 AAAAAAT-
1 AAAAAATG
*
2276564 AAAAAATA
1 AAAAAATG
2276572 AAAAAATG
1 AAAAAATG
2276580 AAAAAAAATG
1 --AAAAAATG
2276590 AAAAAA
1 AAAAAA
2276596 GAGGAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
7 7 0.20
8 20 0.57
10 8 0.23
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:2276636 original size:18 final size:18
Alignment explanation
Indices: 2276564--2276636 Score: 69
Period size: 18 Copynumber: 3.9 Consensus size: 18
2276554 ATGAAAAAAT
*
2276564 AAAAAAT-AAAAAAATGAA
1 AAAAAATGAAAAAAAAG-A
*
2276582 AAAAAATGAAAAAAGAGGA
1 AAAAAATGAAAAAA-AAGA
*
2276601 AAAAAAGGAAAAAGAAAG-
1 AAAAAATGAAAAA-AAAGA
2276619 AAAAAATGAAAAGAAAAG
1 AAAAAATGAAAA-AAAAG
2276637 GAGGGTTCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
18 22 0.47
19 22 0.47
20 3 0.06
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAAAATGAAAAAAAAGA
Found at i:2277746 original size:103 final size:105
Alignment explanation
Indices: 2277561--2277827 Score: 477
Period size: 103 Copynumber: 2.6 Consensus size: 105
2277551 CAACAACTAT
*
2277561 AATTCACCCCAGAAGGAGGTGAATC-ACTATTTCCAGAAGAGTTCATACTGAGAAGAACTCGTCC
1 AATTCACCCCAGAAGGAGGTGAATCAAC-ATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCC
2277625 TAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
65 TAAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
2277666 AA-TC-CCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT
*
2277729 AAAGGAGAAGGTTCGTAATGAGAAGAGCCTGTTCCTTTCA
66 AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
*
2277769 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGATAAGAACT
1 AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACT
2277828 TGTTCAACCT
Statistics
Matches: 156, Mismatches: 3, Indels: 6
0.95 0.02 0.04
Matches are distributed among these distances:
103 96 0.62
104 6 0.04
105 54 0.35
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (105 bp):
AATTCACCCCAGAAGGAGGTGAATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCGTCCT
AAAGGAGAAGGTTCGTAATGAGAAGAGCATGTTCCTTTCA
Found at i:2280969 original size:31 final size:33
Alignment explanation
Indices: 2280921--2280999 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
2280911 TTTAAATAGT
* *
2280921 TATTATATTTTATATT-AAT-ATATTTATGTAAA
1 TATTAT-TTTTTTATTAAATAATATTTATATAAA
*
2280953 TATTATTTTTTTATTAAAATAATATTTATATAAT
1 TATTATTTTTTTATT-AAATAATATTTATATAAA
*
2280987 TATTATTTATTTA
1 TATTATTTTTTTA
2281000 AATTTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 8 0.20
32 6 0.15
33 3 0.08
34 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (33 bp):
TATTATTTTTTTATTAAATAATATTTATATAAA
Found at i:2280991 original size:34 final size:31
Alignment explanation
Indices: 2280911--2281022 Score: 88
Period size: 34 Copynumber: 3.6 Consensus size: 31
2280901 TTAGTATTTT
* * *
2280911 TTTAAATAGTTATTATATTTTATATTAATATA
1 TTTATATAATTATTAT-TTTTTTATTAATATA
* *
2280943 TTTATGTAAATATTATTTTTTTATTAAAATAATA
1 TTTATATAATTATTATTTTTTTATT--AAT-ATA
* *
2280977 TTTATATAATTATTATTTATTTA--AATTTA
1 TTTATATAATTATTATTTTTTTATTAATATA
*
2281006 TTAAT-TAATTATT-TTTT
1 TTTATATAATTATTATTTT
2281023 GTGCTAATTA
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
27 3 0.05
28 8 0.12
29 6 0.09
30 3 0.05
31 8 0.12
32 12 0.18
33 3 0.05
34 23 0.35
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
TTTATATAATTATTATTTTTTTATTAATATA
Found at i:2282758 original size:21 final size:21
Alignment explanation
Indices: 2282728--2282775 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
2282718 GCAGGGGTAC
* *
2282728 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
*
2282749 ATGCCAAGCCCACCAGTTCAT
1 ATGCCAAGCCCACCACTTCAT
2282770 ATGCCA
1 ATGCCA
