Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 112 of 153
Found at i:35130682 original size:27 final size:28
Alignment explanation
Indices: 35130630--35130697 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
35130620 TATTTTTTTA
*
35130630 TTTT-TTATTTTT-CTTTTTTCTTTCTT
1 TTTTCTTATTTTTCCTTTTTTCTCTCTT
35130656 TTTTCTTATTTTTCCTTTTTTC-CTCTT
1 TTTTCTTATTTTTCCTTTTTTCTCTCTT
*
35130683 TCTTCTT-TTCTTTCC
1 TTTTCTTATT-TTTCC
35130698 CTCTTCTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
26 6 0.16
27 23 0.62
28 8 0.22
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTCTTATTTTTCCTTTTTTCTCTCTT
Found at i:35130689 original size:34 final size:33
Alignment explanation
Indices: 35130622--35130691 Score: 81
Period size: 34 Copynumber: 2.1 Consensus size: 33
35130612 ACTTTATATA
* *
35130622 TTTTTTTATTTTTTATTTTTCTTTTTTCTTTCT
1 TTTTTTTATTTTTTATTTTTCCTCTTTCTTTCT
35130655 TTTTTCTTATTTTTCCT-TTTTTCCTCTTTC-TTCT
1 TTTTT-TTATTTTT--TATTTTTCCTCTTTCTTTCT
35130689 TTT
1 TTT
35130692 CTTTCCCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
33 5 0.16
34 15 0.47
35 11 0.34
36 1 0.03
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (33 bp):
TTTTTTTATTTTTTATTTTTCCTCTTTCTTTCT
Found at i:35131286 original size:19 final size:20
Alignment explanation
Indices: 35131251--35131293 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
35131241 TTTAGGAAAG
35131251 TTTAGGGGTCAAAATGTAAT
1 TTTAGGGGTCAAAATGTAAT
*
35131271 TTTAGTGGTC-AAATGTAAT
1 TTTAGGGGTCAAAATGTAAT
35131290 TTTA
1 TTTA
35131294 AAAAGTTGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTAGGGGTCAAAATGTAAT
Found at i:35131342 original size:16 final size:17
Alignment explanation
Indices: 35131323--35131356 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
35131313 TAATTTATAT
35131323 TTTTTTATT-TTTAAAA
1 TTTTTTATTATTTAAAA
35131339 -TTTTTATTATTTAAAA
1 TTTTTTATTATTTAAAA
35131355 TT
1 TT
35131357 AATAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.50
16 7 0.44
17 1 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTATTATTTAAAA
Found at i:35131344 original size:15 final size:16
Alignment explanation
Indices: 35131324--35131356 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
35131314 AATTTATATT
35131324 TTTTTATT-TTTAAAA
1 TTTTTATTATTTAAAA
35131339 TTTTTATTATTTAAAA
1 TTTTTATTATTTAAAA
35131355 TT
1 TT
35131357 AATAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTATTATTTAAAA
Found at i:35132041 original size:76 final size:75
Alignment explanation
Indices: 35131616--35132168 Score: 658
Period size: 75 Copynumber: 7.3 Consensus size: 75
35131606 TATTTTTATT
* * * * * * * *
35131616 TTTTTGAAAAATAGAAATCGAAAATAGCTCGGCGCGTGATCTGAAGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
35131681 TATGAGTTGA
66 TATGAGTTGA
* * * * *
35131691 TCTTTGAAAAACAGAAATTGAAAATACCCCAGCGTGAGATCCAAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
*
35131756 TATCAGTTGA
66 TATGAGTTGA
* * * * * * * *
35131766 TTTTTTAAAAATAGAAATTGAAAATACCTCAGTGTATAACCCGAGGCTCAAATCACTTCTCGAAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
35131831 TATGAGTTGA
66 TATGAGTTGA
* * *
35131841 TTTTTGAAAAACAAAAATTAAAAATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGGAT
1 TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
35131906 TATGAGTTGA
66 TATGAGTTGA
*** * ** *
35131916 TTTAAAAAAAAATAGAAATTGAAAAATACCTC-GACGTGTGACCTAAGGCTCAACTCACCTCTTG
1 TTT-TTGAAAAACAGAAATTG-AAAATACCTCAG-CGTGTGACCCGAGGCTCAACTCACCTCTCG
*
35131980 GATTATCAGTTGA
63 GATTATGAGTTGA
* * *
35131993 TTTTTGAAAAATAGAAATTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTTGGA
1 TTTTTGAAAAACAGAAATTG-AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGA
35132058 TTATGAGTTGA
65 TTATGAGTTGA
* * * * * **
35132069 TCTTTGAAAAAACAAAAAGTGAAAATAACTTAGCGTGCAACCCGAGGCTCAACTCACCTCTCGGA
1 TTTTTG-AAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGA
35132134 TTATGAGTTGA
65 TTATGAGTTGA
*
35132145 TTTTTGAAAAACATAAATTGAAAA
1 TTTTTGAAAAACAGAAATTGAAAA
35132169 AAAGAAATAA
Statistics
Matches: 406, Mismatches: 67, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
75 207 0.51
76 136 0.33
77 63 0.16
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (75 bp):
TTTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGGAT
TATGAGTTGA
Found at i:35132146 original size:152 final size:151
Alignment explanation
Indices: 35131661--35132169 Score: 639
Period size: 152 Copynumber: 3.4 Consensus size: 151
35131651 GTGATCTGAA
* *
35131661 GCTCAACTCACCTCTCGGATTATGAGTTGATCTTTGAAAAACAGAAATTG-AAAATACCCCAGCG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
* * * ** * *
35131725 TGAGATCCAAGGCTCAACTCACCTCTCGGATTATCAGTTGATTTTTTAAAAATAGAAATTGAAAA
66 TGAGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTAAAAAAAAAAAAATTGAAAA
* * * *
35131790 TACCTCAGTGTATAACCCGAG
131 TAACTTAGCGTGTAACCCGAG
* * * *
35131811 GCTCAAATCACTTCTCGAATTATGAGTTGATTTTTGAAAAACAAAAATT-AAAAATACCTCAGCG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
*
35131875 TGCGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGA-TTTAAAAAAAAATAGAAATTGAA
66 TGAGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTAAAAAAAAA-A-AAATTGAA
* * * **
35131939 AA-ATACCTCGACGTGTGACCTAAG
129 AATA-ACTTAG-CGTGTAACCCGAG
* * * *
35131963 GCTCAACTCACCTCTTGGATTATCAGTTGATTTTTGAAAAATAGAAATTGAAAAATACCTCGGCG
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
* * * * *
35132028 TGTGACCCGAGGCTCAACTCACCTCTTGGATTATGAGTTGATCTTTGAAAAAACAAAAAGTGAAA
66 TGAGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGAT-TTTAAAAAAAAAAAAATTGAAA
*
35132093 ATAACTTAGCGTGCAACCCGAG
130 ATAACTTAGCGTGTAACCCGAG
*
35132115 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACATAAATTGAAAAA
