Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 194 of 204
Found at i:57306441 original size:14 final size:14
Alignment explanation
Indices: 57306400--57306451 Score: 54
Period size: 15 Copynumber: 3.7 Consensus size: 14
57306390 GATTTTTTTG
57306400 TCTTTTTTTTG--T
1 TCTTTTTTTTGTTT
* *
57306412 CCTTTTTTTTCTTTT
1 TCTTTTTTTT-GTTT
57306427 TCTTTTTTTTGTTT
1 TCTTTTTTTTGTTT
57306441 TCTTTTCTTTT
1 TCTTTT-TTTT
57306452 TCTTTTCATG
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
12 9 0.28
14 9 0.28
15 14 0.44
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (14 bp):
TCTTTTTTTTGTTT
Found at i:57310151 original size:15 final size:15
Alignment explanation
Indices: 57310131--57310183 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
57310121 CTTTTCCTTT
57310131 TTTTTTAAACACGAA
1 TTTTTTAAACACGAA
*
57310146 TTTTTTAAAATACAAGAA
1 TTTTTT--AA-ACACGAA
**
57310164 TTTTAGAAACACGAA
1 TTTTTTAAACACGAA
57310179 TTTTT
1 TTTTT
57310184 AAAAAAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
15 16 0.53
16 2 0.07
17 2 0.07
18 10 0.33
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (15 bp):
TTTTTTAAACACGAA
Found at i:57310210 original size:16 final size:16
Alignment explanation
Indices: 57310189--57310246 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
57310179 TTTTTAAAAA
57310189 AAACACGAAAATTTTG
1 AAACACGAAAATTTTG
**
57310205 AAACACGAGATTTCTTTG
1 AAACACGA-AAAT-TTTG
*
57310223 GAACACGAAAATTTATG
1 AAACACGAAAATTT-TG
57310240 AAACACG
1 AAACACG
57310247 GTCAATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
16 10 0.30
17 12 0.36
18 11 0.33
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.24
Consensus pattern (16 bp):
AAACACGAAAATTTTG
Found at i:57310280 original size:19 final size:20
Alignment explanation
Indices: 57310258--57310299 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
57310248 TCAATTTCTT
57310258 AAAACGCGAAA-GTTTTTGA
1 AAAACGCGAAATGTTTTTGA
* *
57310277 AAAACGGGAAATTTTTTTGA
1 AAAACGCGAAATGTTTTTGA
57310297 AAA
1 AAA
57310300 CACGAGAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (20 bp):
AAAACGCGAAATGTTTTTGA
Found at i:57310295 original size:20 final size:20
Alignment explanation
Indices: 57310270--57310312 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
57310260 AACGCGAAAG
*
57310270 TTTTTGAAAA-ACGGGAAATT
1 TTTTTGAAAACACGAG-AATT
57310290 TTTTTGAAAACACGAGAATT
1 TTTTTGAAAACACGAGAATT
57310310 TTT
1 TTT
57310313 AAAAAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (20 bp):
TTTTTGAAAACACGAGAATT
Found at i:57310366 original size:19 final size:18
Alignment explanation
Indices: 57310188--57310367 Score: 104
Period size: 18 Copynumber: 9.9 Consensus size: 18
57310178 ATTTTTAAAA
57310188 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
* *
57310205 -AAACACGAGATTTCTTTG
1 AAAACACGAAAATT-TTTG
* *
57310223 -GAACACGAAAATTTATG
1 AAAACACGAAAATTTTTG
**
57310240 -AAACACGGTCAATTTCTT-
1 AAAACAC-GAAAATTT-TTG
* *
57310258 AAAACGCGAAAGTTTTTG
1 AAAACACGAAAATTTTTG
*
57310276 AAAA-ACGGGAAATTTTTTTG
1 AAAACAC--GAAA-ATTTTTG
* *
57310296 AAAACACGAGAATTTTTAA
1 AAAACACGAAAATTTTT-G
*
57310315 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* **
57310333 -CAACACGGGAATTTTTG
1 AAAACACGAAAATTTTTG
57310350 AAAACACGAAAAATTTTT
1 AAAACACG-AAAATTTTT
57310368 ATTAAGCACG
Statistics
Matches: 121, Mismatches: 29, Indels: 24
0.70 0.17 0.14
Matches are distributed among these distances:
16 9 0.07
17 25 0.21
18 40 0.33
19 35 0.29
20 10 0.08
21 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:57310695 original size:17 final size:16
Alignment explanation
Indices: 57310664--57310716 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 16
57310654 TTAAAATTAT
57310664 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
* *
57310680 TAAAAATCAAATTAAAT
1 TAAAAAT-AAAATAAAA
57310697 TAAAAATATAAATATAAA
1 TAAAAATA-AAATA-AAA
57310715 TA
1 TA
57310717 TGCATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 8 0.27
17 18 0.60
18 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:57310858 original size:7 final size:7
Alignment explanation
Indices: 57310846--57310935 Score: 87
Period size: 7 Copynumber: 12.6 Consensus size: 7
57310836 TTGAACCTCT
57310846 TTTTTTC
1 TTTTTTC
57310853 TTTTTTC
1 TTTTTTC
57310860 TTTTTTC
1 TTTTTTC
57310867 TTTTTTC
1 TTTTTTC
57310874 TTTTTTC
1 TTTTTTC
57310881 TTTTTTTCC
1 -TTTTTT-C
57310890 TTCTTTT-
1 TT-TTTTC
**
57310897 TTCCTTC
1 TTTTTTC
57310904 TCTTTTTC
1 T-TTTTTC
57310912 TTCTTTT-
1 TT-TTTTC
*
57310919 TCTTTTC
1 TTTTTTC
57310926 TTTTTT-
1 TTTTTTC
57310932 TTTT
1 TTTT
57310936 CTCTGCTGGG
Statistics
Matches: 70, Mismatches: 6, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
6 10 0.14
7 38 0.54
8 17 0.24
9 5 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTTC
Found at i:57310898 original size:11 final size:10
Alignment explanation
Indices: 57310845--57310931 Score: 88
Period size: 11 Copynumber: 8.5 Consensus size: 10
57310835 ATTGAACCTC
57310845 TTTTT-TTCT
1 TTTTTCTTCT
*
57310854 TTTTTCTTTT
1 TTTTTCTTCT
*
57310864 TTCTTTTTTCT
1 TT-TTTCTTCT
57310875 TTTTTCTT-T
1 TTTTTCTTCT
*
57310884 TTTTCCTTCT
1 TTTTTCTTCT
57310894 TTTTTCCTTCT
1 TTTTT-CTTCT
57310905 CTTTTTCTTCT
1 -TTTTTCTTCT
*
57310916 TTTTCTTTTCT
1 TTTT-TCTTCT
57310927 TTTTT
1 TTTTT
57310932 TTTTCTCTGC
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
9 13 0.20
10 20 0.31
11 27 0.42
12 5 0.08
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:57311110 original size:15 final size:15
Alignment explanation
Indices: 57311090--57311127 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
57311080 TTTGGGGGGC
57311090 TTGTTTCTT-TTTTTT
1 TTGTTT-TTGTTTTTT
57311105 TTGTTTTTGTTTTTT
1 TTGTTTTTGTTTTTT
57311120 TTGTTTTT
1 TTGTTTTT
57311128 TCTTGGGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 2 0.09
15 20 0.91
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (15 bp):
TTGTTTTTGTTTTTT
Found at i:57311229 original size:7 final size:7
Alignment explanation
Indices: 57311208--57311253 Score: 71
Period size: 7 Copynumber: 7.0 Consensus size: 7
57311198 TTATTATTTC
57311208 TTTTC-T
1 TTTTCTT
57311214 TTTTC-T
1 TTTTCTT
57311220 TTTTC-T
1 TTTTCTT
57311226 TTTTCTT
1 TTTTCTT
57311233 TTTTCTT
1 TTTTCTT
57311240 TTTTCTT
1 TTTTCTT
57311247 TTTTCTT
1 TTTTCTT
57311254 CTTCTTCTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
6 17 0.44
7 22 0.56
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTCTT
Found at i:57311257 original size:3 final size:3
Alignment explanation
Indices: 57311205--57311324 Score: 164
Period size: 3 Copynumber: 42.3 Consensus size: 3
57311195 TTTTTATTAT
* * *
57311205 TTC TT- TTC TTT TTC TTT TTC TTT TTC TT- TT- TTC TT- TT- TTC TT-
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
57311247 TT- TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
57311294 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
57311325 CCGTTCGGTC
Statistics
Matches: 107, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
2 14 0.13
3 93 0.87
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (3 bp):
TTC
Found at i:57311758 original size:30 final size:30
Alignment explanation
Indices: 57311716--57311817 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
57311706 ATTTAGGATT
* *
57311716 AAAATCAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
57311746 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
57311776 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
57311806 AAAATGCAATTT
1 AAAATGAAATTT
57311818 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.05, G:0.22, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:57312970 original size:29 final size:29
Alignment explanation
Indices: 57312927--57313038 Score: 95
Period size: 28 Copynumber: 3.9 Consensus size: 29
57312917 CGATTTCATT
* *
57312927 TTTTTAAA-TTATATTTTAACCCCTCAAC
1 TTTTTAAATTTGTATTTTAACCCCTAAAC
* *
57312955 TTTTTAAATTTGTA-TTTGACCCCTAAAA
1 TTTTTAAATTTGTATTTTAACCCCTAAAC
* * * **
57312983 TTTTTAAAAATTGCATTTTGACCTTTAAAC
1 TTTTT-AAATTTGTATTTTAACCCCTAAAC
57313013 TTTTTTTAAATTT-TATTTTAACCCCT
1 --TTTTTAAATTTGTATTTTAACCCCT
57313039 GGACTTTCTT
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
28 24 0.37
29 11 0.17
30 20 0.31
31 5 0.08
32 5 0.08
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.50
Consensus pattern (29 bp):
TTTTTAAATTTGTATTTTAACCCCTAAAC
Found at i:57313031 original size:30 final size:30
Alignment explanation
Indices: 57312925--57313038 Score: 99
Period size: 30 Copynumber: 3.9 Consensus size: 30
57312915 CTCGATTTCA
* * *
57312925 TTTTTTTAAATTATATTTTAACCCCTCAAC
1 TTTTTTTAAATTTTATTTTGACCCCTAAAC
*
57312955 --TTTTTAAATTTGTA-TTTGACCCCTAAAA
1 TTTTTTTAAATTT-TATTTTGACCCCTAAAC
** ** **
57312983 TTTTTAAAAATTGCATTTTGACCTTTAAAC
1 TTTTTTTAAATTTTATTTTGACCCCTAAAC
*
57313013 TTTTTTTAAATTTTATTTTAACCCCT
1 TTTTTTTAAATTTTATTTTGACCCCT
57313039 GGACTTTCTT
Statistics
Matches: 62, Mismatches: 18, Indels: 8
0.70 0.20 0.09
Matches are distributed among these distances:
28 21 0.34
29 3 0.05
30 38 0.61
ACGTcount: A:0.30, C:0.16, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTTTTAAATTTTATTTTGACCCCTAAAC
Found at i:57313333 original size:20 final size:20
Alignment explanation
Indices: 57313310--57313369 Score: 63
Period size: 21 Copynumber: 3.1 Consensus size: 20
57313300 AAAAACTTGC
57313310 GAAAAAGAGAAAAAGAAGAG
1 GAAAAAGAGAAAAAGAAGAG
*
57313330 GAAAAAAGAGAGAAAG-AGAG
1 G-AAAAAGAGAAAAAGAAGAG
* *
57313350 GAGAAAG-G-AGAAGAAGAG
1 GAAAAAGAGAAAAAGAAGAG
57313368 GA
1 GA
57313370 GAGGGTCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.09
18 7 0.21
19 5 0.15
20 6 0.18
21 13 0.38
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAAAAAGAGAAAAAGAAGAG
Found at i:57313335 original size:21 final size:21
Alignment explanation
Indices: 57313311--57313366 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
57313301 AAAACTTGCG
57313311 AAAAAGAGAAAAAGAAGAGGA
1 AAAAAGAGAAAAAGAAGAGGA
*
57313332 AAAAAGAGAGAAAG-AGAGGA
1 AAAAAGAGAAAAAGAAGAGGA
* * *
57313352 GAAAGGAGAAGAAGA
1 AAAAAGAGAAAAAGA
57313367 GGAGAGGGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (21 bp):
AAAAAGAGAAAAAGAAGAGGA
Found at i:57313360 original size:18 final size:19
Alignment explanation
Indices: 57313322--57313371 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
57313312 AAAAGAGAAA
*
57313322 AAGAAGAGGAAAAAAGAGAG
1 AAGAAGAGG-AGAAAGAGAG
57313342 AA-AGAGAGGAGAAAG-GAG
1 AAGA-AGAGGAGAAAGAGAG
57313360 AAGAAGAGGAGA
1 AAGAAGAGGAGA
57313372 GGGTCCTACG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 13 0.48
19 7 0.26
20 7 0.26
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (19 bp):
AAGAAGAGGAGAAAGAGAG
Found at i:57313482 original size:7 final size:6
Alignment explanation
Indices: 57313459--57313492 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
57313449 GAGGAGGAAG
57313459 AAGAAA AAGAAA AAGAAA AGAGAAA AGAGAAA AA
1 AAGAAA AAGAAA AAGAAA A-AGAAA A-AGAAA AA
57313493 AAATAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 14 0.52
7 13 0.48
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:57313793 original size:11 final size:11
Alignment explanation
Indices: 57313762--57313803 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
57313752 CAGTAGAGAA
57313762 AAAAGAAAAAG
1 AAAAGAAAAAG
**
57313773 GGAAGAAAAAAG
1 AAAAG-AAAAAG
57313785 AAAAGAAAAAG
1 AAAAGAAAAAG
57313796 AAAA-AAAA
1 AAAAGAAAA
57313804 GGGGTTTCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 4 0.15
11 13 0.50
12 9 0.35
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:57313970 original size:5 final size:5