2282776 TCTCCGCAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.12, T:0.21
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2282805 original size:21 final size:21
Alignment explanation
Indices: 2282779--2282893 Score: 180
Period size: 21 Copynumber: 5.5 Consensus size: 21
2282769 TATGCCATCT
*
2282779 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCTAGC
2282800 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
*
2282821 CCGCCA-GGTTACATTCCGAGC
1 CCG-CAGGGTTACATTCCTAGC
2282842 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCTAGC
2282863 CCGCCA-GGTTACATTCCTAGC
1 CCG-CAGGGTTACATTCCTAGC
2282884 CCGCAGGGTT
1 CCGCAGGGTT
2282894 TTATACCATA
Statistics
Matches: 87, Mismatches: 3, Indels: 8
0.89 0.03 0.08
Matches are distributed among these distances:
20 4 0.05
21 79 0.91
22 4 0.05
ACGTcount: A:0.18, C:0.35, G:0.25, T:0.22
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCTAGC
Found at i:2282832 original size:42 final size:42
Alignment explanation
Indices: 2282785--2282893 Score: 209
Period size: 42 Copynumber: 2.6 Consensus size: 42
2282775 ATCTCCGCAG
2282785 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
2282827 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
1 GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
*
2282869 GGTTACATTCCTAGCCCGCAGGGTT
1 GGTTACATTCCGAGCCCGCAGGGTT
2282894 TTATACCATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.18, C:0.34, G:0.25, T:0.23
Consensus pattern (42 bp):
GGTTACATTCCGAGCCCGCAGGGTTACATTCCTAGCCCGCCA
Found at i:2283519 original size:34 final size:34
Alignment explanation
Indices: 2283414--2283520 Score: 169
Period size: 34 Copynumber: 3.1 Consensus size: 34
2283404 ATAAATGTTT
2283414 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* *
2283448 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
2283482 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
2283516 TTAAA
1 TTAAA
2283521 TTTCAACTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:2284144 original size:128 final size:128
Alignment explanation
Indices: 2283916--2284353 Score: 795
Period size: 128 Copynumber: 3.4 Consensus size: 128
2283906 ACAATCCATC
*
2283916 TAGTGTCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
2283981 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
2284044 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
*
2284109 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGATACTGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
2284172 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAGCATATTCTCAGACAAAATAAT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
* * *
2284237 GGAAGGTGCGCCCCCGGGAACGTGCCTTCAAGTCCCCTGAGAAATAATAGGTAATGATATGAA
66 GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
* *
2284300 TAGTATCCCTGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
1 TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCT
2284354 AAAAATGAGT
Statistics
Matches: 298, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 298 1.00
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (128 bp):
TAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAAT
GGAAGGCGCGCCCCCGGGAACGCGCCTTCAAGTCCCCTGAGAAATAATAGGTACTGATATGAA
Found at i:2289946 original size:31 final size:31
Alignment explanation
Indices: 2289900--2289993 Score: 111
Period size: 31 Copynumber: 3.1 Consensus size: 31
2289890 ATCTTCTAAT
*
2289900 TATAG-GTATTGTTTTGTTGAGTCCCACAAC
1 TATAGAGTATTATTTTGTTGAGTCCCACAAC
* * *
2289930 TGTAGAGTATTATTTTGTTGACTCCCTCAAC
1 TATAGAGTATTATTTTGTTGAGTCCCACAAC
* * *
2289961 TATAGAGTATTACTTTATTGAGTCTC-CAAC
1 TATAGAGTATTATTTTGTTGAGTCCCACAAC
2289991 TAT
1 TAT