1 GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAA
35132170 AAGAAATAAT
Statistics
Matches: 304, Mismatches: 46, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
149 9 0.03
150 95 0.31
151 12 0.04
152 110 0.36
153 66 0.22
154 2 0.01
155 10 0.03
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (151 bp):
GCTCAACTCACCTCTCGGATTATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCG
TGAGACCCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTAAAAAAAAAAAAATTGAAAA
TAACTTAGCGTGTAACCCGAG
Found at i:35136374 original size:25 final size:25
Alignment explanation
Indices: 35136343--35136392 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
35136333 GTGCTTAATG
35136343 AACTTCAAGAATTCGTGTGCTTCCT
1 AACTTCAAGAATTCGTGTGCTTCCT
35136368 AACTTCAAGAATTCGTGTGCTTCCT
1 AACTTCAAGAATTCGTGTGCTTCCT
35136393 CCTCATTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (25 bp):
AACTTCAAGAATTCGTGTGCTTCCT
Found at i:35138886 original size:4 final size:4
Alignment explanation
Indices: 35138844--35138876 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
35138834 ATGTACATGC
*
35138844 AATG AATG AATG AATG CATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG A
35138877 CCAATGAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:35142409 original size:15 final size:17
Alignment explanation
Indices: 35142389--35142421 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
35142379 TTTTGATAAA
35142389 TTACATAT-TAT-TATT
1 TTACATATATATATATT
35142404 TTACATATATATATATT
1 TTACATATATATATATT
35142421 T
1 T
35142422 AAAAATGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TTACATATATATATATT
Found at i:35142894 original size:28 final size:28
Alignment explanation
Indices: 35142860--35142955 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
35142850 GGTTGCTGGA
* **
35142860 CTGGCCTGCTGTGTTGCTAGGCTGGGTG
1 CTGGCCTGCTGTGCTGCTAGGCCAGGTG
* *
35142888 CTGGCCTGTTGTGCTGCTGGGCCAGGTG
1 CTGGCCTGCTGTGCTGCTAGGCCAGGTG
* * * * *
35142916 CTGGCTTGCTGTACTGTTGGGCCAGGCG
1 CTGGCCTGCTGTGCTGCTAGGCCAGGTG
*
35142944 CTAGCCTGCTGT
1 CTGGCCTGCTGT
35142956 TTGTTAGGCT
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 56 1.00
ACGTcount: A:0.05, C:0.25, G:0.40, T:0.30
Consensus pattern (28 bp):
CTGGCCTGCTGTGCTGCTAGGCCAGGTG
Found at i:35142983 original size:10 final size:10
Alignment explanation
Indices: 35142968--35143001 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
35142958 GTTAGGCTTC
35142968 TTTCTTTTTT
1 TTTCTTTTTT
35142978 TTTCTTTTTT
1 TTTCTTTTTT
*
35142988 TTCCTTTTTCT
1 TTTCTTTTT-T
35142999 TTT
1 TTT
35143002 GGGCTGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.86
11 3 0.14
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:35143166 original size:10 final size:9
Alignment explanation
Indices: 35143151--35143224 Score: 51
Period size: 10 Copynumber: 7.6 Consensus size: 9
35143141 ATTTTTATAC
35143151 TTTTCTTTT
1 TTTTCTTTT
35143160 TTATTCTTTCT
1 TT-TTCTTT-T
35143171 TTTTCCTTCCTT
1 TTTT-CTT--TT
35143183 TTTTCTTCTT
1 TTTTCTT-TT
*
35143193 TTTTC-CTT
1 TTTTCTTTT
35143201 TTTTCTTCTT
1 TTTTCTT-TT
*
35143211 TCTTCTTTT
1 TTTTCTTTT
*
35143220 CTTTC
1 TTTTC
35143225 CCTTTTCTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 7 0.13
9 7 0.13
10 24 0.45
11 9 0.17
12 5 0.09
13 1 0.02
ACGTcount: A:0.01, C:0.23, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:35143189 original size:18 final size:19
Alignment explanation
Indices: 35143166--35143212 Score: 71
Period size: 18 Copynumber: 2.6 Consensus size: 19
35143156 TTTTTTATTC
35143166 TTTCTT-TTTCCTTCCTTT
1 TTTCTTCTTTCCTTCCTTT
*
35143184 TTTCTTCTTT-TTTCCTTT
1 TTTCTTCTTTCCTTCCTTT
35143202 TTTCTTCTTTC
1 TTTCTTCTTTC
35143213 TTCTTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 23 0.88
19 3 0.12
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCTTCTTTCCTTCCTTT
Found at i:35143195 original size:22 final size:22
Alignment explanation
Indices: 35143170--35143235 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
35143160 TTATTCTTTC
35143170 TTTTTCCTTCCTTTTTTCTTCT
1 TTTTTCCTTCCTTTTTTCTTCT
35143192 TTTTTCCTT--TTTTCTTCTTTCT
1 TTTTTCCTTCCTTTT-TTC-TTCT
* *
35143214 TCTTTTCTTTCC-CTTTTCTTCT
1 T-TTTTCCTTCCTTTTTTCTTCT
35143236 GAAAACCCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 4 0.11
21 3 0.08
22 18 0.49
23 10 0.27
24 2 0.05
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTCCTTCCTTTTTTCTTCT
Found at i:35143716 original size:20 final size:20
Alignment explanation
Indices: 35143687--35143726 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
35143677 AGGTAAACTT
*
35143687 GGGGTCAAAATGAAATTTTA
1 GGGGTCAAAAGGAAATTTTA
* *
35143707 GGGGTTAAAAGGTAATTTTA
1 GGGGTCAAAAGGAAATTTTA
35143727 AGAAAGTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.33
Consensus pattern (20 bp):
GGGGTCAAAAGGAAATTTTA
Found at i:35143739 original size:30 final size:29
Alignment explanation
Indices: 35143704--35143811 Score: 148
Period size: 30 Copynumber: 3.7 Consensus size: 29
35143694 AAATGAAATT
*
35143704 TTAGGGGTTAAAAGGTAATTTTAAGAAAG
1 TTAGGGGTTAAAATGTAATTTTAAGAAAG
35143733 TTTAGGGGTTAAAATGTAATTTTAA-AAAG
1 -TTAGGGGTTAAAATGTAATTTTAAGAAAG
*
35143762 TTA-GGGTTAAAATGTAATTTTAAAAAAG
1 TTAGGGGTTAAAATGTAATTTTAAGAAAG
* *
35143790 TTAGGGAGTCAAAATATAATTT
1 TTAGGG-GTTAAAATGTAATTT
35143812 ATATCTTTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
27 20 0.28
28 10 0.14
29 6 0.08
30 36 0.50
ACGTcount: A:0.43, C:0.01, G:0.21, T:0.35
Consensus pattern (29 bp):
TTAGGGGTTAAAATGTAATTTTAAGAAAG
Found at i:35143787 original size:28 final size:28
Alignment explanation
Indices: 35143708--35143795 Score: 133
Period size: 27 Copynumber: 3.1 Consensus size: 28