Alignment explanation
Indices: 57313936--57313991 Score: 58
Period size: 5 Copynumber: 10.2 Consensus size: 5
57313926 TACTTTATGC
*
57313936 ATTTT TTTTGT ATTTAT ATTTTT AATTTT ATTTT ATTTTT ATTTT ATTTT
1 ATTTT ATTT-T ATTT-T A-TTTT -ATTTT ATTTT A-TTTT ATTTT ATTTT
57313986 ATTTT A
1 ATTTT A
57313992 AATAATTTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
5 24 0.55
6 16 0.36
7 4 0.09
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:57313974 original size:16 final size:16
Alignment explanation
Indices: 57313955--57313992 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
57313945 GTATTTATAT
57313955 TTTTAATTTTATTTTA
1 TTTTAATTTTATTTTA
*
57313971 TTTTTATTTTATTTTA
1 TTTTAATTTTATTTTA
57313987 TTTTAA
1 TTTTAA
57313993 ATAATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTAATTTTATTTTA
Found at i:57314213 original size:18 final size:18
Alignment explanation
Indices: 57314190--57314224 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
57314180 AAATTTTTTC
57314190 TCGTGTTTCAAAAAATAT
1 TCGTGTTTCAAAAAATAT
*
57314208 TCGTGTTTTAAAAAATA
1 TCGTGTTTCAAAAAATA
57314225 AGGCAACGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (18 bp):
TCGTGTTTCAAAAAATAT
Found at i:57314353 original size:18 final size:18
Alignment explanation
Indices: 57314330--57314592 Score: 258
Period size: 17 Copynumber: 14.9 Consensus size: 18
57314320 AAAAAGAATA
*
57314330 AAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
**
57314348 AAAAATTCCCGTGTTTT-
1 AAAAATTTTCGTGTTTTC
*
57314365 AAAAA-TTTCTGTGTTTTT
1 AAAAATTTTC-GTGTTTTC
57314383 AAAAATTTTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
57314400 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
57314418 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* * *
57314435 ATAAGTTTTCGTGTTTTAA
1 AAAAATTTTCGTGTTTT-C
* *
57314454 AAAAATTTTGGTGTTTTG
1 AAAAATTTTCGTGTTTTC
*
57314472 ACAAAATTCTCGTG-TTTC
1 A-AAAATTTTCGTGTTTTC
*
57314490 AAAAATTATCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
57314507 AAAAA-TTCCGTGTTTTT
1 AAAAATTTTCGTGTTTTC
57314524 AAAAATCTTT-GTGTTTTC
1 AAAAAT-TTTCGTGTTTTC
*
57314542 AAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
57314560 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
57314577 AAAAACTTTCGT-TTTT
1 AAAAATTTTCGTGTTTT
57314593 TTTTTAATTT
Statistics
Matches: 204, Mismatches: 29, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
16 7 0.03
17 88 0.43
18 79 0.39
19 30 0.15
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:57314369 original size:35 final size:35
Alignment explanation
Indices: 57314330--57314593 Score: 266
Period size: 35 Copynumber: 7.5 Consensus size: 35
57314320 AAAAAGAATA
* * *
57314330 AAAAATTTTCATGTTTTCAAAAATTCCCGTGTTTT
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTC
* *
57314365 AAAAA-TTTCTGTGTTTTTAAAAATTTTCGTGTTTC
1 AAAAATTTTC-GTGTTTTCAAAAATTCTCGTGTTTC
*
57314400 AAAAATTTTCGTGTTTTCAACAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTC
* * * * * *
57314435 ATAAGTTTTCGTGTTTTAAAAAAATTTTGGTGTTTTG
1 AAAAATTTTCGTGTTTT-CAAAAATTCTCGTG-TTTC
* *
57314472 ACAAAATTCTCGTG-TTTCAAAAATTATCGTGTTTC
1 A-AAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTC
* * *
57314507 AAAAA-TTCCGTGTTTTTAAAAA-TCTTTGTGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTC-TCGTG-TTTC
*
57314542 AAAAATTCTCGTGTTTTCAAAAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTC
* *
57314577 AAAAACTTTCGTTTTTT
1 AAAAATTTTCGTGTTTT
57314594 TTTTAATTTT
Statistics
Matches: 185, Mismatches: 34, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
33 6 0.03
34 20 0.11
35 98 0.53
36 43 0.23
37 9 0.05
38 9 0.05
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (35 bp):
AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTC
Found at i:57317743 original size:23 final size:23
Alignment explanation
Indices: 57317717--57317762 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
57317707 TGAGCAAGGT
57317717 AAACAAATTATTCAAAATTTCAA
1 AAACAAATTATTCAAAATTTCAA
*
57317740 AAACAAGTTATTCAAAATTTCAA
1 AAACAAATTATTCAAAATTTCAA
57317763 CTCGAGATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.30
Consensus pattern (23 bp):
AAACAAATTATTCAAAATTTCAA
Found at i:57318042 original size:19 final size:20
Alignment explanation
Indices: 57318001--57318042 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
57317991 TGGTTGCATT
* *
57318001 TTTTTTGGAGTCTTGTACTC
1 TTTTTTGGAGCCTTGCACTC
*
57318021 TTTTTTGGTGCCTTGCAC-C
1 TTTTTTGGAGCCTTGCACTC
57318040 TTT
1 TTT
57318043 ATTAATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.07, C:0.19, G:0.19, T:0.55
Consensus pattern (20 bp):
TTTTTTGGAGCCTTGCACTC
Found at i:57319363 original size:18 final size:18
Alignment explanation
Indices: 57319330--57319382 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
57319320 ACGAGATTAG
*
57319330 AGTTAGAGTCAAAGTCAA
1 AGTTAAAGTCAAAGTCAA
* * *
57319348 AGTCAAAGTTAAAGTCAG
1 AGTTAAAGTCAAAGTCAA
* *
57319366 ACTTGAAGTCAAAGTCA
1 AGTTAAAGTCAAAGTCA
57319383 GACTTGACAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (18 bp):
AGTTAAAGTCAAAGTCAA
Found at i:57319383 original size:18 final size:18
Alignment explanation
Indices: 57319353--57319389 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
57319343 GTCAAAGTCA
*
57319353 AAGTTAAAGTCAGACTTG
1 AAGTCAAAGTCAGACTTG
57319371 AAGTCAAAGTCAGACTTG
1 AAGTCAAAGTCAGACTTG
57319389 A
1 A
57319390 CATTAAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.24
Consensus pattern (18 bp):
AAGTCAAAGTCAGACTTG
Found at i:57321816 original size:18 final size:17
Alignment explanation
Indices: 57321784--57321834 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
57321774 AAATAATAAG
57321784 AAAAATAT-TAGATAAAT
1 AAAAATATATA-ATAAAT
*
57321801 AAAAATATATATATAACT
1 AAAAATATATA-ATAAAT
* *
57321819 TAAAATAAATAATAAA
1 AAAAATATATAATAAA
57321835 GGAACTCTCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAAATATATAATAAAT
Found at i:57328592 original size:13 final size:13
Alignment explanation
Indices: 57328570--57328616 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
57328560 GATTTTTTTA
*
57328570 TTGGAGCAAACAG
1 TTGGACCAAACAG
57328583 TTGGACCAAA-AG
1 TTGGACCAAACAG
*
57328595 -TGGAGCAAACAG
1 TTGGACCAAACAG
57328607 TTGGACCAAA
1 TTGGACCAAA
57328617 AGTGGTAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 8 0.28
12 4 0.14
13 17 0.59
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.15
Consensus pattern (13 bp):
TTGGACCAAACAG
Found at i:57328603 original size:24 final size:24
Alignment explanation
Indices: 57328571--57328621 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
57328561 ATTTTTTTAT
57328571 TGGAGCAAACAGTTGGACCAAAAG
1 TGGAGCAAACAGTTGGACCAAAAG
57328595 TGGAGCAAACAGTTGGACCAAAAG
1 TGGAGCAAACAGTTGGACCAAAAG
57328619 TGG
1 TGG
57328622 TAACGAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.16, G:0.31, T:0.14
Consensus pattern (24 bp):
TGGAGCAAACAGTTGGACCAAAAG
Found at i:57334364 original size:24 final size:22
Alignment explanation
Indices: 57334312--57334366 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
57334302 TGCTGCTGAA
*
57334312 GCTGTTGTTGCTGTGAGTTACT
1 GCTGCTGTTGCTGTGAGTTACT
* *
57334334 G-TTCTGTTGCTGTTGCAGTTGCT
1 GCTGCTGTTGCTG-TG-AGTTACT
57334357 GCTGCTGTTG
1 GCTGCTGTTG
57334367 TTGCTGCTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.35
22 3 0.12
23 7 0.27
24 7 0.27
ACGTcount: A:0.05, C:0.16, G:0.33, T:0.45
Consensus pattern (22 bp):
GCTGCTGTTGCTGTGAGTTACT
Found at i:57334366 original size:12 final size:12
Alignment explanation
Indices: 57334337--57334375 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
57334327 AGTTACTGTT
*
57334337 CTGTTGCTGTTG
1 CTGTTGCTGCTG
*
57334349 CAGTTGCTGCTG
1 CTGTTGCTGCTG
*
57334361 CTGTTGTTGCTG
1 CTGTTGCTGCTG
57334373 CTG
1 CTG
57334376 ATGCAACTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.03, C:0.21, G:0.33, T:0.44
Consensus pattern (12 bp):
CTGTTGCTGCTG
Found at i:57335019 original size:30 final size:30
Alignment explanation
Indices: 57334983--57335040 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57334973 ATCACATTAT
* *
57334983 TTAGATTCCAAATATACAAGTAATATGAAC
1 TTAGATTCCAAATAAACAAGTAAAATGAAC
*
57335013 TTAGATTCCAAATAAATAAGTAAAATGA
1 TTAGATTCCAAATAAACAAGTAAAATGA
57335041 CCCGAGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.29
Consensus pattern (30 bp):
TTAGATTCCAAATAAACAAGTAAAATGAAC
Found at i:57336063 original size:3 final size:3
Alignment explanation
Indices: 57336057--57336195 Score: 98
Period size: 3 Copynumber: 46.3 Consensus size: 3
57336047 TGCTGTGGTG
* * * * * *
57336057 GCT GCT GCT GCT GTT GCT GTT GCT GTT GTT GCT GCT GTT GTT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
* * * * * * * * *
57336105 GCT GTT GTT GCT GTT GCT GTT GTT GTT GTT GTT GTT GCT GCT GCT GCT
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT
* * * * *
57336153 GTT GCT GTT GCT GTT GCT GTT GCT GCT GCT GTT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT GCT G
57336196 TTGTTGTTGT
Statistics
Matches: 112, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 112 1.00
ACGTcount: A:0.00, C:0.19, G:0.34, T:0.47
Consensus pattern (3 bp):
GCT
Found at i:57336066 original size:15 final size:14
Alignment explanation
Indices: 57336046--57336201 Score: 131
Period size: 15 Copynumber: 10.8 Consensus size: 14
57336036 CCTGCTGGGA
*
57336046 CTGCTGTGGTGGCTG
1 CTGCTGT-GTTGCTG
57336061 CTGCTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
*
57336076 TTGCTGTTGTTGCTG
1 CTGCTG-TGTTGCTG
57336091 CTG-T-TGTTGCTG
1 CTGCTGTGTTGCTG
57336103 CTGCTGTTGTTGCTG
1 CTGCTG-TGTTGCTG
* *
57336118 TTGCTGTTGTTGTTG
1 CTGCTG-TGTTGCTG
*
57336133 TTG-T-TGTTGCTG
1 CTGCTGTGTTGCTG
57336145 CTGCTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
* * *
57336160 TTGCTGTTGCTGTTG
1 CTGCTG-TGTTGCTG
57336175 CTGCTGCTGTTGCTG
1 CTGCTG-TGTTGCTG
57336190 CTGCTGTTGTTG
1 CTGCTG-TGTTG
57336202 TTGTTGGGCA
Statistics
Matches: 117, Mismatches: 17, Indels: 14
0.79 0.11 0.09
Matches are distributed among these distances:
12 20 0.17
13 2 0.02
14 2 0.02
15 92 0.79
16 1 0.01
ACGTcount: A:0.00, C:0.18, G:0.35, T:0.47
Consensus pattern (14 bp):
CTGCTGTGTTGCTG
Found at i:57336093 original size:42 final size:42
Alignment explanation
Indices: 57336046--57336207 Score: 209
Period size: 42 Copynumber: 3.8 Consensus size: 42
57336036 CCTGCTGGGA
*
57336046 CTGCTGTGGTGGCTGCTGCTGCTGTTGCTGTTGCTGTTGTTG
1 CTGCTGTGGTTGCTGCTGCTGCTGTTGCTGTTGCTGTTGTTG
* *
57336088 CTGCTGTTGTTGCTGCTGCTGTTGTTGCTGTTGCTGTTGTTG
1 CTGCTGTGGTTGCTGCTGCTGCTGTTGCTGTTGCTGTTGTTG
* * *
57336130 TTGTTGTTGTTGCTGCTGCTGCTGTTGCTGTTGCTGTTGCTGTTG
1 CTGCTGTGGTTGCTGCTGCTGCTGTTGCTGTTGCTG-T--TGTTG
* *
57336175 CTGCTGCT-GTTGCTGCTGCTGTTGTTGTTGTTG
1 CTGCTG-TGGTTGCTGCTGCTGCTGTTGCTGTTG
57336208 GGCATGCCTC
Statistics
Matches: 106, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
42 72 0.68
43 1 0.01
45 32 0.30
46 1 0.01
ACGTcount: A:0.00, C:0.17, G:0.35, T:0.48
Consensus pattern (42 bp):
CTGCTGTGGTTGCTGCTGCTGCTGTTGCTGTTGCTGTTGTTG
Found at i:57336207 original size:6 final size:6
Alignment explanation
Indices: 57336059--57336204 Score: 157
Period size: 6 Copynumber: 24.3 Consensus size: 6
57336049 CTGTGGTGGC
* * * * * *
57336059 TGCTGC TGCTGT TGCTGT TGCTGT TGTTGC TGCTGT TGTTGC TGCTGC
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
* * * * * *
57336107 TGTTGT TGCTGT TGCTGT TGTTGT TGTTGT TGTTGC TGCTGC TGCTGT
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
* * *
57336155 TGCTGT TGCTGT TGCTGT TGCTGC TGCTGT TGCTGC TGCTGT TGTTGT
1 TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT TGCTGT