2289994 TAAAAGTTAC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 11 0.20
31 43 0.80
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.41
Consensus pattern (31 bp):
TATAGAGTATTATTTTGTTGAGTCCCACAAC
Found at i:2293044 original size:14 final size:14
Alignment explanation
Indices: 2293025--2293052 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2293015 CAAATTCGTT
2293025 AGAATAATTTCTTG
1 AGAATAATTTCTTG
2293039 AGAATAATTTCTTG
1 AGAATAATTTCTTG
2293053 GCATAGCAAA
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:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
AGAATAATTTCTTG
Found at i:2301107 original size:20 final size:20
Alignment explanation
Indices: 2301078--2301130 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
2301068 GCAGTCTTGG
* *
2301078 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAACAGGA
2301098 TGCATCGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
2301118 TGCATCGATGCAC
1 TGCATCGATGCAC
2301131 TAATTGCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.25, G:0.28, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:2301477 original size:12 final size:12
Alignment explanation
Indices: 2301460--2301486 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2301450 AAAAGATACC
2301460 AATTGTTAACAA
1 AATTGTTAACAA
2301472 AATTGTTAACAA
1 AATTGTTAACAA
2301484 AAT
1 AAT
2301487 GATATCAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (12 bp):
AATTGTTAACAA
Found at i:2304625 original size:20 final size:20
Alignment explanation
Indices: 2304602--2304714 Score: 163
Period size: 20 Copynumber: 5.7 Consensus size: 20
2304592 TGCAGCTTGG
* *
2304602 TGCATGGATGCACAGCAGGA
1 TGCATCGATGCACAACAGGA
*
2304622 TGCATCGATGCACAACAAGA
1 TGCATCGATGCACAACAGGA
* *
2304642 TGTATCGATGCACAACAAGA
1 TGCATCGATGCACAACAGGA
2304662 TGCATCGATGCACAACAGGA
1 TGCATCGATGCACAACAGGA
* *
2304682 TGGATCGATGCACAGCAGGA
1 TGCATCGATGCACAACAGGA
2304702 TGCATCGATGCAC
1 TGCATCGATGCAC
2304715 TAATTGCATT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 84 1.00
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.17
Consensus pattern (20 bp):
TGCATCGATGCACAACAGGA
Found at i:2309749 original size:30 final size:30
Alignment explanation
Indices: 2309714--2309771 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
2309704 ATTTATTTAA
* *
2309714 TGACCAAATTATAAA-TTTGGTAAAGTTTGG
1 TGACCAAAGTATAAACTTT-GAAAAGTTTGG
2309744 TGACCAAAGTATAAACTTTGAAAAGTTT
1 TGACCAAAGTATAAACTTTGAAAAGTTT
2309772 AAGGACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (30 bp):
TGACCAAAGTATAAACTTTGAAAAGTTTGG
Found at i:2309779 original size:30 final size:30
Alignment explanation
Indices: 2309709--2309781 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
2309699 AATGGATTTA
* * *
2309709 TTTAATGACCAAATTATAAATTTGGTAAAG
1 TTTAAGGACCAAAGTATAAATTTGGAAAAG
*
2309739 TTT-GGTGACCAAAGTATAAACTTT-GAAAAG
1 TTTAAG-GACCAAAGTATAAA-TTTGGAAAAG
2309769 TTTAAGGACCAAA
1 TTTAAGGACCAAA
2309782 ATGTAATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
30 31 0.89
31 4 0.11
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (30 bp):
TTTAAGGACCAAAGTATAAATTTGGAAAAG
Found at i:2311678 original size:40 final size:40
Alignment explanation
Indices: 2311623--2311704 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
2311613 TGCAGGTTTA
2311623 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2311663 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
2311703 TA
1 TA
2311705 GTACTACAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:2311878 original size:21 final size:21
Alignment explanation
Indices: 2311810--2311878 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
2311800 TAAGCATGAA