35143698 GAAATTTTAG
* *
35143708 GGGTTAAAAGGTAATTTTAAGAAAGTTTA
1 GGGTTAAAATGTAATTTTAAAAAAG-TTA
35143737 GGGGTTAAAATGTAATTTT-AAAAAGTTA
1 -GGGTTAAAATGTAATTTTAAAAAAGTTA
35143765 GGGTTAAAATGTAATTTTAAAAAAGTTA
1 GGGTTAAAATGTAATTTTAAAAAAGTTA
35143793 GGG
1 GGG
35143796 AGTCAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
27 18 0.33
28 15 0.27
29 5 0.09
30 17 0.31
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (28 bp):
GGGTTAAAATGTAATTTTAAAAAAGTTA
Found at i:35147924 original size:20 final size:20
Alignment explanation
Indices: 35147883--35147927 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
35147873 TCTTTGAAAA
* **
35147883 AATA-TATAATTATTCATTT
1 AATATTATAACTATTCAAAT
35147902 AATATTATAACTATTCAAAT
1 AATATTATAACTATTCAAAT
35147922 AATATT
1 AATATT
35147928 GTTTAAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTATAACTATTCAAAT
Found at i:35148505 original size:34 final size:33
Alignment explanation
Indices: 35148465--35148536 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
35148455 TTATTCCGCT
35148465 AATTATTAATTTTATAATAAATTTAAATTGATAA
1 AATTATTAA-TTTATAATAAATTTAAATTGATAA
* ** * * *
35148499 AATTATTTATTTATCTTTATTTTAAATTTATAA
1 AATTATTAATTTATAATAAATTTAAATTGATAA
35148532 AATTA
1 AATTA
35148537 GAAATTATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 24 0.75
34 8 0.25
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
AATTATTAATTTATAATAAATTTAAATTGATAA
Found at i:35149043 original size:6 final size:6
Alignment explanation
Indices: 35149032--35149067 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
35149022 GATGGTTTGA
*
35149032 GCATGG GCATGG GCATGG GCATGG GCATGG TCATGG
1 GCATGG GCATGG GCATGG GCATGG GCATGG GCATGG
35149068 CAGTTTCTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.17, G:0.47, T:0.19
Consensus pattern (6 bp):
GCATGG
Found at i:35161474 original size:25 final size:24
Alignment explanation
Indices: 35161446--35161501 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
35161436 ATATTACTTA
35161446 ATATAAATGTATGTTATAA-TAAATT
1 ATATAAATGTATG-TA-AATTAAATT
*
35161471 ATATAAAATGTATGTAAATTATATT
1 ATAT-AAATGTATGTAAATTAAATT
35161496 ATATAA
1 ATATAA
35161502 TAATTGTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
26 9 0.32
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (24 bp):
ATATAAATGTATGTAAATTAAATT
Found at i:35162209 original size:25 final size:25
Alignment explanation
Indices: 35162161--35162209 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
35162151 CATAATTGAA
* * *
35162161 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
35162186 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
35162210 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:35164089 original size:50 final size:50
Alignment explanation
Indices: 35163944--35164096 Score: 128
Period size: 50 Copynumber: 3.1 Consensus size: 50
35163934 AGTTTAGTAA
* *
35163944 TGGGGCAAGATGAAGCTACAACCTCCAATCTCGTATCCTTAAAGATGCAG
1 TGGGGCAAGATGAAGCTACAACCTCAAATCTCGTATCCATAAAGATGCAG
** * * * * **** * * * *
35163994 T-GAACAGGATCAAAACTATAGTAGCAAATCTCATCTCCATGAAGATGCAT
1 TGGGGCAAGAT-GAAGCTACAACCTCAAATCTCGTATCCATAAAGATGCAG
* *
35164044 TGGGGCAAGATGAAGCTACAACCTCAAATCTCGTATCCCTAAAGATGAAG
1 TGGGGCAAGATGAAGCTACAACCTCAAATCTCGTATCCATAAAGATGCAG
35164094 TGG
1 TGG
35164097 ATTGGATTGA
Statistics
Matches: 69, Mismatches: 32, Indels: 4
0.66 0.30 0.04
Matches are distributed among these distances:
49 6 0.09
50 57 0.83
51 6 0.09
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (50 bp):
TGGGGCAAGATGAAGCTACAACCTCAAATCTCGTATCCATAAAGATGCAG
Found at i:35167034 original size:20 final size:21
Alignment explanation
Indices: 35167009--35167075 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 21
35166999 TTATTTTAAC
35167009 TTTTTTAAAGATTTTA-AATT
1 TTTTTTAAAGATTTTAGAATT
*
35167029 TTTTTT-ATGTATTCTTTAGAATT
1 TTTTTTAAAG-A-T-TTTAGAATT
* *
35167052 TTTTTAAAAG-TTTTATAATT
1 TTTTTTAAAGATTTTAGAATT
35167072 TTTT
1 TTTT
35167076 AAAAATATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.05
20 19 0.50
21 2 0.05
22 4 0.11
23 9 0.24
24 2 0.05
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTTTTAAAGATTTTAGAATT
Found at i:35167080 original size:20 final size:20
Alignment explanation
Indices: 35167043--35167080 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35167033 TTATGTATTC
*
35167043 TTTAGAATTTTTTTAAAAGT
1 TTTAGAATTTTTTAAAAAGT
*
35167063 TTTATAATTTTTTAAAAA
1 TTTAGAATTTTTTAAAAA
35167081 TATAAATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TTTAGAATTTTTTAAAAAGT
Found at i:35167126 original size:19 final size:20
Alignment explanation
Indices: 35167104--35167150 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35167094 ATTTTATAAA
*
35167104 TATTTTTAAT-CTTAAAAAT
1 TATTTTGAATACTTAAAAAT
* *
35167123 TATTTTGAATATTTGAAAAT
1 TATTTTGAATACTTAAAAAT
35167143 TATTTTGA
1 TATTTTGA
35167151 CATTTTTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.53
Consensus pattern (20 bp):
TATTTTGAATACTTAAAAAT
Found at i:35170078 original size:4 final size:4
Alignment explanation
Indices: 35170069--35170095 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
35170059 TAACAAAAGT
35170069 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
35170096 TACTTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:35175022 original size:19 final size:19
Alignment explanation
Indices: 35174998--35175034 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
35174988 ATTAAGTAAA
35174998 AAATAATA-ACATTTTTTAT
1 AAATAATATA-ATTTTTTAT
35175017 AAATAATATAATTTTTTA
1 AAATAATATAATTTTTTA
35175035 CCAAAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATAATATAATTTTTTAT
Found at i:35176200 original size:31 final size:31
Alignment explanation
Indices: 35176162--35176224 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
35176152 AACAAAGCAC
35176162 TGACTATGATATATCTTCATTGTTTGCTCCT
1 TGACTATGATATATCTTCATTGTTTGCTCCT
35176193 TGACTATGATATATCTTCATTGTTTGCTCCT
1 TGACTATGATATATCTTCATTGTTTGCTCCT
35176224 T
1 T
35176225 ACCATTCAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.19, G:0.13, T:0.49
Consensus pattern (31 bp):
TGACTATGATATATCTTCATTGTTTGCTCCT
Found at i:35183968 original size:19 final size:19
Alignment explanation
Indices: 35183927--35183969 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
35183917 GGCATTTCGG
35183927 TTTCTAAAACTTAACCTTA
1 TTTCTAAAACTTAACCTTA
35183946 TTTCTCAAAA-TTCAACCTT-
1 TTTCT-AAAACTT-AACCTTA
35183965 TTTCT
1 TTTCT
35183970 TCAAGTGAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTCTAAAACTTAACCTTA
Found at i:35190788 original size:18 final size:19
Alignment explanation
Indices: 35190762--35190798 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
35190752 AATTTTGGAA
35190762 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
35190780 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
35190799 ATGTAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:35191628 original size:18 final size:18
Alignment explanation
Indices: 35191602--35191640 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
35191592 ATTCCTCATA
* *
35191602 TCAATCATCCCTCATCTC
1 TCAAACATCACTCATCTC
*
35191620 TCAAACATCATTCATCTC
1 TCAAACATCACTCATCTC
35191638 TCA
1 TCA
35191641 CTCTCATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.38, G:0.00, T:0.33
Consensus pattern (18 bp):
TCAAACATCACTCATCTC
Found at i:35205965 original size:12 final size:12
Alignment explanation
Indices: 35205948--35205997 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
35205938 GAGCCAGTTA
35205948 TTCTTACGAATT
1 TTCTTACGAATT
35205960 TTCTT----ATT
1 TTCTTACGAATT
35205968 TTCTTACGAATT
1 TTCTTACGAATT
*
35205980 TTCTTATGAATT
1 TTCTTACGAATT
35205992 TTCTTA
1 TTCTTA
35205998 TTTTAATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
8 8 0.24
12 25 0.76
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (12 bp):
TTCTTACGAATT
Found at i:35206001 original size:20 final size:20
Alignment explanation
Indices: 35205948--35205986 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
35205938 GAGCCAGTTA
35205948 TTCTTACGAATTTTCTTATT
1 TTCTTACGAATTTTCTTATT
35205968 TTCTTACGAATTTTCTTAT
1 TTCTTACGAATTTTCTTAT
35205987 GAATTTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.05, T:0.59
Consensus pattern (20 bp):
TTCTTACGAATTTTCTTATT
Found at i:35209458 original size:35 final size:35
Alignment explanation
Indices: 35209412--35209479 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
35209402 TATTTACCTT
35209412 AATTTTTGCCATAACATTTCCTTTAATAATTTTTA
1 AATTTTTGCCATAACATTTCCTTTAATAATTTTTA
*
35209447 AATTTTTGCCATAACATTTCCTTTAATCATTTT
1 AATTTTTGCCATAACATTTCCTTTAATAATTTT
35209480 ACTATAACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.03, T:0.51
Consensus pattern (35 bp):
AATTTTTGCCATAACATTTCCTTTAATAATTTTTA
Found at i:35215678 original size:19 final size:19
Alignment explanation
Indices: 35215630--35215678 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
35215620 TTATAAACAA
*
35215630 AAAAATCAAAATAACTTAC
1 AAAATTCAAAATAACTTAC
* **
35215649 AAAACTTCAAAATAATTTTT
1 AAAA-TTCAAAATAACTTAC
35215669 AAAATTCAAA
1 AAAATTCAAA
35215679 TATTTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATTCAAAATAACTTAC
Found at i:35216457 original size:163 final size:163
Alignment explanation
Indices: 35216251--35216551 Score: 503
Period size: 163 Copynumber: 1.8 Consensus size: 163
35216241 TTGATGCGAA
* *
35216251 TAAATGTTGATTTTAGAAATTGTTGAAAAGAGTCTACATATGAAATGTTTATTTTGGGAAGTGTA
1 TAAATGTTGATTTTAGAAAATGATGAAAAGAGTCTACATATGAAATGTTTATTTTGGGAAGTGTA
* * *
35216316 TATGATATGTATATTAGGTTGAATTGTATATGTGTGGCTATTGGAGTATACATGTGTTTGAACCG
66 TATGATATGTACATTAGGTTGAATTGTATATGTATGGCTATTGGAGTATACAAGTGTTTGAACCG
35216381 AGAATATGGTTGCTTTTGGGATGCCTTATATTT
131 AGAATATGGTTGCTTTTGGGATGCCTTATATTT
* * *
35216414 TAAATGTTGATTTTTGAAAATGATGAAAATAGTCTATATATGAAATGTTTATTTTGGGAAGTGTA
1 TAAATGTTGATTTTAGAAAATGATGAAAAGAGTCTACATATGAAATGTTTATTTTGGGAAGTGTA
* * *
35216479 TATGATATGTACATTAGGTTGAATTGTTTATGTATTGCTATTGGAGTATGCAAGTGTTTGAACCG
66 TATGATATGTACATTAGGTTGAATTGTATATGTATGGCTATTGGAGTATACAAGTGTTTGAACCG
35216544 AGAATATG
131 AGAATATG
35216552 TTTGAAGTAT
Statistics
Matches: 127, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
163 127 1.00
ACGTcount: A:0.31, C:0.05, G:0.23, T:0.41
Consensus pattern (163 bp):
TAAATGTTGATTTTAGAAAATGATGAAAAGAGTCTACATATGAAATGTTTATTTTGGGAAGTGTA
TATGATATGTACATTAGGTTGAATTGTATATGTATGGCTATTGGAGTATACAAGTGTTTGAACCG
AGAATATGGTTGCTTTTGGGATGCCTTATATTT
Found at i:35219526 original size:58 final size:57
Alignment explanation
Indices: 35219458--35219587 Score: 181
Period size: 57 Copynumber: 2.3 Consensus size: 57
35219448 TCATTTTTCT
* * * *
35219458 TTTTCTTTTTCATTTTGGAGAAAACTACTATTCATTTCTAAATGATTCCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCA-TAATCATTTCCAAATGATTCCATTTCTCCA
* * *
35219516 TTTTCATTTTCAGTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTATTTCTCCA
1 TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCA
35219573 TTTTCA-TTTCATTTT
1 TTTTCATTTTCATTTT
35219588 CATTTCATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 8 0.12
57 32 0.50
58 24 0.38
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.49
Consensus pattern (57 bp):
TTTTCATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCA
Found at i:35219584 original size:5 final size:5