57336203 TG
1 TG
57336205 TTGGGCATGC
Statistics
Matches: 120, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 120 1.00
ACGTcount: A:0.00, C:0.17, G:0.34, T:0.49
Consensus pattern (6 bp):
TGCTGT
Found at i:57336294 original size:15 final size:15
Alignment explanation
Indices: 57336260--57336308 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
57336250 CTGCTGCTGT
*
57336260 TGCTGTTGATGTTGA
1 TGCTGTTGATGTTGC
* *
57336275 GGCTGTTGAGGTTGC
1 TGCTGTTGATGTTGC
* *
57336290 TGCTGCTGTTGTTGC
1 TGCTGTTGATGTTGC
57336305 TGCT
1 TGCT
57336309 CCCGTGCTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.06, C:0.14, G:0.37, T:0.43
Consensus pattern (15 bp):
TGCTGTTGATGTTGC
Found at i:57338266 original size:1 final size:1
Alignment explanation
Indices: 57338262--57338294 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
57338252 TTTTGAGAGC
*
57338262 TTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57338295 GTGTATGTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:57340301 original size:30 final size:30
Alignment explanation
Indices: 57340267--57340362 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
57340257 TATACAACAA
57340267 TTGAAAAGGTTTGTCACTTATTTGATAATT
1 TTGAAAAGGTTTGTCACTTATTTGATAATT
* * * *
57340297 TTG-AAAGATTAGAC-CTTTATTTGAGTAAAT
1 TTGAAAAGGTTTGTCAC-TTATTTGA-TAATT
* * * *
57340327 TTAAAAAAGTTTAGTCA-TTAATCGATAATT
1 TTGAAAAGGTTT-GTCACTTATTTGATAATT
57340357 TTGAAA
1 TTGAAA
57340363 GATTTGACCC
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
28 1 0.02
29 16 0.33
30 18 0.38
31 11 0.23
32 2 0.04
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (30 bp):
TTGAAAAGGTTTGTCACTTATTTGATAATT
Found at i:57340316 original size:29 final size:29
Alignment explanation
Indices: 57340284--57340378 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
57340274 GGTTTGTCAC
*
57340284 TTATTTGATAATTTTGAAAGATTAGACCT
1 TTATTTGATAATTTTGAAAGATTAGACCA
** * *
57340313 TTATTTGAGTAAATTTAAAAAAGTTTAG-TCA
1 TTATTTGA-T-AATTT-TGAAAGATTAGACCA
* * * *
57340344 TTAATCGATAATTTTGAAAGATTTGACCC
1 TTATTTGATAATTTTGAAAGATTAGACCA
57340373 TTATTT
1 TTATTT
57340379 TAGTATTTTT
Statistics
Matches: 47, Mismatches: 15, Indels: 8
0.67 0.21 0.11
Matches are distributed among these distances:
28 7 0.15
29 18 0.38
30 2 0.04
31 12 0.26
32 8 0.17
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (29 bp):
TTATTTGATAATTTTGAAAGATTAGACCA
Found at i:57342006 original size:31 final size:31
Alignment explanation
Indices: 57341966--57342088 Score: 110
Period size: 31 Copynumber: 4.0 Consensus size: 31
57341956 TTAAAATGAG
*
57341966 TATAATTGAATCAAC-ATTAAAGTTTCATGTA
1 TATAATTGAA-CAACAATCAAAGTTTCATGTA
* * *
57341997 TATATTTGAACCACAATCAAAGTTTCATGTG
1 TATAATTGAACAACAATCAAAGTTTCATGTA
* * *
57342028 CATAATTGCACCA-AATCAAAG-TTCATGTA
1 TATAATTGAACAACAATCAAAGTTTCATGTA
* * *
57342057 TCTAATTGCACATTCAATCAAAG-TTCATGTA
1 TATAATTGAACA-ACAATCAAAGTTTCATGTA
57342088 T
1 T
57342089 CATTTTGAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
29 16 0.21
30 11 0.14
31 50 0.65
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (31 bp):
TATAATTGAACAACAATCAAAGTTTCATGTA
Found at i:57346752 original size:82 final size:82
Alignment explanation
Indices: 57346641--57347140 Score: 743
Period size: 82 Copynumber: 6.1 Consensus size: 82
57346631 CATGGGGATG
* * ** * * *
57346641 AGATTTGTGTTTTTAGTCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGATCTACTCCA
1 AGATCTGTGGTTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCA
57346706 CTACTACTTAGGGAGATA
65 CTACTACTTAGGGAGATA
* *
57346724 AGATCTGTGGTTTCGTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
*
57346789 TACTGCTTAGGGAGATA
66 TACTACTTAGGGAGATA
* *
57346806 AGATCTGTGGTTTCGTCCGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
* * *
57346871 TATTGCTTAGGAAGATA
66 TACTACTTAGGGAGATA
*
57346888 AGATATGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
*
57346953 TATTACTTAGGGAGATA
66 TACTACTTAGGGAGATA
* * * *
57346970 AGATCTGTGGTTTTGTCCGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCAC
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
*
57347035 TACTACTTAGAGAGATA
66 TACTACTTAGGGAGATA
* *
57347052 AGATCTATGGTTTTGTCTGCTCCACTACTACTTAGGGAGATAAGA-TTGGATGCGATCTGCTCCA
1 AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTT-GATGCGATCTGCTCCA
*
57347116 CTACTGCTTAGGGAGATA
65 CTACTACTTAGGGAGATA
57347134 AGA-CTGT
1 AGATCTGT
57347141 AATCTTCGAT
Statistics
Matches: 381, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
81 5 0.01
82 365 0.96
83 11 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (82 bp):
AGATCTGTGGTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCAC
TACTACTTAGGGAGATA
Found at i:57347377 original size:134 final size:134
Alignment explanation
Indices: 57347180--57347824 Score: 924
Period size: 134 Copynumber: 4.8 Consensus size: 134
57347170 GGAAGTAAGA
* * * *
57347180 TTATTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTT
1 TTATCGGCTTCAATGTACTCCACTGT-A-GTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT
*
57347245 CTCTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAG
64 CTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAG
57347310 ATAGAG
129 ATAGAG
* * *
57347316 TTATCGGCTTCAATGTATTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATCAATCTGCTTCT
1 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCT
* * *
57347381 TTACCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCC-AA-CCAGGGAGAT
66 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
57347444 AGAG
131 AGAG
* * *
57347448 TTATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATCTGTCATCTTCGATCTACTC
1 TTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTT
* * *** * * ** * *** *
57347513 CACT-ACTGCT-TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTG--TTGTCCAGGGAG
64 CTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAG
*
57347574 ACAGAG
129 ATAGAG
57347580 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCT
1 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCT
*
57347645 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTTAATCTATTCCACTGCCAAATACAGGGAGAT
66 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
57347710 AGAG
131 AGAG
*
57347714 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCG
1 TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCT
57347779 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTTCC
66 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA-TTCC
57347825 TACCAATATA
Statistics
Matches: 448, Mismatches: 52, Indels: 19
0.86 0.10 0.04
Matches are distributed among these distances:
130 34 0.08
131 2 0.00
132 150 0.33
133 4 0.01
134 229 0.51
135 5 0.01
136 24 0.05
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (134 bp):
TTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCT
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGAT
AGAG
Found at i:57347572 original size:44 final size:45
Alignment explanation
Indices: 57347455--57347574 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 45
57347445 GAGTTATCGG
* * * *
57347455 CTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAAAATCTGTCAT
1 CTTCAATCTACTCCACTGCT-GTCACAGGGAGATAAGATCTGTAAT
* * **
57347500 CTTCGATCTACTCCACTACTG-CTTAGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACTGCTGTCACAGGGAGATAAGATCTGTAAT
* *
57347544 CTTCAATCTATTCCACTGTTGTC-CAGGGAGA
1 CTTCAATCTACTCCACTGCTGTCACAGGGAGA
57347575 CAGAGTTATC
Statistics
Matches: 60, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
44 42 0.70
45 17 0.28
46 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCTGTCACAGGGAGATAAGATCTGTAAT
Found at i:57347644 original size:264 final size:266
Alignment explanation
Indices: 57347133--57347824 Score: 903
Period size: 264 Copynumber: 2.6 Consensus size: 266
57347123 TTAGGGAGAT
* * **** *
57347133 AAGA-CTGTAATCTTCGATCTATTCCACTGTTTCCCAGGGA-AGTA-AGATTATTGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGA-TAGAG-TTATCGGCTTCAATG
* * * * * * *
57347195 TACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATATTCGATCTGCTTCTCTGCCAAATACAG
64 TACTCCACTGTAGTC-CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTGACAAATACAG
* *
57347260 GAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCT
128 GAAGACAAGATCTGTAATCTTCAATCTATTCCACTG-CAAATACAGGGAGACAGAGTTATCGGCT
* *
57347325 TCAATGTATTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATCAATCTGCTTCTTTACCAAAT
192 TCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATCAATCTGCTTCTCTACCAAAT
57347390 ACAGGAAGGC
257 ACAGGAAGGC
57347400 AAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGTTATCGGCTTCAATGTA
1 AAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGTTATCGGCTTCAATGTA
* *** * *
57347465 CTCCACTGTAGTCACAGGGAGGTAAAATCTGTCATCTTCGATCTACTCCACT-ACTGCT-TAGGG
66 CTCCACTGTAGTC-CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTGACAAATACAGGA
* *** *
57347528 AGATAAGATCTGTAATCTTCAATCTATTCCACTG-TTGTCCAGGGAGACAGAGTTATCGGCTTCA
130 AGACAAGATCTGTAATCTTCAATCTATTCCACTGCAAATACAGGGAGACAGAGTTATCGGCTTCA
* * *
57347592 ATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCTCTGCCAAATACA
195 ATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATCAATCTGCTTCTCTACCAAATACA
57347657 GGAAGGC
260 GGAAGGC
* *
57347664 AAGATCTGCAATCTTTAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCTTCAATCTATTCCACTGCC-AA-CCAGGGAGATAGAGTTATCGGCTTCAATG
* * * *
57347729 TACTCCACTGTAGT-CAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGG
64 TACTCCACTGTAGTCCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTGACAAATACAGG
* *
57347793 AAGGCAAGATCTGCAATCTTCAATCTACTTCC
129 AAGACAAGATCTGTAATCTTCAATCTA-TTCC
57347825 TACCAATATA
Statistics
Matches: 369, Mismatches: 48, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
264 157 0.43
265 4 0.01
266 103 0.28
267 10 0.03
268 92 0.25
269 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (266 bp):
AAGATCTGCAATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAGTTATCGGCTTCAATGTA
CTCCACTGTAGTCCAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTGACAAATACAGGAA
GACAAGATCTGTAATCTTCAATCTATTCCACTGCAAATACAGGGAGACAGAGTTATCGGCTTCAA
TGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCATCAATCTGCTTCTCTACCAAATACAG
GAAGGC
Found at i:57347856 original size:44 final size:45
Alignment explanation
Indices: 57347755--57348207 Score: 377
Period size: 44 Copynumber: 10.3 Consensus size: 45
57347745 GGGAGGTAAA
* * * * * *
57347755 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCACTACC-AATATAGGAAGACAAG
* * *
57347801 ATCTGCAATCTTCAATCTACTTC-CTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * *
57347845 ACCTGCTATCTTCGATCTACTTCAC-GCCAATACAAGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * * *
57347889 TTTTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGGAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * *
57347933 ACCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * *
57347977 ATCTGC-ATCTTGGATCTACTTC-CTATCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * * *
57348020 ACCAGCCATCTTCGATCTACTTCAC-GCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
57348064 ATCTTCTTTCTTTGATCTACTTCGCTACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* *
57348109 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
* * * * * *
57348152 ACCTGCTATTTTTGATCTACTTCAC-GCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
*
57348196 ATCTGCTTTCTT
1 ATCTGCTATCTT
57348208 TTATGACTTC
Statistics
Matches: 313, Mismatches: 85, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
42 1 0.00
43 59 0.19