*
2311810 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACAAGCTTATGG
**
2311831 AATAA--TGGCAAG-TATATTGG
1 AATAAGCTTACAAGCT-TA-TGG
2311851 TAAATAAGCTTACAAGCTTATGG
1 --AATAAGCTTACAAGCTTATGG
2311874 AATAA
1 AATAA
2311879 ATGGTAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 3 0.08
21 10 0.28
22 5 0.14
23 3 0.08
24 7 0.19
25 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AATAAGCTTACAAGCTTATGG
Found at i:2311921 original size:21 final size:21
Alignment explanation
Indices: 2311896--2311965 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
2311886 GTATTGGTAA
2311896 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGCTTATGG
**
2311917 AATAAATTGTA--AG-TATATTGG
1 AATAAGCT-TACGAGCT-TA-TGG
2311938 TAAATAAGCTTACGAGCTTATGG
1 --AATAAGCTTACGAGCTTATGG
2311961 AATAA
1 AATAA
2311966 ATGGTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 14 0.38
22 4 0.11
23 9 0.24
24 4 0.11
25 1 0.03
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (21 bp):
AATAAGCTTACGAGCTTATGG
Found at i:2311956 original size:87 final size:87
Alignment explanation
Indices: 2311791--2312013 Score: 330
Period size: 87 Copynumber: 2.6 Consensus size: 87
2311781 TTTATTGCTT
*
2311791 AATAAATGGTAAGCA-T-G-AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AATAAATGGTAAGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
2311852 AAATAAGCTTACAAGCTTATGG
66 AAATAAGCTTACAAGCTTATGG
* *
2311874 AATAAATGGTAAGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATTGTAAGTATATTGGT
1 AATAAATGGTAAGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
*
2311939 AAATAAGCTTACGAGCTTATGG
66 AAATAAGCTTACAAGCTTATGG
* *
2311961 AATAAATGGTAAATATATTGGTAAAATAAGCTTACAAGCTTATCGG-ATAAATG
1 AATAAATGGT-AA-GTATTGGTAAAATAAGCTTACGAGCTTAT-GGAATAAATG
2312014 ATAAGAAATT
Statistics
Matches: 126, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
83 14 0.11
84 1 0.01
85 1 0.01
86 26 0.21
87 47 0.37
88 2 0.02
89 33 0.26
90 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (87 bp):
AATAAATGGTAAGTATTGGTAAAATAAGCTTACGAGCTTATGGAATAAATGGCAAGTATATTGGT
AAATAAGCTTACAAGCTTATGG
Found at i:2311958 original size:44 final size:45
Alignment explanation
Indices: 2311808--2312018 Score: 317
Period size: 43 Copynumber: 4.8 Consensus size: 45
2311798 GGTAAGCATG
*
2311808 AAAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2311852 -AAATAAGCTTACAAGCTTATGGAATAAATGGTAAG--TATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2311894 AAAATAAGCTTACGAGCTTATGGAATAAATTGTAAGTATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
*
2311939 -AAATAAGCTTACGAGCTTATGGAATAAATGGTAAATATATTGGT
1 AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
* *
2311983 AAAATAAGCTTACAAGCTTATCGG-ATAAATGATAAG
1 AAAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
2312019 AAATTTTATA
Statistics
Matches: 152, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
42 7 0.05
43 57 0.38
44 50 0.33
45 36 0.24
46 2 0.01
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT
Found at i:2312511 original size:13 final size:13
Alignment explanation
Indices: 2312493--2312531 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
2312483 CCCATTGTTC
2312493 ACTGTTCAC-ATGT
1 ACTGTTCACTAT-T
2312506 ACTGTTCACTATT
1 ACTGTTCACTATT
2312519 ACTGTTCACTATT
1 ACTGTTCACTATT
2312532 CACTATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 23 0.92
14 2 0.08
ACGTcount: A:0.23, C:0.23, G:0.10, T:0.44
Consensus pattern (13 bp):
ACTGTTCACTATT
Found at i:2315311 original size:113 final size:112
Alignment explanation
Indices: 2314922--2315392 Score: 698
Period size: 113 Copynumber: 4.2 Consensus size: 112
2314912 AACTTTCAAC
* *