Alignment explanation
Indices: 35219574--35219607 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
35219564 ATTTCTCCAT
35219574 TTTCA TTTCA TTTTCA TTTCA TTTCA TTTCA TTT
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTCA TTT
35219608 TGGTAATTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.65
Consensus pattern (5 bp):
TTTCA
Found at i:35219587 original size:11 final size:11
Alignment explanation
Indices: 35219571--35219608 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
35219561 TCTATTTCTC
35219571 CATTTTCATTT
1 CATTTTCATTT
35219582 CATTTTCATTT
1 CATTTTCATTT
35219593 CA-TTTCATTT
1 CATTTTCATTT
35219603 CATTTT
1 CATTTT
35219609 GGTAATTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.38
11 16 0.62
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (11 bp):
CATTTTCATTT
Found at i:35224136 original size:5 final size:5
Alignment explanation
Indices: 35224126--35224152 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35224116 TTATATTAAT
35224126 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
35224153 CCATGAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:35237944 original size:45 final size:46
Alignment explanation
Indices: 35237877--35238000 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
35237867 CATATGACCT
*
35237877 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
35237920 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
35237966 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
35238001 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:35237983 original size:46 final size:45
Alignment explanation
Indices: 35237877--35238111 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
35237867 CATATGACCT
*
35237877 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
35237920 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
35237966 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
35238003 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
35238040 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
35238077 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
35238112 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:35238004 original size:37 final size:37
Alignment explanation
Indices: 35237962--35238138 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
35237952 AGCTGAAGCT
* **
35237962 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
35237999 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
35238036 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
35238073 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
35238110 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
35238139 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:35245643 original size:45 final size:46
Alignment explanation
Indices: 35245576--35245699 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
35245566 CATATGACCT
*
35245576 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
35245619 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
35245665 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
35245700 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:35245682 original size:46 final size:45
Alignment explanation
Indices: 35245576--35245810 Score: 207
Period size: 37 Copynumber: 5.8 Consensus size: 45
35245566 CATATGACCT
*
35245576 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
35245619 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
35245665 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
35245702 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
35245739 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
35245776 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
35245811 CACTTATCAC
Statistics
Matches: 177, Mismatches: 7, Indels: 18
0.88 0.03 0.09
Matches are distributed among these distances:
37 101 0.57
39 2 0.01
40 3 0.02
42 1 0.01
43 9 0.05
44 6 0.03
45 21 0.12
46 34 0.19
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:35245703 original size:37 final size:37
Alignment explanation
Indices: 35245661--35245837 Score: 300
Period size: 37 Copynumber: 4.8 Consensus size: 37
35245651 AGCTGAAGCT
* **
35245661 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
35245698 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
35245735 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
35245772 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
35245809 GCCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
35245838 AGTACTCAAA
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:35257644 original size:20 final size:20
Alignment explanation
Indices: 35257619--35257666 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35257609 CATAGAACTT
* *
35257619 AAAAGCTGCAGGAAGCAATA
1 AAAAGCTACACGAAGCAATA
* *
35257639 AAAAGCTATACGAAGCAGTA
1 AAAAGCTACACGAAGCAATA
35257659 AAAAGCTA
1 AAAAGCTA
35257667 TATAAGCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.21, T:0.12
Consensus pattern (20 bp):
AAAAGCTACACGAAGCAATA
Found at i:35257667 original size:20 final size:20
Alignment explanation
Indices: 35257630--35257668 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35257620 AAAGCTGCAG
35257630 GAAGCAATAAAAAGCTATAC
1 GAAGCAATAAAAAGCTATAC
*
35257650 GAAGCAGTAAAAAGCTATA
1 GAAGCAATAAAAAGCTATA
35257669 TAAGCTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.13, G:0.18, T:0.15
Consensus pattern (20 bp):
GAAGCAATAAAAAGCTATAC
Found at i:35257675 original size:9 final size:9
Alignment explanation
Indices: 35257661--35257686 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
35257651 AAGCAGTAAA
35257661 AAGCTATAT
1 AAGCTATAT