44 205 0.65
45 28 0.09
46 20 0.06
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCACTACCAATATAGGAAGACAAG
Found at i:57347877 original size:88 final size:88
Alignment explanation
Indices: 57347757--57348174 Score: 464
Period size: 88 Copynumber: 4.7 Consensus size: 88
57347747 GAGGTAAAAT
* * * * * *
57347757 CTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACT
1 CTGCCATCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAGATCTGCTATCTTCGATCTACT
57347822 TCCTACCAATATAGGAAGACAGGAC
64 TCCTACCAATATAGGAAGACAGGAC
* * * * * * *
57347847 CTGCTATCTTCGATCTACTTCACGCCAATACAAGAAGACAAGTTTTGCTTTCTTCGATCCACTCC
1 CTGCCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC
*
57347912 CTACCAATATAGGGAGACAGGAC
66 CTACCAATATAGGAAGACAGGAC
** *
57347935 CTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATCTTGGATCTACTTC
1 CTGCCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC
*
57347999 CTATCAATATAGGAAGACAGGAC
66 CTACCAATATAGGAAGACAGGAC
* * * * *
57348022 CAGCCATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTTCTTTCTTTGATCTACTTC
1 CTGCCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC
* * * *
57348087 GCTACCAGTATGGGAAGACAAGAT
66 -CTACCAATATAGGAAGACAGGAC
* * * * * * * *
57348111 CTG-CATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATTTTTGATCTACTT
1 CTGCCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTT
57348174 C
65 C
57348175 ACGCCAATAC
Statistics
Matches: 279, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
87 77 0.28
88 159 0.57
89 23 0.08
90 20 0.07
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (88 bp):
CTGCCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTC
CTACCAATATAGGAAGACAGGAC
Found at i:57347905 original size:398 final size:397
Alignment explanation
Indices: 57347104--57347887 Score: 1120
Period size: 398 Copynumber: 2.0 Consensus size: 397
57347094 AGATTGGATG
* *
57347104 CGATCTGCTCCACTACTGCTTAGGGAGATAAGACTGTAATCTTCGATCTATTCCACTGTTTCCCA
1 CGATCTACTCCACTACTGCTTAGGGAGATAAGACTGTAATCTTCAATCTATTCCACTGTTTCCCA
*
57347169 GGGAAGTAAGATTATTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATAT
66 GGGAAGTAAGATTATCGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATAT
*
57347234 TCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCA
131 TCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
*
57347299 AATACAGGGAGATAGAGTTATCGGCTTCAATGTATTCCACTGTAGTCAGGGAGGTAAAATCTGCC
196 AATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
**
57347364 ATCATCAATCTGCTTCTTTACCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
261 ATCATCAATCTGCTTCGCTACCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
* * * * * * * * * * **
57347429 GCCAACCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCACAGGGAGGTAAAATC
326 ACCAAACAGGAAGACAGAGCTAT--GCTTCAATCTACTCCACTGCAATCACAAGAAGACAAAATC
57347494 TGTCATCTT
389 TGTCATCTT
57347503 CGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGT-C
1 CGATCTACTCCACTACTGCTTAGGGAGATAAGA-CTGTAATCTTCAATCTATTCCACTGTT-TCC
* *
57347567 CAGGG-AG-ACAGAGTTATCGGCTTCAATGTACTCCACTGT-A-GTCAGGGAGGTAAAATCTGCC
64 CAGGGAAGTA-AGA-TTATCGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCC
* *
57347628 ATCTTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTTAATCTATTCCACT
127 ATATTCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
57347693 GCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATC
192 GCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATC
* * *
57347758 TGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTACTT
257 TGCCATCATCAATCTGCTTCGCTACCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA-TT
* * *
57347823 -C-CTACCAATATAGGAAGACAGGACCTGCTAT-CTTCGATCTACTTCAC-GCCAAT-ACAAGAA
321 CCACTACCAA-ACAGGAAGACA-GA---GCTATGCTTCAATCTACTCCACTG-CAATCACAAGAA
57347883 GACAA
380 GACAA
57347888 GTTTTGCTTT
Statistics
Matches: 345, Mismatches: 29, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
397 6 0.02
398 220 0.64
399 57 0.17
400 57 0.17
401 1 0.00
402 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (397 bp):
CGATCTACTCCACTACTGCTTAGGGAGATAAGACTGTAATCTTCAATCTATTCCACTGTTTCCCA
GGGAAGTAAGATTATCGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATAT
TCGATCTGCTTCTCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
AATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCC
ATCATCAATCTGCTTCGCTACCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACT
ACCAAACAGGAAGACAGAGCTATGCTTCAATCTACTCCACTGCAATCACAAGAAGACAAAATCTG
TCATCTT
Found at i:57348121 original size:175 final size:176
Alignment explanation
Indices: 57347755--57348174 Score: 508
Period size: 175 Copynumber: 2.4 Consensus size: 176
57347745 GGGAGGTAAA
* * *
57347755 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTA
1 ATCTGCCATCTTCGATCTACTTC-CTGCC-AATACAGGAAGACAAGATCTGCAATCTTCGATCTA
* *
57347820 CTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACAAGAAGA
64 CTTCCTACCAATATAGGAAGACAGGACCAGCCATCTTCGATCTACTTCACGCCAATACAAGAAGA
* *
57347885 CAAGTTTTGCTTTCTTCGATCCACTCCCTACCAATATAGGGAGACAGG
129 CAAGTCTTGCTTTCTTCGATCCACTCCCTACCAATATAGGGAGACAAG
* ** * *
57347933 ACCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGC-ATCTTGGATCTAC
1 ATCTGCCATCTTCGATCTACTTC-CTGCCAATACAGGAAGACAAGATCTGCAATCTTCGATCTAC
* * *
57347996 TTCCTATCAATATAGGAAGACAGGACCAGCCATCTTCGATCTACTTCACGCCAATACATGAAGAT
65 TTCCTACCAATATAGGAAGACAGGACCAGCCATCTTCGATCTACTTCACGCCAATACAAGAAGAC
* * * *
57348061 AAGATCTT-CTTTCTTTGATCTACTTCGCTACCAGTAT-GGGAAGACAAG
130 AAG-TCTTGCTTTCTTCGATCCAC-TCCCTACCAATATAGGG-AGACAAG
* * * * * * * *
57348109 ATCTG-CATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATTTTTGATCTACT
1 ATCTGCCATCTTCGATCTACTTCCTGCCAATACAGGAAGACAAGATCTGCAATCTTCGATCTACT
57348173 TC
66 TC
57348175 ACGCCAATAC
Statistics
Matches: 207, Mismatches: 30, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
174 1 0.00
175 125 0.60
176 58 0.28
177 3 0.01
178 20 0.10
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (176 bp):
ATCTGCCATCTTCGATCTACTTCCTGCCAATACAGGAAGACAAGATCTGCAATCTTCGATCTACT
TCCTACCAATATAGGAAGACAGGACCAGCCATCTTCGATCTACTTCACGCCAATACAAGAAGACA
AGTCTTGCTTTCTTCGATCCACTCCCTACCAATATAGGGAGACAAG
Found at i:57349707 original size:11 final size:11
Alignment explanation
Indices: 57349683--57349756 Score: 55
Period size: 12 Copynumber: 6.4 Consensus size: 11
57349673 AGTAGAGGTC
57349683 TTTT-CTTTTAT
1 TTTTGCTTTT-T
*
57349694 TTTTGGTTTTT
1 TTTTGCTTTTT
57349705 TTTTGCTTTTT
1 TTTTGCTTTTT
57349716 ATTTT-CTAGTTTT
1 -TTTTGCT--TTTT
57349729 TTTT-CTTTTTAT
1 TTTTGC-TTTT-T
57349741 TTTTGCTCTTTT
1 TTTTGCT-TTTT
57349753 TTTT
1 TTTT
57349757 TGCCTCCACT
Statistics
Matches: 53, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
11 20 0.38
12 24 0.45
13 9 0.17
ACGTcount: A:0.05, C:0.08, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTGCTTTTT
Found at i:57349716 original size:24 final size:23
Alignment explanation
Indices: 57349683--57349756 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 23
57349673 AGTAGAGGTC
57349683 TTTTC-TTTTATTTTTGGTTTTT
1 TTTTCTTTTTATTTTTGGTTTTT
*
57349705 TTTTGCTTTTTATTTTCTAG-TTTT
1 TTTT-CTTTTTATTTT-TGGTTTTT
*
57349729 TTTTCTTTTTATTTTTGCTCTTTT
1 TTTTCTTTTTATTTTTGGT-TTTT
57349753 TTTT
1 TTTT
57349757 TGCCTCCACT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
22 5 0.11
23 12 0.27
24 25 0.57
25 2 0.05
ACGTcount: A:0.05, C:0.08, G:0.07, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTATTTTTGGTTTTT
Found at i:57351139 original size:62 final size:62
Alignment explanation
Indices: 57351037--57351218 Score: 275
Period size: 62 Copynumber: 3.0 Consensus size: 62
57351027 CTAAACTCGA
* **
57351037 CGTACTTTTGGATTTTAGGAAATTTATTATATAAAATGAAATGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAGGAAATTTATTATATGCAATGAAATGTAATGTTGATGCATGAATG
*
57351099 CGTATTTTTGAATTTTAGGAAATTTATTATATGCAATGAAATGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAGGAAATTTATTATATGCAATGAAATGTAATGTTGATGCATGAATG
* *
57351161 TGTATTTTTGGATTTTAGGAAA--T-TTAT-TGC-ATGCAATGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAGGAAATTTATTATATGCAATGAAATGTAATGTTGATGCATGAATG
57351218 C
1 C
57351219 CAAAAAGAGA
Statistics
Matches: 112, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
57 26 0.23
58 3 0.03
59 4 0.04
60 1 0.01
62 78 0.70
ACGTcount: A:0.32, C:0.05, G:0.20, T:0.42
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTATATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:57361965 original size:249 final size:240
Alignment explanation
Indices: 57361199--57361981 Score: 588
Period size: 242 Copynumber: 3.2 Consensus size: 240
57361189 CCGTATTTAA
* * * * *
57361199 CATATCCCTAAGCTACACCTATTTATTGTTTAGGCACTTAATTCAACAATTAAAAAGTGCCACTT
1 CATATCCCTAAACCACGCCTATTTCTTGTTTAGGCACTTAATTCAACAACTAAAAAGTGCCACTT
* * * * * ** *
57361264 AACAGTCGGGTGACCAAAAAGAACAATTTCGAAAAGTTTAGTGACCAATTTGTAA-TTTTTTTAG
66 AACAGTCGAGTGA-CAAAAA-AACAATTTCAAAAAGTTCAATGACCAAATTACAACATTTTTTAG
* * * * *
57361328 TTAA-TGGGCCAAAATAAAAACTTAGCCATAGTTTAGTGA-CTAATGACATATTTATCCCTTTTT
129 TTAAGT-GACCAAAACAAAAACTTACCCATAATTTAGT-ATCTAATGACATATTTAT-CCTTCTT
* * * * * ** * ** ** *
57361391 AATACAACATTGAGGGTGAGAGACGGGAGTCACATGGT-TTGAACCCGTATCAAAT
191 AATACAATATTAAAGAT--GCGACTTGA---AC-TCGTATCAAACGAGTATCATAT
** * * * *
57361446 GGGTAT-CGT-ATCATATC-CC---TTCTTGTTTAGGCACTTAATTCAACAATTAAAAAGTGCCA
1 -CATATCCCTAAAC-CA-CGCCTATTTCTTGTTTAGGCACTTAATTCAACAACTAAAAAGTGCCA
* * * * * *
57361505 CTTAACAGTCGGGTGACAAAAAAATAATTTCAAAAAGTTTAGTGACCAAATTGCAACATTTTTTG
63 CTTAACAGTCGAGTGACAAAAAAACAATTTCAAAAAGTTCAATGACCAAATTACAACATTTTTTA
* ** * * *
57361570 GTTAAGTGACCGAAATGAAAACTTACCCATAATTTAGTGTCTAATGGCGTATTTATCCTTCTTAA
128 GTTAAGTGACCAAAACAAAAACTTACCCATAATTTAGTATCTAATGACATATTTATCCTTCTTAA
* * * * *
57361635 TACAATGTTGAAGGTGTGACTTGAACTCGTGTCAAACGAGTATCATAT
193 TACAATATTAAAGATGCGACTTGAACTCGTATCAAACGAGTATCATAT
* * * *
57361683 CATATCCCTAAGCCACGCCTATTTCTTGTTTAGGCACTAAATTCAACAACTAAAAAGTGTCATTT
1 CATATCCCTAAACCACGCCTATTTCTTGTTTAGGCACTTAATTCAACAACTAAAAAGTGCCACTT
* *
57361748 AACAGTCGAGTGACCAAAAAAACAATTTCAAAAAAGTTCAATGACTAAATTATAAC-TTTTTTAG
66 AACAGTCGAGTGA-CAAAAAAACAATTTC-AAAAAGTTCAATGACCAAATTACAACATTTTTTAG
* * * *
57361812 TTAAGTG-CCTAAAACAAAAACTCT-TCCATAATTTAGTCAT-TAATGATATAATTTGCTCTTTT
129 TTAAGTGACC-AAAACAAAAACT-TACCCATAATTTAGT-ATCTAATGACAT-ATTT-ATC-CTT
* * * *
57361874 TTTAATACAATATTAAAGATGAACGACTGAATTAACTCGTATCAAATGAGTGTCATAT
188 CTTAATACAATATTAAAGATG--CGACT---TGAACTCGTATCAAACGAGTATCATAT
*
57361932 CATA-CTCTTAAACCACGCCTATTTCTTGTTTAGGCACTTAATTCAACAAC
1 CATATC-CCTAAACCACGCCTATTTCTTGTTTAGGCACTTAATTCAACAAC
57361982 GCGGGTTCAA
Statistics
Matches: 438, Mismatches: 71, Indels: 51
0.78 0.13 0.09
Matches are distributed among these distances:
236 7 0.02
237 19 0.04
238 2 0.00
240 59 0.13
241 55 0.13
242 77 0.18
243 59 0.13
244 75 0.17
246 6 0.01
247 6 0.01
248 5 0.01
249 68 0.16
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (240 bp):
CATATCCCTAAACCACGCCTATTTCTTGTTTAGGCACTTAATTCAACAACTAAAAAGTGCCACTT
AACAGTCGAGTGACAAAAAAACAATTTCAAAAAGTTCAATGACCAAATTACAACATTTTTTAGTT
AAGTGACCAAAACAAAAACTTACCCATAATTTAGTATCTAATGACATATTTATCCTTCTTAATAC
AATATTAAAGATGCGACTTGAACTCGTATCAAACGAGTATCATAT
Found at i:57393124 original size:1 final size:1
Alignment explanation
Indices: 57393118--57393146 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
57393108 TTTGCTTCCT
57393118 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
57393147 CTTTGGAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:57394551 original size:44 final size:42
Alignment explanation
Indices: 57394477--57394673 Score: 156
Period size: 44 Copynumber: 4.7 Consensus size: 42