2314922 AAAGTATCGATACATTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCAGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGT
* *
2314987 TTTATCATAATGAAACTGATTTTGTCATATTTTTAGTTGTTATATTGT
66 TTTGTCATAATGAAACTGATTTTGTCATATTTTTA-CTGTTATATTGT
* *
2315035 AAAGTATCGAT-CCTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCAGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGT
* *
2315099 TTTGTCATAATGAAACTGGTTTTGTCATA-TTTTACTGTTATATTGG
66 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACTGTTATATTGT
* * *
2315145 AAAGCATCGAT-CTTTTTTATAAAAA-GATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGT
*
2315208 TTTGTCATAATGAAACTGATTTTGTCATACTTTTACATGTTATATTGT
66 TTTGTCATAATGAAACTGATTTTGTCATATTTTTAC-TGTTATATTGT
* * * *
2315256 AAAGTATCGATACATTTTTATAAAAAGGATCGATGCTTTCAATATATCCGGTAAATTTTACCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGT
* * * *
2315321 TTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTATTATATTAT
66 TTTGTCATAATGAAACTGATTTTGTCATATTTTTA-CTGTTATATTGT
*
2315369 AAAGTATCGATATATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
2315393 GTATCGATAC
Statistics
Matches: 328, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
109 64 0.20
110 39 0.12
111 25 0.08
112 89 0.27
113 110 0.34
114 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (112 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCAGT
TTTGTCATAATGAAACTGATTTTGTCATATTTTTACTGTTATATTGT
Found at i:2315382 original size:18 final size:18
Alignment explanation
Indices: 2315361--2315408 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 18
2315351 TTTTACCTAT
2315361 TATATTATAAAGTATCGA
1 TATATTATAAAGTATCGA
2315379 TATATTTTTATAAAGTATCGA
1 TATA---TTATAAAGTATCGA
*
2315400 TACATTATA
1 TATATTATA
2315409 TGTGCTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 9 0.35
21 17 0.65
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (18 bp):
TATATTATAAAGTATCGA
Found at i:2315697 original size:23 final size:23
Alignment explanation
Indices: 2315648--2315691 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2315638 ACTTATTTTA
*
2315648 TTATATAAGCGCTACCTATTACG
1 TTATATAAGCGCTACCTAATACG
* *
2315671 TTATATAAGTGTTACCTAATA
1 TTATATAAGCGCTACCTAATA
2315692 TTTTATTGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (23 bp):
TTATATAAGCGCTACCTAATACG
Found at i:2315778 original size:87 final size:87
Alignment explanation
Indices: 2315632--2315840 Score: 346
Period size: 87 Copynumber: 2.4 Consensus size: 87
2315622 AACAAATAAA
* * * *
2315632 TAATTAACTTATTTTATTATATAAGCGCTACCTATTACGTTATATAAGTGTTACCTAATATTTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGATACCTAATATGTTA
2315697 TTGTGCTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
* *
2315719 TAATTAACCTATTTTATTATATAAGCGCTATCTATTACATTATATAAGTGATACTTAATATGTTA
1 TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGATACCTAATATGTTA
*
2315784 TTGTGTTTGATAATGTTTCCAG
66 TTGTGCTTGATAATGTTTCCAG
*
2315806 TAATTAACCTATTTTATTATATAAACGCTACCTAT
1 TAATTAACCTATTTTATTATATAAGCGCTACCTAT
2315841 GTGGAAAACA
Statistics
Matches: 113, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 113 1.00
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.45
Consensus pattern (87 bp):
TAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGTGATACCTAATATGTTA
TTGTGCTTGATAATGTTTCCAG
Found at i:2316353 original size:113 final size:113
Alignment explanation
Indices: 2316155--2316740 Score: 851
Period size: 113 Copynumber: 5.2 Consensus size: 113
2316145 AACTTTCAAC
* ** * *
2316155 AAAGTATCGATACATTTTTATAAAAAGTATTTATACTTTCAACATATCATGTAAATTTTACCAGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