35257670 AAGCTATAT
1 AAGCTATAT
35257679 AAGCTATA
1 AAGCTATA
35257687 AATAGTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.31
Consensus pattern (9 bp):
AAGCTATAT
Found at i:35260412 original size:28 final size:28
Alignment explanation
Indices: 35260381--35260496 Score: 110
Period size: 28 Copynumber: 4.1 Consensus size: 28
35260371 GTTTCTGCGG
* *
35260381 ACTCTTACTTGAAGAATAGTTCTTGCAA
1 ACTCTTACTTGAAGAATAGTCCATGCAA
*
35260409 ACTCTTGCTTGAAGAATAGTCCATGCAA
1 ACTCTTACTTGAAGAATAGTCCATGCAA
* * **
35260437 ATTCTTACTTGAA-AGATAGTCCATACGG
1 ACTCTTACTTGAAGA-ATAGTCCATGCAA
* * *
35260465 ACTTTTACTTGAA-ATATAATCCATGCAG
1 ACTCTTACTTGAAGA-ATAGTCCATGCAA
35260493 ACTC
1 ACTC
35260497 AAACGTGAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 1 0.01
28 71 0.99
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (28 bp):
ACTCTTACTTGAAGAATAGTCCATGCAA
Found at i:35264975 original size:112 final size:112
Alignment explanation
Indices: 35264836--35265193 Score: 536
Period size: 112 Copynumber: 3.2 Consensus size: 112
35264826 TCTTGTCATA
* * * *
35264836 GGTCTCAACCACATAGTATCACTCATATTCATGTACCGTGATCTGCTAGTCTAGTCTTCATCTTA
1 GGTCTCAACCACATGGTCTTACTCATATTCATGTATCGTGATCTGCTAGTCTAGTCTTCATCTTA
** * *
35264901 CTAGAGGCTACACCATAACTATTCCCATATCATACTAAGAAGCCGTG
66 CTAGAGGCTACACCATAACTATTTTCATATCATACTAAGATGCCATG
* *
35264948 GGTCTGAACCACATGGTCTTACTCATATTCATGTATCGTGATCTGCTAGTCTAGTCTTTATCTTA
1 GGTCTCAACCACATGGTCTTACTCATATTCATGTATCGTGATCTGCTAGTCTAGTCTTCATCTTA
* * * *
35265013 TTAGAGGCCACACCATAATTATTTTCATATCATACTATGATGCCATG
66 CTAGAGGCTACACCATAACTATTTTCATATCATACTAAGATGCCATG
* * *
35265060 GGTCTCAACCACATGGTCTTACTCACATTCATGTATCGTGATCTACTAGTCTAGTCTTCATCTTG
1 GGTCTCAACCACATGGTCTTACTCATATTCATGTATCGTGATCTGCTAGTCTAGTCTTCATCTTA
*
35265125 CTAGAGGCTACACCATAACTATTTTCATATCATACTAAGATGCTATG
66 CTAGAGGCTACACCATAACTATTTTCATATCATACTAAGATGCCATG
**
35265172 GGTCTCAACCTTATGGTCTTAC
1 GGTCTCAACCACATGGTCTTAC
35265194 ACTTGATTTC
Statistics
Matches: 220, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
112 220 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (112 bp):
GGTCTCAACCACATGGTCTTACTCATATTCATGTATCGTGATCTGCTAGTCTAGTCTTCATCTTA
CTAGAGGCTACACCATAACTATTTTCATATCATACTAAGATGCCATG
Found at i:35269583 original size:84 final size:84
Alignment explanation
Indices: 35269473--35269636 Score: 222
Period size: 84 Copynumber: 2.0 Consensus size: 84
35269463 GAAGAGTTCG
* * * *
35269473 TGTGAACTCTTTCTTGAAGAATAGTCCATGT-AGATTCTTACTTGAAAGATCGTCCATGCGAAAT
1 TGTGAACTCTTACTTGAAAAATAGTCCAT-TCAGAATCTTACTTGAAAGATAGTCCATGCGAAAT
*
35269537 TTTACTTGAAAGATAGCCCA
65 CTTACTTGAAAGATAGCCCA
* * * * *
35269557 TGTGGACTCTTACTTGAAAAATAGTCCATTCAGAATCTTGCTTGAAAGATAGTTCATGCGGACTC
1 TGTGAACTCTTACTTGAAAAATAGTCCATTCAGAATCTTACTTGAAAGATAGTCCATGCGAAATC
35269622 TTACTTGAAAGATAG
66 TTACTTGAAAGATAG
35269637 TCAATGCGGA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
83 1 0.01
84 68 0.99
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (84 bp):
TGTGAACTCTTACTTGAAAAATAGTCCATTCAGAATCTTACTTGAAAGATAGTCCATGCGAAATC
TTACTTGAAAGATAGCCCA
Found at i:35269643 original size:28 final size:28
Alignment explanation
Indices: 35269478--35269649 Score: 175
Period size: 28 Copynumber: 6.1 Consensus size: 28
35269468 GTTCGTGTGA
* **
35269478 ACTCTTTCTTG-AAGAATAGTCCATGTAG
1 ACTCTTACTTGAAAG-ATAGTCCATGCGG
* * *
35269506 ATTCTTACTTGAAAGATCGTCCATGCGA
1 ACTCTTACTTGAAAGATAGTCCATGCGG
* * * *
35269534 AATTTTACTTGAAAGATAGCCCATGTGG
1 ACTCTTACTTGAAAGATAGTCCATGCGG
* * *
35269562 ACTCTTACTTGAAAAATAGTCCATTCAG
1 ACTCTTACTTGAAAGATAGTCCATGCGG
* * *
35269590 AATCTTGCTTGAAAGATAGTTCATGCGG
1 ACTCTTACTTGAAAGATAGTCCATGCGG
*
35269618 ACTCTTACTTGAAAGATAGTCAATGCGG
1 ACTCTTACTTGAAAGATAGTCCATGCGG
35269646 ACTC
1 ACTC
35269650 AAAAGTCAAT
Statistics
Matches: 114, Mismatches: 29, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
28 111 0.97
29 3 0.03
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (28 bp):
ACTCTTACTTGAAAGATAGTCCATGCGG
Found at i:35271053 original size:54 final size:54
Alignment explanation
Indices: 35270932--35271053 Score: 138
Period size: 54 Copynumber: 2.3 Consensus size: 54
35270922 TTGACGGACC
* * * * *
35270932 TCCCCCATTAGATAGTTCTTGCAGACTTCCCATATAAGATAGTCCTTGTGAACT
1 TCCCACATTAGATAGTCCCTGCAGACTTACCACATAAGATAGTCCTTGTGAACT
* * * *
35270986 TCCCAC-TTAAGATAGTCCCTGCGGACTTACCGCATAGGATAGTCCTTGTGGACT
1 TCCCACATT-AGATAGTCCCTGCAGACTTACCACATAAGATAGTCCTTGTGAACT
*
35271040 TCTCACATTAGATA
1 TCCCACATTAGATA
35271054 TTCCTTGTGT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
53 2 0.04
54 52 0.93
55 2 0.04
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (54 bp):
TCCCACATTAGATAGTCCCTGCAGACTTACCACATAAGATAGTCCTTGTGAACT
Found at i:35271061 original size:27 final size:27
Alignment explanation
Indices: 35270914--35271067 Score: 116
Period size: 27 Copynumber: 5.7 Consensus size: 27
35270904 TTTCTACTAA
* * *
35270914 AGATAG-CCTTGACGGACCTCCCCCATT
1 AGATAGTCCTTG-TGGACTTCCCACATT
* ** * *
35270941 AGATAGTTCTTGCAGACTTCCCATATA
1 AGATAGTCCTTGTGGACTTCCCACATT
*
35270968 AGATAGTCCTTGTGAACTTCCCAC-TT
1 AGATAGTCCTTGTGGACTTCCCACATT
* * * *
35270994 AAGATAGTCCCTGCGGACTTACCGCA-T
1 -AGATAGTCCTTGTGGACTTCCCACATT
*
35271021 AGGATAGTCCTTGTGGACTTCTCACATT
1 A-GATAGTCCTTGTGGACTTCCCACATT
* *
35271049 AGATATTCCTTGTGTACTT
1 AGATAGTCCTTGTGGACTT
35271068 TCTGCAAAAG
Statistics
Matches: 98, Mismatches: 24, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
26 2 0.02
27 90 0.92
28 6 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
AGATAGTCCTTGTGGACTTCCCACATT
Found at i:35271081 original size:54 final size:54
Alignment explanation
Indices: 35270967--35271087 Score: 136
Period size: 54 Copynumber: 2.2 Consensus size: 54