57394467 TGAAGACAAG
* * *
57394477 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAT
1 AGATCCTATCTCCTTGAGATTACAGTGGAGCAGATCAAAGAT
* * *
57394519 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAG--
1 AG--ATCCTATCTCCTTGAGATTACAGTGGAGCAGATCAAAGAT
* * * *
57394561 -GATCTTATC-CCTCTGA-AGTTACAGTAGAGAAGATC--ACAT
1 AGATCCTATCTCCT-TGAGA-TTACAGTGGAGCAGATCAAAGAT
* * *
57394600 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAT
1 -AGATCCTATCTCCTTGAGATTACAGTGGAGCAGATCAAAGAT
*
57394643 AGTAATCCTATCTCCTTGAGATTACAATGGA
1 AG--ATCCTATCTCCTTGAGATTACAGTGGA
57394674 AGAATTAAAG
Statistics
Matches: 119, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 22 0.18
41 27 0.23
42 7 0.06
43 3 0.03
44 55 0.46
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (42 bp):
AGATCCTATCTCCTTGAGATTACAGTGGAGCAGATCAAAGAT
Found at i:57394624 original size:41 final size:40
Alignment explanation
Indices: 57394477--57394749 Score: 114
Period size: 41 Copynumber: 6.7 Consensus size: 40
57394467 TGAAGACAAG
** * *
57394477 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAT
1 AGATCTTATCTCCCTGAGATTACAGTAGAGAAGATC--ACAT
* * * * ** *
57394519 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTA-A-
1 AG--ATCTTATCTCCCTGAGATTACAGTAGAGAAGATCACAT
57394559 AGGATCTTATC-CCTCTGA-AGTTACAGTAGAGAAGATCACAT
1 A-GATCTTATCTCC-CTGAGA-TTACAGTAGAGAAGATCACAT
** * *
57394600 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAT
1 -AGATCTTATCTCCCTGAGATTACAGTAGAGAAGATC--ACAT
* * * *
57394643 AGTAATCCTATCTCCTTGAGATTACAAT-G-GAAGAATTA-A-
1 AG--ATCTTATCTCCCTGAGATTACAGTAGAGAAG-ATCACAT
* * * *
57394682 AGGATCTTATCTCTCTGA-AGTTATAGTAGAGTAGATCGCAT
1 A-GATCTTATCTCCCTGAGA-TTACAGTAGAGAAGATCACAT
* *
57394723 CAGGTCTTATCTCCCTGGGATTACAGT
1 -AGATCTTATCTCCCTGAGATTACAGT
57394750 GGAACAGACC
Statistics
Matches: 173, Mismatches: 35, Indels: 47
0.68 0.14 0.18
Matches are distributed among these distances:
37 1 0.01
38 20 0.12
39 27 0.16
40 8 0.05
41 49 0.28
42 14 0.08
43 6 0.03
44 48 0.28
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (40 bp):
AGATCTTATCTCCCTGAGATTACAGTAGAGAAGATCACAT
Found at i:57394784 original size:87 final size:87
Alignment explanation
Indices: 57394684--57395028 Score: 306
Period size: 87 Copynumber: 3.9 Consensus size: 87
57394674 AGAATTAAAG
* *
57394684 GATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGGGATTACAG
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGGGATTACAG
*
57394749 TGGAACAGACCGAAGAATTGCA
66 TGGAGCAGACCGAAGAATTGCA
* ** * ** * *
57394771 GATCTTATCTCTCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAATCCTATCTCCCT-GAAGTT
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCG--CATCA-GGTCTTATCTCCCTGGGA-TT
* ** **
57394834 ACAGTGGAGCGGA-TTAA-AA-TAAA
62 ACAGTGGAGCAGACCGAAGAATTGCA
* *
57394857 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGG-TTAC
1 -GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTG-GGATTAC
*
57394921 AGTGGAGTAGACCGAAGAATTGCA
64 AGTGGAGCAGACCGAAGAATTGCA
* * * * * * * *
57394945 GATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCCCCGAGATTA
1 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-TCAG-G-TCTTATCTCCCTGGGATTA
* *
57395010 CAGCGGAGCAGATCGAAGA
63 CAGTGGAGCAGACCGAAGA
57395029 CACTATCCTA
Statistics
Matches: 198, Mismatches: 45, Indels: 27
0.73 0.17 0.10
Matches are distributed among these distances:
85 25 0.13
86 5 0.03
87 100 0.51
88 10 0.05
89 28 0.14
90 30 0.15
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAGGTCTTATCTCCCTGGGATTACAG
TGGAGCAGACCGAAGAATTGCA
Found at i:57394875 original size:44 final size:44
Alignment explanation
Indices: 57394679--57395026 Score: 194
Period size: 46 Copynumber: 8.0 Consensus size: 44
57394669 ATGGAAGAAT
* * * *
57394679 TAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCG--CA
1 TAAA-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
* * * * * *
57394722 T-CAGGTCTTATCTCCCTG-GGATTACAGTGGAACAGACCGAAGAA
1 TAAAGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATCGAA-AA
** * * *
57394766 TTGCAGATCTTATCTCTCTGAGGTTACAGCGGAGCAGATCGAAGA
1 -TAAAGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
* * * * *
57394811 TATA-ATCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAA
1 TAAAGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
* * *
57394853 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG--CA
1 TAAA-GATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
* * * * *
57394896 T-CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAA
1 TAAAGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAA-AA
** * * * **
57394940 TTGCAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGC
1 -TAAAGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
* * * * *
57394985 CAGAGATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAA
1 TAAAGATCTTATCTCTCTGAAG-TTACAGTGGAGCAGATCGAA
57395027 GACACTATCC
Statistics
Matches: 234, Mismatches: 55, Indels: 31
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.00
41 58 0.25
42 8 0.03
43 33 0.14
44 64 0.27
45 3 0.01
46 65 0.28
47 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
TAAAGATCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAAAA
Found at i:57394886 original size:174 final size:169
Alignment explanation
Indices: 57394600--57395011 Score: 544
Period size: 174 Copynumber: 2.4 Consensus size: 169
57394590 AAGATCACAT
* * *
57394600 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGAT
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGAT
* * *
57394665 TACAATGGAAGAATTAAAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGGTCT
66 TACAATGGAAAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
57394730 TATCTCCCTG-GGATTACAGTGGAACAGACCGAAGAATTG
131 TATCTCCCTGAGG-TTACAGTGGAACAGACCGAAGAATTG
*
57394769 CAGATCTTATCTCTCTGAGGTTACAGCGGAGCAGATCGAAGATA-TAATCCTATCTCCCTGA-AG
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGA-
*
57394832 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
65 TTACAATGGA----A--AAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
* **
57394897 CAGGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTG
124 CAGGTCTTATCTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTG
* * * * ** * *
57394943 CAGATCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCCGAGA
1 CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTA-ATCCTATCTCCCTGAGA
57395007 TTACA
65 TTACA
57395012 GCGGAGCAGA
Statistics
Matches: 212, Mismatches: 20, Indels: 16
0.85 0.08 0.06
Matches are distributed among these distances:
167 1 0.00
168 25 0.12
169 41 0.19
172 1 0.00
174 123 0.58
175 20 0.09
176 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (169 bp):
CAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGATAGTAATCCTATCTCCCTGAGAT
TACAATGGAAAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCT
TATCTCCCTGAGGTTACAGTGGAACAGACCGAAGAATTG
Found at i:57394913 original size:41 final size:41
Alignment explanation
Indices: 57394686--57395026 Score: 175
Period size: 44 Copynumber: 7.9 Consensus size: 41
57394676 AATTAAAGGA
* * * *
57394686 TCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAATCAGG
* * * * *
57394727 TCTTATCTCCCTG-GGATTACAGTGGAACAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAG-TTACAGTGGAGCAGATC---GAA-T-CAGG
* * **
57394773 TCTTATCTCTCTGAGGTTACAGCGGAGCAGATCGAAGAT-ATAA
1 TCTTATCTCTCTGAAGTTACAGTGGAGCAGATCG-A-ATCA-GG
* * * ** *
57394816 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGG
1 TCTTATCTCTCTGAAGTTACAGTGGAGCAGA-TCGAAT-CAGG
* * *
57394859 ATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
1 -TCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAATCAGG
* * * *
57394901 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCAGA
1 TCTTATCTCTCTGAAGTTACAGTGGAGCAGATC---GAA-T-CAGG
* * * *
57394947 TCTTATCCCCCTGAAGTTACAGTGGAGCAGATTGAAGCCAGAG
1 TCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAA-TCAG-G
* * *
57394990 ATCTTATCTCCCCG-AGATTACAGCGGAGCAGATCGAA
1 -TCTTATCTCTCTGAAG-TTACAGTGGAGCAGATCGAA
57395027 GACACTATCC
Statistics
Matches: 228, Mismatches: 50, Indels: 41
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 54 0.24
42 9 0.04
43 37 0.16
44 63 0.28
45 3 0.01
46 59 0.26
47 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
TCTTATCTCTCTGAAGTTACAGTGGAGCAGATCGAATCAGG
Found at i:57395011 original size:131 final size:128
Alignment explanation
Indices: 57394773--57395012 Score: 297
Period size: 131 Copynumber: 1.9 Consensus size: 128
57394763 GAATTGCAGA
* *
57394773 TCTTATCTCTCTGAGGTTACAGCGGAGCAGATCGAAGATATAATCCTATCTCCCTGAAGTTACAG
1 TCTTATCTCTCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
* * * *
57394838 TGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGG
66 TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGTAGAGTAGATCGCATCAGG
* * *
57394901 TCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGA-ATTGCAGATCTTATCCCCCTGAAGTT
1 TCTTATCTCTCTGAGGTTACAGCGGAGCAGACCGAAGATA-T--A-ATCCTATCCCCCTGAAGTT
* * *
57394965 ACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCCCCG-AGATTACAG
62 ACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCCCCGAAG-TTACAG
57395013 CGGAGCAGAT
Statistics
Matches: 94, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
127 1 0.01
128 36 0.38
130 5 0.05
131 52 0.55
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (128 bp):
TCTTATCTCTCTGAGGTTACAGCGGAGCAGACCGAAGATATAATCCTATCCCCCTGAAGTTACAG
TGGAGCAGATTAAAACAAAGGATCTTATCTCCCCGAAGTTACAGTAGAGTAGATCGCATCAGG
Found at i:57399932 original size:234 final size:233
Alignment explanation
Indices: 57399498--57399949 Score: 644
Period size: 234 Copynumber: 1.9 Consensus size: 233
57399488 TAATGCCTCG
*
57399498 GAATTTATGGAGTAAGTTAGAAGAAACTCCCTATCTAATTTTCACAAATTCCAAATTTAATTATT
1 GAATTTATGGAGTAAGTTAGAACAAACTCCCTATCTAATTTTCACAAATTCCAAATTTAATTATT
* *
57399563 TTAATTTTAAAATTTTAAAATGTAAGTACAATTATTAATGTTATTAACATTTTTTTATTAAATTT
66 TTAATTTTAAAATTTTAAAATGTAAGTACAATTATTAACGATATTAACA-TTTTTTATTAAATTT
* * * **
57399628 ATCAAATGATATTTTGAAATAAAAATTACTAATTTGATAGTAATGTAATTAAAAAATTTTGATAT
130 ATCAAATGACATTTTGAAATAAAAAATACTAATTTGATACTAATGTAATTAAAAAATAATGATAT
*
57399693 TTTAATTAATTTAAATTTAACAATATTAACCATTGAACCT
195 TTTAA-TAACTTAAATTTAACAATATTAACCATTGAACCT
* *
57399733 GAATTTATGGAGTAAGTTAGAACAAACTCCCTAT-TAATTTTCATAAATTCCAAATTTAGTTATT
1 GAATTTATGGAGTAAGTTAGAACAAACTCCCTATCTAATTTTCACAAATTCCAAATTTAATTATT
* * *
57399797 TTAATTTTTAAAA-TTTAAAATTTAAGTCCAATTATTAACGATGTTAACA-TTTTTATTAAATTT
66 TTAA-TTTTAAAATTTTAAAATGTAAGTACAATTATTAACGATATTAACATTTTTTATTAAATTT
* **
57399860 ATTAGCTTGACATTTTGAAATAAAAAAAATACTAATTTGATAACT-ATGTAATTAAAAAA-AATG
130 ATCA-AATGACATTTTGAAAT--AAAAAATACTAATTTGAT-ACTAATGTAATTAAAAAATAATG
*
57399923 ATGTTTTAATAACTTAAATTTAACAAT
191 ATATTTTAATAACTTAAATTTAACAAT
57399950 GTTAGTTCGA
Statistics
Matches: 194, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
232 17 0.09
233 30 0.15
234 73 0.38
235 72 0.37
236 2 0.01
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (233 bp):
GAATTTATGGAGTAAGTTAGAACAAACTCCCTATCTAATTTTCACAAATTCCAAATTTAATTATT
TTAATTTTAAAATTTTAAAATGTAAGTACAATTATTAACGATATTAACATTTTTTATTAAATTTA
TCAAATGACATTTTGAAATAAAAAATACTAATTTGATACTAATGTAATTAAAAAATAATGATATT
TTAATAACTTAAATTTAACAATATTAACCATTGAACCT
Found at i:57410088 original size:19 final size:19
Alignment explanation
Indices: 57410051--57410088 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
57410041 TACGGTAAAA
*
57410051 TTAGGTTTTTCTTTGATAT
1 TTAGGTTTTTCTTTCATAT
57410070 TTAGG-TTTTCTTATCATAT
1 TTAGGTTTTTCTT-TCATAT
57410089 ATGTATTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.61