2316220 TTTGTCATAATGAAGCTGGTTTTGTCATATTTTTACTTGTTATATTGT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
*
2316268 AAAGTATCGAT-CATTTTTTATAAAAAGGATCGATACTTTCAACATATCAGATAAATTTTACCGG
1 AAAGTATCGATACA-TTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGG
*
2316332 TTTTGTCATAATAAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * *
2316381 AAAGAATCAAT-CCTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGGT
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
2316445 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTAT
66 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * * * *
2316493 AAAATATCGAT-CATTTTTATGAAAAGGATCGATACTTTACAATATATTAGGTAAATTTTACCAG
1 AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTT-CAACATATCAGGTAAATTTTACCGG
* *
2316557 TTTTGTCATAATGAAACTGGTTTTTTCATATTTTT-CCTGTTATATTAT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
* * *
2316605 AAAGTATCGATACATTTTTATAAAAAATGATTGATACTTTCAACATATCCGGTAAATTTTACCGG
1 AAAGTATCGATACATTTTTAT-AAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGG
* * *
2316670 TTTTATCATAATGAAACTAGTTTTGTC--ATTTTTATCTGTTATATTGT
65 TTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
2316717 AAAGTATCGATACATTTTTATAAA
1 AAAGTATCGATACATTTTTATAAA
2316741 GTATCGATAC
Statistics
Matches: 427, Mismatches: 41, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
111 9 0.02
112 184 0.43
113 219 0.51
114 15 0.04
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (113 bp):
AAAGTATCGATACATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT
Found at i:2316562 original size:225 final size:223
Alignment explanation
Indices: 2316155--2316750 Score: 849
Period size: 225 Copynumber: 2.7 Consensus size: 223
2316145 AACTTTCAAC
* * * * * *
2316155 AAAGTATCGATACATTTTTATAAAAAGTATTTATACTTTCAACATATCATGTAAATTTTACCAGT
1 AAAGAATCAATACATTTTTATAAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGGT
* * *
2316220 TTTGTCATAATGAAGCTGGTTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCGATCATTTT
66 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCA-TTT
*
2316285 TTATAAAAAGGATCGATACTTTCAACATATCAGATAAATTTTACCGGTTTTGTCATAATAAAACT
130 TTAT-AAAAGGATCGATACTTTCAACATATCAGATAAATTTTACCAGTTTTGTCATAATAAAACT
*
2316350 GGTTTTGTCATATTTTTACCTGTTATATTGT
194 GGTTTTGTCATATTTTT-CCTGTTATATTAT
* * *
2316381 AAAGAATCAAT-CCTTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTATCGGT
1 AAAGAATCAATACATTTTTATAAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGGT
* *
2316445 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTATAAAATATCGATCATTTT
66 TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTT
* * * *
2316510 TATGAAAAGGATCGATACTTTACAATATATTAGGTAAATTTTACCAGTTTTGTCATAATGAAACT
131 TAT-AAAAGGATCGATACTTT-CAACATATCAGATAAATTTTACCAGTTTTGTCATAATAAAACT
*
2316575 GGTTTTTTCATATTTTTCCTGTTATATTAT
194 GGTTTTGTCATATTTTTCCTGTTATATTAT
* * * *
2316605 AAAGTATCGATACATTTTTATAAAAAATGATTGATACTTTCAACATATCCGGTAAATTTTACCGG
1 AAAGAATCAATACATTTTTAT-AAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGG
* *
2316670 TTTTATCATAATGAAACTAGTTTTGTC--ATTTTTATCTGTTATATTGTAAAGTATCGATACATT
65 TTTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGAT-CATT
*
2316733 TTTAT-AAAGTATCGATAC
129 TTTATAAAAGGATCGATAC
2316751 ATTTTTATAA
Statistics
Matches: 332, Mismatches: 34, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
223 12 0.04
224 73 0.22
225 173 0.52
226 74 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (223 bp):
AAAGAATCAATACATTTTTATAAAAAGGATTGATACTTTCAACATATCAGGTAAATTTTACCGGT
TTTATCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCGATCATTTT
TATAAAAGGATCGATACTTTCAACATATCAGATAAATTTTACCAGTTTTGTCATAATAAAACTGG
TTTTGTCATATTTTTCCTGTTATATTAT
Done.