35270957 CTTCCCATAT
*
35270967 AAGATAGTCCTTGTGAACTTCCCACTTAAGATAGTCCCTGCGGACTTACCGCAT
1 AAGATAGTCCTTGTGAACTTCCCACTTAAGATAGTCCCTGCGGACTTACCGCAA
* * * * * * * * *
35271021 AGGATAGTCCTTGTGGACTTCTCACATT-AGATATTCCTTGTGTACTTTCTGCAA
1 AAGATAGTCCTTGTGAACTTCCCAC-TTAAGATAGTCCCTGCGGACTTACCGCAA
35271075 AAGATAGTCCTTG
1 AAGATAGTCCTTG
35271088 CAGACTTACC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 53 0.96
55 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (54 bp):
AAGATAGTCCTTGTGAACTTCCCACTTAAGATAGTCCCTGCGGACTTACCGCAA
Found at i:35296295 original size:45 final size:46
Alignment explanation
Indices: 35296246--35296335 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
35296236 ATAAAAGAGT
*
35296246 AATTAATTAATTAAGTTAGAAA-TAAATAAAAGAATAAAA-ATAAAG
1 AATTAATTAATAAAGTTAGAAATTAAATAAAA-AATAAAATATAAAG
*
35296291 AATTAATTAATAAAGTTAGAAATTAAATAAAATATAAAATATAAA
1 AATTAATTAATAAAGTTAGAAATTAAATAAAAAATAAAATATAAA
35296336 CCAAATTGCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
45 27 0.66
46 14 0.34
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (46 bp):
AATTAATTAATAAAGTTAGAAATTAAATAAAAAATAAAATATAAAG
Found at i:35297869 original size:38 final size:38
Alignment explanation
Indices: 35297818--35297894 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
35297808 TGGGCTTCTA
*
35297818 TTCTCCTTGTTTGAACGGTTTTGTGACCCATTTAATAG
1 TTCTCCTTGTTTGAACGATTTTGTGACCCATTTAATAG
*
35297856 TTCTCTTTGTTTGAACGATTTTGTGACCCATTTAATAG
1 TTCTCCTTGTTTGAACGATTTTGTGACCCATTTAATAG
35297894 T
1 T
35297895 CAGACTTGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (38 bp):
TTCTCCTTGTTTGAACGATTTTGTGACCCATTTAATAG
Found at i:35299573 original size:41 final size:40
Alignment explanation
Indices: 35299528--35299629 Score: 141
Period size: 41 Copynumber: 2.5 Consensus size: 40
35299518 TGATTCAGTA
35299528 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* * *
35299569 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
35299610 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
35299630 AGCGCTAAGC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 51 0.93
42 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.27
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:35299644 original size:41 final size:41
Alignment explanation
Indices: 35299528--35299644 Score: 112
Period size: 41 Copynumber: 2.9 Consensus size: 41
35299518 TGATTCAGTA
* * * * *
35299528 CACCGGCACTTAGCCTGCTAGACA-TATAGTCTGAAATATTT
1 CACCGGCAATAAGCCTGCTAGACACTA-AGCCTGAAGTGTTT
* * * *
35299569 CACCGGCATTAAGCCTGCTAGACATTTAGTCTGAAGTGTTT
1 CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
*
35299610 CACCGGCAATAAGCCTGCTA-AGCGCTAAGCCTGAA
1 CACCGGCAATAAGCCTGCTAGA-CACTAAGCCTGAA
35299645 AATCTCAATT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 62 0.97
42 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CACCGGCAATAAGCCTGCTAGACACTAAGCCTGAAGTGTTT
Found at i:35307285 original size:42 final size:42
Alignment explanation
Indices: 35307249--35307330 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
35307239 GGACATAGGT
* *
35307249 GTGTACCTAGGCCGTGTGAGCCACACGGGTAAGGACATGGAC
1 GTGTACCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGAC
* * * *
35307291 GTGTGCCCAGGTCGTGTGAGCCAGACGGGCAAGGAAATGG
1 GTGTACCCAGGCCGTGTGAGCCACACGGGCAAGGACATGG
35307331 GCTTGTGTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.23, C:0.22, G:0.39, T:0.16
Consensus pattern (42 bp):
GTGTACCCAGGCCGTGTGAGCCACACGGGCAAGGACATGGAC
Found at i:35312024 original size:29 final size:29
Alignment explanation
Indices: 35311992--35312048 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
35311982 AAAAAGTCCT
*
35311992 TTTTTTCAA-AATATACTGAAATGGGCCAC
1 TTTTTT-AATAATATACCGAAATGGGCCAC
* *
35312021 TTTTTTAATTATTTACCGAAATGGGCCA
1 TTTTTTAATAATATACCGAAATGGGCCA
35312049 ATTCCGCGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATATACCGAAATGGGCCAC
Found at i:35312342 original size:22 final size:22
Alignment explanation
Indices: 35312317--35312367 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
35312307 ACAAACAAAT
35312317 ATTCTCTCAATTTCCTTCCATA
1 ATTCTCTCAATTTCCTTCCATA
35312339 ATTCTCTCAATTTCCTTCCATA
1 ATTCTCTCAATTTCCTTCCATA
35312361 ATTCTCT
1 ATTCTCT
35312368 TAAACTCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTCTCTCAATTTCCTTCCATA
Found at i:35312411 original size:21 final size:22
Alignment explanation
Indices: 35312372--35312424 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
35312362 TTCTCTTAAA
35312372 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
35312394 CTCTCAATTTCCTTCAAAAAAT-
1 CTCTCAAATTCCTTC-CAAAATC
35312416 CTCTCAAAT
1 CTCTCAAAT
35312425 CCATATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 22 0.81
23 5 0.19
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:35312419 original size:52 final size:52
Alignment explanation
Indices: 35312320--35312419 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 52
35312310 AACAAATATT
* * * * * *
35312320 CTCTCAATTTCCTTCCATAATTCTCTCAATTTCCTTCCATAATTCTCTTAAA
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
35312372 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCT
35312420 CAAATCCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTCTTAAA
Found at i:35312519 original size:29 final size:29
Alignment explanation
Indices: 35312458--35312519 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
35312448 TCAATTTCAT
* *
35312458 TTTTTAAGAAAATTTTAAAAATTTTTATT
1 TTTTTAAGAAAATTTTAAAAATTTTAATA
*
35312487 TTTTTAA-AATAATTTTAATAATTTTAATA
1 TTTTTAAGAA-AATTTTAAAAATTTTAATA
35312516 TTTT
1 TTTT
35312520 CAACAATTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 2 0.07