Consensus pattern (19 bp):
TTAGGTTTTTCTTTCATAT
Found at i:57411783 original size:9 final size:9
Alignment explanation
Indices: 57411769--57411825 Score: 62
Period size: 9 Copynumber: 6.3 Consensus size: 9
57411759 TGGAGGTTTG
57411769 ATGCCTGGA
1 ATGCCTGGA
57411778 ATGCCTGGA
1 ATGCCTGGA
*
57411787 ATGCCAGGA
1 ATGCCTGGA
* *
57411796 A-CCCGGAGA
1 ATGCCTG-GA
*
57411805 ATGCCTGGT
1 ATGCCTGGA
57411814 ATGCCTGGA
1 ATGCCTGGA
57411823 ATG
1 ATG
57411826 GACAATGATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
8 3 0.08
9 33 0.85
10 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.33, T:0.19
Consensus pattern (9 bp):
ATGCCTGGA
Found at i:57420630 original size:25 final size:25
Alignment explanation
Indices: 57420584--57420631 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
57420574 AAAGAATAAA
* *
57420584 ATATATAATAAAAATTAGAAATTGT
1 ATATATAATAAAAAGTAAAAATTGT
* *
57420609 ATATATAATATATAGTAAAAATT
1 ATATATAATAAAAAGTAAAAATT
57420632 AAAAAAACTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
ATATATAATAAAAAGTAAAAATTGT
Found at i:57422909 original size:22 final size:21
Alignment explanation
Indices: 57422868--57422910 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
57422858 AGATTAAAGG
57422868 GAGAGAAAAAAATTAAAAAAAA
1 GAGAGAAAAAAA-TAAAAAAAA
*
57422890 GAGAGGAAAAAAA-AACAAAAA
1 GAGA-GAAAAAAATAAAAAAAA
57422911 TCACAGTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 4 0.21
23 8 0.42
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (21 bp):
GAGAGAAAAAAATAAAAAAAA
Found at i:57428240 original size:45 final size:46
Alignment explanation
Indices: 57428189--57428276 Score: 133
Period size: 45 Copynumber: 1.9 Consensus size: 46
57428179 TTAAATTATA
* *
57428189 TAATAAATTATAACAGTCTCACAGCATTCACAAAAAA-TCATTCTC
1 TAATAAATTATAACAGTCTCACAGCATTAAAAAAAAATTCATTCTC
* *
57428234 TAATAAATTATAATAGTCTCATAGCATTAAAAAAAAATTCATT
1 TAATAAATTATAACAGTCTCACAGCATTAAAAAAAAATTCATT
57428277 ATCTCTCACT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
45 33 0.87
46 5 0.13
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.32
Consensus pattern (46 bp):
TAATAAATTATAACAGTCTCACAGCATTAAAAAAAAATTCATTCTC
Found at i:57429589 original size:28 final size:28
Alignment explanation
Indices: 57429558--57429614 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
57429548 AGTACACATG
57429558 TAGGATACATATTTGACAAGTATATGGT
1 TAGGATACATATTTGACAAGTATATGGT
57429586 TAGGATACATATTTGACAAGTATATGGT
1 TAGGATACATATTTGACAAGTATATGGT
57429614 T
1 T
57429615 TACTATCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (28 bp):
TAGGATACATATTTGACAAGTATATGGT
Found at i:57429707 original size:9 final size:9
Alignment explanation
Indices: 57429693--57429717 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57429683 TAGCCAAAGC
57429693 CAAACAATG
1 CAAACAATG
57429702 CAAACAATG
1 CAAACAATG
57429711 CAAACAA
1 CAAACAA
57429718 AATCCAAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.24, G:0.08, T:0.08
Consensus pattern (9 bp):
CAAACAATG
Found at i:57430438 original size:12 final size:12
Alignment explanation
Indices: 57430421--57430445 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57430411 CTGATTTAAG
57430421 AAAAAAAGAAAA
1 AAAAAAAGAAAA
57430433 AAAAAAAGAAAA
1 AAAAAAAGAAAA
57430445 A
1 A
57430446 CCTGAAGATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:57431087 original size:29 final size:29
Alignment explanation
Indices: 57431025--57431080 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
57431015 TTCTTTTTTG
*
57431025 GTCACCGAACTATGAAAAGTTACAAAACA
1 GTCACCCAACTATGAAAAGTTACAAAACA
* *
57431054 GTCACCCAATTATGAAAATTTACAAAA
1 GTCACCCAACTATGAAAAGTTACAAAA
57431081 TGATCACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (29 bp):
GTCACCCAACTATGAAAAGTTACAAAACA
Found at i:57431240 original size:22 final size:22
Alignment explanation
Indices: 57431213--57431255 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
57431203 CCTGCAACTT
57431213 TTCATAGTTAAGTAACTTTTAG
1 TTCATAGTTAAGTAACTTTTAG
**
57431235 TTCATAGTTGGGTAACTTTTA
1 TTCATAGTTAAGTAACTTTTA
57431256 CTGTGTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.47
Consensus pattern (22 bp):
TTCATAGTTAAGTAACTTTTAG
Found at i:57432717 original size:3 final size:3
Alignment explanation
Indices: 57432703--57432733 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
57432693 ATCAGGCTGA
*
57432703 AGC AGA AGC AGC AGC AGC AGC AGC AGC AGC A
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC AGC A
57432734 ACAACAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.39, C:0.29, G:0.32, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:57432873 original size:6 final size:6
Alignment explanation
Indices: 57432850--57432884 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
57432840 GGTAGGAGTG
* *
57432850 GAGGTA GAGGAA GAGGTA GGGGTA GAGGTA GAGGT
1 GAGGTA GAGGTA GAGGTA GAGGTA GAGGTA GAGGT
57432885 GCGCAAATGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.54, T:0.14
Consensus pattern (6 bp):
GAGGTA
Found at i:57437199 original size:18 final size:18
Alignment explanation
Indices: 57437176--57437213 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
57437166 GGTACTAAAC
57437176 TATAGAGTAAAATAGACA
1 TATAGAGTAAAATAGACA
57437194 TATAGAGTAAAATAGACA
1 TATAGAGTAAAATAGACA
57437212 TA
1 TA
57437214 GAATACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (18 bp):
TATAGAGTAAAATAGACA
Found at i:57441239 original size:16 final size:16
Alignment explanation
Indices: 57441206--57441239 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57441196 GGCAGTTGTT
* *
57441206 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
57441222 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
57441238 AA
1 AA
57441240 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:57444062 original size:21 final size:21
Alignment explanation
Indices: 57444036--57444076 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
57444026 AGACGAGCAA
* *
57444036 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
57444057 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
57444077 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:57446011 original size:16 final size:16
Alignment explanation
Indices: 57445978--57446011 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57445968 GGAGATTGTT
* *
57445978 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
57445994 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
57446010 AA
1 AA
57446012 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:57449282 original size:12 final size:11
Alignment explanation
Indices: 57449261--57449351 Score: 56
Period size: 11 Copynumber: 8.9 Consensus size: 11
57449251 ACCAAAAATT
57449261 TATTTTAAAAA
1 TATTTTAAAAA
57449272 TATTTTAAAAA
1 TATTTTAAAAA
57449283 TA----AAAAA
1 TATTTTAAAAA
*
57449290 -AATTTAAAAA
1 TATTTTAAAAA
57449300 TATTTT--AAA
1 TATTTTAAAAA
**
57449309 -ATTAAAAAAA
1 TATTTTAAAAA
* *
57449319 TA-ATAAAAAA
1 TATTTTAAAAA
57449329 GGTATTTTAAAAA
1 --TATTTTAAAAA
57449342 TATTTTAAAA
1 TATTTTAAAA
57449352 TTAAAAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
6 1 0.02
7 5 0.08
8 3 0.05
9 3 0.05
10 14 0.23
11 28 0.45
12 2 0.03
13 6 0.10
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:57449357 original size:17 final size:17
Alignment explanation
Indices: 57449335--57449381 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
57449325 AAAAGGTATT
57449335 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
*
57449352 TTAAAAAAAATTTTAAAA
1 TT-AAAAATATTTTAAAA
* *
57449370 ATAAATATATTT
1 TTAAAAATATTT
57449382 ATTATATCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:57454749 original size:21 final size:20
Alignment explanation
Indices: 57454716--57454756 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
57454706 TTCAATTAAA
57454716 AATTTATTAATAAATTATATT
1 AATTTATTAATAAA-TATATT
* *
57454737 AATTTCTTTATAAATATATT
1 AATTTATTAATAAATATATT
57454757 TATTACATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTTATTAATAAATATATT
Found at i:57455327 original size:27 final size:27
Alignment explanation
Indices: 57455297--57455392 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
57455287 TCAGAACCAC
57455297 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
57455324 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
57455351 TAGCCCAATAACCCAATAGCCTACCCT
1 TAGCCCAATAACCCAATAGCCTACCCT
*
57455378 CAGCCCAA-AACCCAA
1 TAGCCCAATAACCCAA
57455393 AACAAAAAAC
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
26 7 0.10
27 61 0.90
ACGTcount: A:0.35, C:0.42, G:0.07, T:0.16
Consensus pattern (27 bp):
TAGCCCAATAACCCAATAGCCTACCCT
Found at i:57456532 original size:3 final size:3
Alignment explanation
Indices: 57456508--57456557 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
57456498 TTTAGCCACT
* * *
57456508 TTA TTA TTT TTT TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
57456556 TT
1 TT
57456558 TGTTTGTGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:57466518 original size:29 final size:29
Alignment explanation
Indices: 57466484--57466539 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
57466474 ATAAGGATTA
*
57466484 GATCAAATTAGTCACTT-TATTATTAAATG
1 GATCAAATTAGTC-CTTATACTATTAAATG
*
57466513 GATCAATTTAGTCCTTATACTATTAAA
1 GATCAAATTAGTCCTTATACTATTAAA
57466540 AAGAATCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (29 bp):
GATCAAATTAGTCCTTATACTATTAAATG
Found at i:57469322 original size:12 final size:11
Alignment explanation
Indices: 57469300--57469329 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
57469290 TTTTATATTA
57469300 AAATATATTTTT
1 AAATA-ATTTTT
57469312 AAATAATTTTT
1 AAATAATTTTT
57469323 AAATAAT
1 AAATAAT
57469330 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATAATTTTT
Found at i:57469364 original size:22 final size:20
Alignment explanation
Indices: 57469319--57469373 Score: 51
Period size: 22 Copynumber: 2.8 Consensus size: 20
57469309 TTTAAATAAT
57469319 TTTTAAATA-ATAAATTTTA
1 TTTTAAATATATAAATTTTA
* *
57469338 ATTTAAATATGTATAATTTATA
1 TTTTAAATATATA-AATTT-TA
*
57469360 TTTTAGATAT-TAAA
1 TTTTAAATATATAAA
57469374 ATAAAATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
19 8 0.28
20 4 0.14
21 7 0.24
22 10 0.34
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTAAATATATAAATTTTA
Found at i:57473451 original size:19 final size:22
Alignment explanation
Indices: 57473410--57473451 Score: 63
Period size: 19 Copynumber: 2.0 Consensus size: 22
57473400 AAAATTTATT
57473410 TTTAATATATTTTTATATAAAA
1 TTTAATATATTTTTATATAAAA
57473432 TTTAA-ATA-TTTTAT-TAAAA
1 TTTAATATATTTTTATATAAAA
57473451 T
1 T
57473452 AATAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 3 0.15
22 5 0.25
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATATATTTTTATATAAAA
Found at i:57474812 original size:31 final size:31
Alignment explanation
Indices: 57474777--57474839 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
57474767 GCAACTATAC
57474777 AAATAAAACTTGAATTGTGATTC-ATATGTAT
1 AAATAAAACTTGAATTGTGATTCAAT-TGTAT
* *
57474808 AAATAAAACTTTAATTTTGATTCAATTGTAT
1 AAATAAAACTTGAATTGTGATTCAATTGTAT
57474839 A
1 A
57474840 TATTTAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (31 bp):
AAATAAAACTTGAATTGTGATTCAATTGTAT
Found at i:57488980 original size:16 final size:17
Alignment explanation
Indices: 57488954--57488985 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
57488944 CAATTTGAAA
57488954 ATTTATCAATTTAATTG
1 ATTTATCAATTTAATTG
57488971 ATTTAT-AATTTAATT
1 ATTTATCAATTTAATT
57488986 ACCAATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTATCAATTTAATTG
Found at i:57490942 original size:28 final size:28
Alignment explanation
Indices: 57490905--57490969 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
57490895 GTGACCTCAA
* * *
57490905 TGAAAAA-AAAAAAACAATGTGA-CATT
1 TGAAAAAGAAAAAAAAAATCTCATCATT
* *
57490931 TGAAAAAGAAAAATAATATCTCATCATT
1 TGAAAAAGAAAAAAAAAATCTCATCATT
57490959 TGAAAAAGAAA
1 TGAAAAAGAAA
57490970 CCTCATAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.22
27 10 0.31
28 15 0.47
ACGTcount: A:0.60, C:0.08, G:0.11, T:0.22
Consensus pattern (28 bp):
TGAAAAAGAAAAAAAAAATCTCATCATT
Found at i:57492619 original size:21 final size:20
Alignment explanation
Indices: 57492564--57492609 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
57492554 AAGAAAAAAA
* *
57492564 AGAAAGAAAAAAAG-GAA-G
1 AGAAAGAACAAAGGAGAAGG
57492582 AGAAAGAACAAAGGAGAAGG
1 AGAAAGAACAAAGGAGAAGG
57492602 AGAAAGAA
1 AGAAAGAA
57492610 AAGTAGGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 12 0.50
19 3 0.12
20 9 0.38
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.00
Consensus pattern (20 bp):
AGAAAGAACAAAGGAGAAGG
Found at i:57502695 original size:15 final size:15
Alignment explanation
Indices: 57502675--57502705 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
57502665 GAAACTTGTC
57502675 ATTATTGATTTCTTG
1 ATTATTGATTTCTTG
57502690 ATTATTGATTTCTTG
1 ATTATTGATTTCTTG
57502705 A
1 A
57502706 AGAGATTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.13, T:0.58
Consensus pattern (15 bp):
ATTATTGATTTCTTG
Found at i:57504643 original size:3 final size:3
Alignment explanation
Indices: 57504635--57504660 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
57504625 TACTAAACTA
57504635 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
57504661 CTTTTACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:57504983 original size:25 final size:26
Alignment explanation
Indices: 57504905--57504987 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 26
57504895 TATATTATTT
* * *
57504905 ATATTTTAAAATATATTATATATATTAT
1 ATATTTTATAATTTA-TATATATA-TAC
* * *
57504933 ATATTTTATAATTCACATATACATAC
1 ATATTTTATAATTTATATATATATAC
*
57504959 ATATTTT-TAATTTATATTTATATAC
1 ATATTTTATAATTTATATATATATAC
57504984 ATAT
1 ATAT
57504988 ATATCTCTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
25 18 0.40
26 9 0.20
27 6 0.13
28 12 0.27
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
ATATTTTATAATTTATATATATATAC
Found at i:57513701 original size:13 final size:14
Alignment explanation
Indices: 57513676--57513704 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57513666 AAAGGGGAAT
57513676 GAAGAACAAAATGG
1 GAAGAACAAAATGG
57513690 GAAGAA-AAAATGG
1 GAAGAACAAAATGG
57513703 GA
1 GA
57513705 GTGAAGGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.31, T:0.07
Consensus pattern (14 bp):
GAAGAACAAAATGG
Found at i:57523170 original size:35 final size:35
Alignment explanation
Indices: 57523131--57523227 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 35
57523121 ACTTCACTTC
57523131 TAGCTTTACTTCTAGCTTCTTAACATTTGATTTTT
1 TAGCTTTACTTCTAGCTTCTTAACATTTGATTTTT
* * *
57523166 TAGCTTTACTTC--G-TGGC-T---A--TGGTTCTT
1 TAGCTTTACTTCTAGCT-TCTTAACATTTGATTTTT
57523193 TAGCTTTACTTCTAGCTTCTTAACATTTGATTTTT
1 TAGCTTTACTTCTAGCTTCTTAACATTTGATTTTT
57523228 CAAAGATTGC
Statistics
Matches: 46, Mismatches: 6, Indels: 20
0.64 0.08 0.28
Matches are distributed among these distances:
27 18 0.39
29 3 0.07
30 2 0.04
32 2 0.04
33 3 0.07
35 18 0.39
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.53
Consensus pattern (35 bp):
TAGCTTTACTTCTAGCTTCTTAACATTTGATTTTT
Found at i:57523789 original size:52 final size:52
Alignment explanation
Indices: 57523716--57523820 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
57523706 ACTTAAGTTA
*
57523716 AATTACAAAAATGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
1 AATTACAAAAACGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
* **
57523768 AATTACAGAAACGCTATACTTAGGCAATTAAAGAGGTGAACTCTTAGAAATT
1 AATTACAAAAACGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
57523820 A
1 A
57523821 GTGACTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (52 bp):
AATTACAAAAACGCTATACTTAGGCAATTAAAGAGGCAAACTCTTAGAAATT
Found at i:57531241 original size:5 final size:5
Alignment explanation
Indices: 57531231--57531258 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
57531221 ATTATTAGTA
57531231 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
57531259 TTTTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:57555481 original size:245 final size:244
Alignment explanation
Indices: 57555043--57555615 Score: 975
Period size: 245 Copynumber: 2.3 Consensus size: 244
57555033 AATTTTAGTG
57555043 ATTAATTAATATGAGAATAGAGTGGGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATT
1 ATTAATTAATATGAGAATAGAGT-GGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATT
* * *
57555108 GTCGTGATTATTGATTTTTTTTTTAACAATATCATTATAGGTTAAGATCATATTTGTTATTTTTA
65 GTCGTGATTATTGA-CTTTTTTTTAACAATATCATTATAAGTTAAGATCATATTTGTTAGTTTTA
*
57555173 ACATAATACTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATGCATTTCAG
129 ACATAATACTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATACATTTCAG
57555238 CACACTCAAACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAA
194 CACACTCAAACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAA
57555289 ATTAATTAATATGAGAATAGAGTGGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATTG
1 ATTAATTAATATGAGAATAGAGTGGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATTG
*
57555354 TCGTGATTATTGACTTTTTTTTAACAATATCATTATAAGTTAAAGATCATATTTGTTCGTTTTAA
66 TCGTGATTATTGACTTTTTTTTAACAATATCATTATAAGTT-AAGATCATATTTGTTAGTTTTAA
* * * *
57555419 CATAATACTTAGAATTATTCGTAGTTTTTTCCTAACTCATAAATAAAAAGATAATACATTTCAGT
130 CATAATACTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATACATTTCAGC
* * *
57555484 ACACTCAAATTTACGTATCGTGTATTGATAATACTATTCATACTAATCAA
195 ACACTCAAACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAA
* * *
57555534 ATTAATTAAGATGAGAATAGAGTGAGGAGTGAAGGAGTAAGCATGGAGACCCCACCCCACTATTG
1 ATTAATTAATATGAGAATAGAGTGGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATTG
*
57555599 TCGTAATTATTGACTTT
66 TCGTGATTATTGACTTT
57555616 GCAATTTGCA
Statistics
Matches: 310, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
244 26 0.08
245 261 0.84
246 23 0.07
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (244 bp):
ATTAATTAATATGAGAATAGAGTGGGGAGTGAAGGAGTAAGCATAGAGACCCCACCCCACTATTG
TCGTGATTATTGACTTTTTTTTAACAATATCATTATAAGTTAAGATCATATTTGTTAGTTTTAAC
ATAATACTTAGAATTATTCATAGTTCTTCCCTAACTCATAAATAAAAAGATAATACATTTCAGCA
CACTCAAACTTACGTATCGTGTATTGACAATAATATTCATACTAATCAA
Found at i:57560515 original size:28 final size:28
Alignment explanation
Indices: 57560479--57560539 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
57560469 AATTACTAGT
*
57560479 GTCTCGATCCCAATTTTCTACTGAAACG
1 GTCTTGATCCCAATTTTCTACTGAAACG
*
57560507 GTCTTGATCTCAATTTTCTACTGAAACG
1 GTCTTGATCCCAATTTTCTACTGAAACG
*
57560535 ATCTT
1 GTCTT
57560540 AAAAGTGTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (28 bp):
GTCTTGATCCCAATTTTCTACTGAAACG
Found at i:57563512 original size:8 final size:8
Alignment explanation
Indices: 57563499--57563525 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
57563489 TATTAAATCT
57563499 AAATTTTA
1 AAATTTTA
57563507 AAATTTTA
1 AAATTTTA
57563515 AAATTTTA
1 AAATTTTA
57563523 AAA
1 AAA
57563526 ATAGAAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (8 bp):
AAATTTTA
Found at i:57563539 original size:31 final size:31
Alignment explanation
Indices: 57563507--57563564 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
57563497 CTAAATTTTA
*
57563507 AAATTTTAAAATTTT-AAAAATAGAAAGATT
1 AAATTTTAAAATTTTGAAAAATACAAAGATT
* *
57563537 AAATTTTTAATTTTTGAAAAATACAAAG
1 AAATTTTAAAATTTTGAAAAATACAAAG
57563565 GCTATACGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.38
Consensus pattern (31 bp):
AAATTTTAAAATTTTGAAAAATACAAAGATT
Found at i:57568235 original size:16 final size:16
Alignment explanation
Indices: 57568216--57568253 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
57568206 ATATATAATA
57568216 TATATAATATATTTTT
1 TATATAATATATTTTT
*
57568232 TATATAATGTATTTTT
1 TATATAATATATTTTT
57568248 TATATA
1 TATATA
57568254 TGTTTTATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
TATATAATATATTTTT
Found at i:57569096 original size:15 final size:15
Alignment explanation
Indices: 57569063--57569111 Score: 71
Period size: 15 Copynumber: 3.2 Consensus size: 15
57569053 ACTGAATTAA
*
57569063 ATAATATATATTATAT
1 ATAATATAT-TTTTAT
57569079 ATAATATATTTTTAT
1 ATAATATATTTTTAT
*
57569094 ATAATGTATTTTTAT
1 ATAATATATTTTTAT
57569109 ATA
1 ATA
57569112 TGTTTTATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATAATATATTTTTAT
Found at i:57569722 original size:852 final size:853
Alignment explanation
Indices: 57567720--57570285 Score: 4219
Period size: 860 Copynumber: 3.0 Consensus size: 853
57567710 GTGCCCTAAA
* *
57567720 CCGGCAGCGCGTGTGGAATGAACTGAAAATTGCGGCAAGACTCGTACAAGCACATGACTTGGGCA
1 CCGGCAGCGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGCACATGACTTGGGCA
57567785 ACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCACTGCAGAGC
66 ACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCACTGCAGAGC
* ** *
57567850 CACCCTAATGGCACAGGTCAAAATAAGATTCAAATTTTAAACCCAAAATTAGCATGAAAAACTTC
131 CACCCTAATGGCACAGGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGAAAATTTTA
* *
57567915 GACTCGTTTAAGATTATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATTAATGATTG
196 GACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATTAATGATTG
* * * * *
57567980 TGGTTAAAATATAAAATCGAGGAAGCTGTAACCATTTGATCAAATTACAACAGAAATTAGAGGTG
261 TGGTTAAAAAATAAAATCGAGGAGGTTGTAACCGTTTGATCAAATCACAACAGAAATTAGAGGTG
* *
57568045 CTCATAGTTCGGTTAAAGTCGAATTAACTGACCAAACCGATCTAATTCAGTTAATCGATCAATGC
326 TTCATAGTTCGGTTAAAATCGAATTAACTGACCAAACCGATCTAATTCAGTTAATCGATCAATGC
* *
57568110 TCGAATTTAGTTCGGTCTGATGTGGATTAATGATTTTTTGAAATTTTAATTATCAGTTAATTCAG
391 TCGAATTTAGTTCGGTCTGATGTCGATTAATGATTTTTTGAAATTTTAATTATCAGTTAATTCGG
* *
57568175 TTCGAAATCAAGTAATTAACTGAATTAAATAATATATAATATATATAATATATTTTTTATATAAT
456 TTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATATAATATATTTTTTATATAAT
*
57568240 GTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATACAAATTTTAGTTAA
521 GTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATATAAATTTTAGTTAA
*
57568305 TTCAGTTAAGTTATTGGGTTGCTAAGTTTTCTTTTTAAATCCAGCTAGTGAGCTCCAAGTATCGA
586 TTCAGTTAAGTTATTGGGTTGCTAAGTTTTC-TTTTAAATCCAGCTAGTGAGCTCCAAGTGTCGA
* * *
57568370 TTCGACAAACGGTGCGATGGATCAGTATTTATCGACGAGTAGAATAACATATCTTACATCCAAAT
650 TTCGACAAACGGTGCGATGGATCAGTATCTATCGACGAGTAGAATAACATATCTTAAATCCAAGT
* * *
57568435 CGATTTGATGGTCAGTGTTAGAGATTGGAGAATAAAACTATTTAAA-TTTAATTTATAGATTTGT
715 CGATTTGATGGTCAGTGTTAGAGATTGAAGAATAAAACTATTTAAATTTTGATTTATAGATTCGT
*
57568499 AAATTTTAAAGTTGTTTAATGAAAAAA-AAACTAAACTATAGAAGAGAAGATGAATGAAAGCTTT
780 GAATTTTAAAGTTGTTTAATGAAAAAATAAACTAAACTATAGAAGAGAAGATGAATGAAAGCTTT
*
57568563 CGATTGGTG
845 CGACTGGTG
* *
57568572 CCCTAAACCGGCAGTGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGTACATGAA
1 -------CCGGCAGCGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGCACATG-A
57568637 CTTGGGCAACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCAC
58 CTTGGGCAACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCAC
* *
57568702 TGCAGAGCCAACCTAATGGCACACGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGA
123 TGCAGAGCCACCCTAATGGCACAGGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGA
*
57568767 AAATTTTAGACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTCTAATCTTTTCTAAATT
188 AAATTTTAGACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATT
*
57568832 AATGATTGTGGTTAAAAAATAAAATCGAGGAGGTTGTAACCGTTTGATCAAATCACAACAGAAAC
253 AATGATTGTGGTTAAAAAATAAAATCGAGGAGGTTGTAACCGTTTGATCAAATCACAACAGAAAT
* * *
57568897 TAAAGGTGTTCATAGTTCGGTTAAAATCGAATTAACAGACCGAACCGATCTAATTCAGTTAATCG
318 TAGAGGTGTTCATAGTTCGGTTAAAATCGAATTAACTGACCAAACCGATCTAATTCAGTTAATCG
*
57568962 ATCAATGCTCGAATTTAGTTTGGTCTGATGTCGATTAATGATTTTTTGAAATTTTAATTATCAGT
383 ATCAATGCTCGAATTTAGTTCGGTCTGATGTCGATTAATGATTTTTTGAAATTTTAATTATCAGT
57569027 TAATTCGGTTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATATAATATA-TTTT
448 TAATTCGGTTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATATAATATATTTTT
*
57569091 TATATAATGTA-TTTTTATATATGTTTTATGCTTATTTTAACCAAAAGACAAAAACATATAAATT
513 TATATAATGTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATATAAATT
* *
57569155 TTAGTTAATTCAGTTAAGTTATTGGGTTGCTAAATTTTCTTTATAAATCTAGCTAGTGAGCTCCA
578 TTAGTTAATTCAGTTAAGTTATTGGGTTGCTAAGTTTTCTTT-TAAATCCAGCTAGTGAGCTCCA
* * * * * *
57569220 AATGTCGATTCGACAAACAGTGCGGTGGATCAGTACCTATCGACGAATAGAATAACATATCTTAG
642 AGTGTCGATTCGACAAACGGTGCGATGGATCAGTATCTATCGACGAGTAGAATAACATATCTTAA
* * *
57569285 ATTCAAGTCGATTTGATGGCCAGTGTTAGAGATTGAAGGATAAAACTATTTAAATTTTGATTTAT
707 ATCCAAGTCGATTTGATGGTCAGTGTTAGAGATTGAAGAATAAAACTATTTAAATTTTGATTTAT
** * * * * *
57569350 AGATTCACGAATTTTAAAATTGTTGAATGAAAAAATTAAACTATA-TATAAAAGAGAAAATGAAT
772 AGATTCGTGAATTTTAAAGTTGTTTAATGAAAAAA-TAAACTAAACTATAGAAGAGAAGATGAAT
*
57569414 GAAAGTTTTCGACTGGTG
836 GAAAGCTTTCGACTGGTG
*
57569432 CCGGCAGCGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGCATATGACTTGGGCA
1 CCGGCAGCGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGCACATGACTTGGGCA
57569497 ACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCACTGCAGAGC
66 ACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCACTGCAGAGC
57569562 CACCCTAATGGCACAGGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGAAAATTTTA
131 CACCCTAATGGCACAGGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGAAAATTTTA
57569627 GACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATTAATGATTG
196 GACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATTAATGATTG
* * * *
57569692 TGGTTAAAAAATAAAATTGAAGAGGTTGTAATCGTTTGATCAAATCACAACAGAAATTAGAGATG
261 TGGTTAAAAAATAAAATCGAGGAGGTTGTAACCGTTTGATCAAATCACAACAGAAATTAGAGGTG
* * *
57569757 TTCATAGTTCGGTTAAAATCGAATTAACTGACCAAACCTATCTAATTCAGTTTATCAATCAATGC
326 TTCATAGTTCGGTTAAAATCGAATTAACTGACCAAACCGATCTAATTCAGTTAATCGATCAATGC
* * * *
57569822 TTGAATTTAGTTCGGTCTGATGTCGATTAATGATTTTTTAAAATTTCAATTATCAATTAATTCGG
391 TCGAATTTAGTTCGGTCTGATGTCGATTAATGATTTTTTGAAATTTTAATTATCAGTTAATTCGG
*
57569887 TTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATTTAATATATTTTTTTATATAA
456 TTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATATAATATA-TTTTTTATATAA
*
57569952 TTTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATATAAATTTTAGTTA
520 TGTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATATAAATTTTAGTTA
* *
57570017 ATTCAGTTAAGTTATTGAGTTGCTAAGTTTTCTTTTCAAATCCAACTAGTGAGCTCCAAGTGTCG
585 ATTCAGTTAAGTTATTGGGTTGCTAAGTTTTCTTTT-AAATCCAGCTAGTGAGCTCCAAGTGTCG
* * *
57570082 ATTCAACGAACGGTGCGATGGATCAGTATCTATCGACGAGTAGAATAACATATATTAAATCCAAG
649 ATTCGACAAACGGTGCGATGGATCAGTATCTATCGACGAGTAGAATAACATATCTTAAATCCAAG
**
57570147 TCGATTTGATGGTCAGTGTTAGAGATTGAAGAATAAAACTATTTGGATTTTGATTTATAGATTCG
714 TCGATTTGATGGTCAGTGTTAGAGATTGAAGAATAAAACTATTTAAATTTTGATTTATAGATTCG
* * *
57570212 TGAATTTCAAAGTTGTTTAATG-AAATA-AAACTAAACTATAGAAGATAAGATGAATGAAAGCTT
779 TGAATTTTAAAGTTGTTTAATGAAAAAATAAACTAAACTATAGAAGAGAAGATGAATGAAAGCTT
57570275 TCGACTGGTG
844 TCGACTGGTG
57570285 C
1 C
57570286 AAATGACGCA
Statistics
Matches: 1585, Mismatches: 112, Indels: 26
0.92 0.07 0.02
Matches are distributed among these distances:
852 438 0.28
853 87 0.05
854 19 0.01
855 251 0.16
857 3 0.00
858 216 0.14
859 105 0.07
860 459 0.29
861 7 0.00
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (853 bp):
CCGGCAGCGTGTGTGGACTGAACTGAAAATTGCGGCAAGACTCGTACAAGCACATGACTTGGGCA
ACATATTTCCTTACATGCGACTTATTTCAATCACTAGGACCCTACTATGATGCCCACTGCAGAGC
CACCCTAATGGCACAGGTCAAAATAAGATTGAAATTTTAAACCCAAAATTAGCATGAAAATTTTA
GACACGTTTAAGATGATATTTTAGTACAATGAGATATCGTGTAATCTTTTCTAAATTAATGATTG
TGGTTAAAAAATAAAATCGAGGAGGTTGTAACCGTTTGATCAAATCACAACAGAAATTAGAGGTG
TTCATAGTTCGGTTAAAATCGAATTAACTGACCAAACCGATCTAATTCAGTTAATCGATCAATGC
TCGAATTTAGTTCGGTCTGATGTCGATTAATGATTTTTTGAAATTTTAATTATCAGTTAATTCGG
TTCGAAATCGAGTAATTAACTGAATTAAATAATATATATTATATATAATATATTTTTTATATAAT
GTATTTTTTATATATGTTTTATACTTATTTTAACCAAAAGACAAAAACATATAAATTTTAGTTAA
TTCAGTTAAGTTATTGGGTTGCTAAGTTTTCTTTTAAATCCAGCTAGTGAGCTCCAAGTGTCGAT
TCGACAAACGGTGCGATGGATCAGTATCTATCGACGAGTAGAATAACATATCTTAAATCCAAGTC
GATTTGATGGTCAGTGTTAGAGATTGAAGAATAAAACTATTTAAATTTTGATTTATAGATTCGTG
AATTTTAAAGTTGTTTAATGAAAAAATAAACTAAACTATAGAAGAGAAGATGAATGAAAGCTTTC
GACTGGTG
Found at i:57569957 original size:17 final size:16
Alignment explanation
Indices: 57569915--57569966 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
57569905 ACTGAATTAA
* *
57569915 ATAATATATATTATAT
1 ATAATATATTTTTTAT
*
57569931 TTAATATATTTTTTTAT
1 ATAATATA-TTTTTTAT
*
57569948 ATAATTTATTTTTTAT
1 ATAATATATTTTTTAT
57569964 ATA
1 ATA
57569967 TGTTTTATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 18 0.60
17 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATATATTTTTTAT
Found at i:57573443 original size:26 final size:26
Alignment explanation
Indices: 57573407--57573526 Score: 117
Period size: 26 Copynumber: 4.8 Consensus size: 26
57573397 CGCAGCTTTT
*
57573407 ATGAGCGTCCCGATATATGGCTCTTC
1 ATGAGCTTCCCGATATATGGCTCTTC
*
57573433 ATGAGCTTCCCGATAAATGGCTCTT-
1 ATGAGCTTCCCGATATATGGCTCTTC
*
57573458 ATGAGCTTCCCGTTA-ATGGCTCTTC
1 ATGAGCTTCCCGATATATGGCTCTTC
* * * *
57573483 -GGAACTTTCC-A-ATATGGCTC-GC
1 ATGAGCTTCCCGATATATGGCTCTTC
* *
57573505 TTGAACTTCCCGATATATGGCT
1 ATGAGCTTCCCGATATATGGCT
57573527 ACCCGGAGCT
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
22 2 0.03
23 15 0.19
24 17 0.22
25 22 0.28
26 23 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.33
Consensus pattern (26 bp):
ATGAGCTTCCCGATATATGGCTCTTC
Found at i:57575878 original size:50 final size:51
Alignment explanation
Indices: 57575753--57576000 Score: 254
Period size: 50 Copynumber: 4.8 Consensus size: 51
57575743 GATAATAACA
* * ** * *
57575753 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATC-T-CTAG
* *
57575804 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCT-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCTAG
* * * *
57575854 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTC-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCTAG
* *
57575904 TGCCCATGCCATGTCCCAGA-ATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-CTC-T-A-G
* *
57575958 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
57576001 TTACCCAAAT
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
49 22 0.13
50 65 0.39
51 35 0.21
52 3 0.02
53 2 0.01
54 1 0.01
55 19 0.11
56 19 0.11
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCTAG
Found at i:57575979 original size:105 final size:101
Alignment explanation
Indices: 57575752--57576000 Score: 342
Period size: 105 Copynumber: 2.4 Consensus size: 101
57575742 TGATAATAAC
**
57575752 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
57575817 TCCCAGACATGGTCTTATAGGGGACCTCTCATCTCTG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCATATCTG
* *
57575854 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
57575917 TCCCAGA-ATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAT-ATC-T---G
* *
57575958 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57576001 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
99 24 0.18
100 30 0.23
101 37 0.28
104 1 0.01
105 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (101 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCATATCTG
Found at i:57576115 original size:13 final size:13
Alignment explanation
Indices: 57576094--57576125 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
57576084 GCTTGGATCA
*
57576094 TCATCAAATAAAT
1 TCATAAAATAAAT
57576107 TCATAAAATAAAT
1 TCATAAAATAAAT
57576120 TCATAA
1 TCATAA
57576126 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:57576372 original size:30 final size:30
Alignment explanation
Indices: 57576337--57576394 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57576327 CCTCGACTCT
*
57576337 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
57576367 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
57576395 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:57580025 original size:17 final size:16
Alignment explanation
Indices: 57580001--57580039 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
57579991 CTTTTCATTA
57580001 TGTTTTCCTTTCTTTT-
1 TGTTTTCCTTT-TTTTC
57580017 TGTTGTTCCTTTTTTTC
1 TGTT-TTCCTTTTTTTC
57580034 TGTTTT
1 TGTTTT
57580040 GTGCATGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.00, C:0.15, G:0.10, T:0.74
Consensus pattern (16 bp):
TGTTTTCCTTTTTTTC
Found at i:57583994 original size:29 final size:29
Alignment explanation
Indices: 57583952--57584009 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
57583942 AATATTACTT
*
57583952 AGAGAGTTTAAGTTAGAATTTTTTTAGTA
1 AGAGAGTTTAAGTTAGAATTGTTTTAGTA
57583981 AGAGAGTTTAAGTTAGAATTGTTTTAGTA
1 AGAGAGTTTAAGTTAGAATTGTTTTAGTA
57584010 CAAGATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.43
Consensus pattern (29 bp):
AGAGAGTTTAAGTTAGAATTGTTTTAGTA
Found at i:57584121 original size:37 final size:35
Alignment explanation
Indices: 57584045--57584123 Score: 88
Period size: 34 Copynumber: 2.2 Consensus size: 35
57584035 AGAGTTCTAA
* * *
57584045 AATATTAAATAATAAAATATTTTTTTAAATCAAAT
1 AATAATAAATAATAAAATATTGTTTGAAATCAAAT
* *
57584080 -ATAATAAATAATAAAATGTATTGTTTGAAATTAATT
1 AATAATAAATAATAAAA--TATTGTTTGAAATCAAAT
57584116 AATAATAA
1 AATAATAA
57584124 CACTTGAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
34 15 0.42
36 14 0.39
37 7 0.19
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (35 bp):
AATAATAAATAATAAAATATTGTTTGAAATCAAAT
Found at i:57586244 original size:14 final size:15
Alignment explanation
Indices: 57586216--57586244 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57586206 AATCCTGTTT
57586216 AATATTTTAATATAA
1 AATATTTTAATATAA
57586231 AATATTTT-ATATAA
1 AATATTTTAATATAA
57586245 TACATCTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATATAA
Found at i:57588004 original size:36 final size:35
Alignment explanation
Indices: 57587955--57588034 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
57587945 TAAACTTAAA
57587955 ATTAAAAA-ATAAAACTTCAATAAATTCTTCAATC
1 ATTAAAAACATAAAACTTCAATAAATTCTTCAATC
* * *
57587989 ATTAAAAACAGTAAAACTTTAATAAATTCTTTAATT
1 ATTAAAAACA-TAAAACTTCAATAAATTCTTCAATC
57588025 ATTAAAAACA
1 ATTAAAAACA
57588035 AATAATGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 8 0.20
35 1 0.02
36 32 0.78
ACGTcount: A:0.54, C:0.11, G:0.01, T:0.34
Consensus pattern (35 bp):
ATTAAAAACATAAAACTTCAATAAATTCTTCAATC
Found at i:57597350 original size:20 final size:19
Alignment explanation
Indices: 57597318--57597355 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
57597308 AAAAATCACA
57597318 ATTCCTAAAAAATAGAATTT
1 ATTCCTAAAAAATA-AATTT
57597338 ATTCC-AAATAAATAAATT
1 ATTCCTAAA-AAATAAATT
57597356 ACCATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (19 bp):
ATTCCTAAAAAATAAATTT
Done.