29 27 0.93
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAAATTTTAATA
Found at i:35312639 original size:14 final size:15
Alignment explanation
Indices: 35312610--35312643 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35312600 AAATTTTAAA
35312610 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
35312625 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
35312639 TTTTA
1 TTTTA
35312644 GATAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:35314138 original size:34 final size:29
Alignment explanation
Indices: 35314088--35314261 Score: 240
Period size: 29 Copynumber: 6.0 Consensus size: 29
35314078 CTCCTTTTTA
*
35314088 CCAAACCTAATTTAATTTAATTAAAAACC
1 CCAACCCTAATTTAATTTAATTAAAAACC
35314117 CCAACCCTAATTTAATTTAATTAAAAACC
1 CCAACCCTAATTTAATTTAATTAAAAACC
35314146 CCAACCCTAATTTAATTTAATTAAAAACC
1 CCAACCCTAATTTAATTTAATTAAAAACC
* ** * *
35314175 CTAACCCTAACCTATTTTAATTTAAAACC
1 CCAACCCTAATTTAATTTAATTAAAAACC
* * *
35314204 CTAACCCTAGTTTAATTTAATTAAAAGCC
1 CCAACCCTAATTTAATTTAATTAAAAACC
* **
35314233 CTAACCCTAAACTAATTTAATTAAAAACC
1 CCAACCCTAATTTAATTTAATTAAAAACC
35314262 AATTTTAATT
Statistics
Matches: 129, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 129 1.00
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.32
Consensus pattern (29 bp):
CCAACCCTAATTTAATTTAATTAAAAACC
Found at i:35317683 original size:125 final size:126
Alignment explanation
Indices: 35317459--35317734 Score: 407
Period size: 125 Copynumber: 2.2 Consensus size: 126
35317449 CCACGAGGGT
* * * *
35317459 GCGATTTGACACTATTTGGTCAG-AAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAG
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAC
* **
35317523 CGAAATCGCGTCCACGAAGGCGCGATTTCACAATTTCTTCTCAT-ATAGCATCCTGGTATCA
66 CGAAATCGCGTCCACGAAGGCACGATTTCACAATTTCTTCTC-TGATAGCATCCTGGTAGAA
* *
35317584 GTGATTTTATACTATTTGCTCAGAAAACGTCAAAAAA-AATTATTTCTTACATGACCAACTGTAC
1 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAC
* *
35317648 CGAAATCGCGTCCACGAGGGCACGATTTCATAATTTCTTCTCTGATAGCATCCTGGTAGAA
66 CGAAATCGCGTCCACGAAGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
35317709 GCGATTTTATACTATTTGAC-CAGAAA
1 GCGATTTTATACTATTTG-CTCAGAAA
35317735 TGTCAACTCA
Statistics
Matches: 136, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
124 1 0.01
125 121 0.89
126 14 0.10
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (126 bp):
GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAATAATTATTTCCTACATGACCAACTGTAC
CGAAATCGCGTCCACGAAGGCACGATTTCACAATTTCTTCTCTGATAGCATCCTGGTAGAA
Found at i:35318477 original size:20 final size:20
Alignment explanation
Indices: 35318442--35318479 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35318432 GTTGACAAAA
**
35318442 CAGTCACTCAGGTTTCAATT
1 CAGTCACTCAACTTTCAATT
35318462 CAGTCACTCAACTTTCAA
1 CAGTCACTCAACTTTCAA
35318480 AAAATAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.32
Consensus pattern (20 bp):
CAGTCACTCAACTTTCAATT
Found at i:35318547 original size:30 final size:30
Alignment explanation
Indices: 35318507--35318573 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
35318497 ACCACTAACA
* *
35318507 ATTTTTCGTTACAGACGTAACGGAGCTACC
1 ATTTTCCGTTACAAACGTAACGGAGCTACC
* *
35318537 ATTTTCCGTTACAAACTTAACGGAGCTGCC
1 ATTTTCCGTTACAAACGTAACGGAGCTACC
35318567 ATTTTCC
1 ATTTTCC
35318574 ATCCCCCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (30 bp):
ATTTTCCGTTACAAACGTAACGGAGCTACC
Found at i:35319846 original size:30 final size:30
Alignment explanation
Indices: 35319811--35319878 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
35319801 AGGGGGATGG
* *
35319811 AAAATGGTAGCTCTGTTAAGTCTGTAACAA
1 AAAATGGTAGATCCGTTAAGTCTGTAACAA
* **
35319841 AAAATGGTAGATCCGTTACGTCTGTAACGG
1 AAAATGGTAGATCCGTTAAGTCTGTAACAA
35319871 AAAATGGT
1 AAAATGGT
35319879 TAGTGGTGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (30 bp):
AAAATGGTAGATCCGTTAAGTCTGTAACAA
Found at i:35324644 original size:31 final size:31
Alignment explanation
Indices: 35324609--35324669 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
35324599 AATGAAAAAA
35324609 CACCTCTGACTGATTTTTCATAAAATATATT
1 CACCTCTGACTGATTTTTCATAAAATATATT
35324640 CACCTCTGACTGATTTTTCATAAAATATAT
1 CACCTCTGACTGATTTTTCATAAAATATAT
35324670 CCATGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.41
Consensus pattern (31 bp):
CACCTCTGACTGATTTTTCATAAAATATATT
Found at i:35325495 original size:24 final size:24
Alignment explanation
Indices: 35325467--35325526 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
35325457 AGTGTTGAAC
35325467 AGTACCCTAACAATACTCGTAAAT
1 AGTACCCTAACAATACTCGTAAAT
* * *
35325491 GGTA-CCTAAACAATGCTCGTGAAT
1 AGTACCCT-AACAATACTCGTAAAT
*
35325515 AGTACCCAAACA
1 AGTACCCTAACA
35325527 GTGTGAAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
23 3 0.10
24 24 0.83
25 2 0.07
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (24 bp):
AGTACCCTAACAATACTCGTAAAT
Found at i:35341643 original size:51 final size:51
Alignment explanation
Indices: 35341585--35341803 Score: 318
Period size: 51 Copynumber: 4.3 Consensus size: 51
35341575 ACTTCTGATC
* *
35341585 AGTGACAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
35341636 AGTGACAAGTGATAAGTGATAGCTTTAGATACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
**
35341687 AGTGACAAGTGACGAGTGGTAGCTTTAGCTACACTTATC-GTATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTG-ATCAGTGACA
* *
35341738 AGTGACAAGTGATGAGTGGTAGCTTTAGCTACCCTTA-CTTGATCAAG-GACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC-TGATC-AGTGACA
35341789 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
35341804 ATGTGATTCG
Statistics
Matches: 153, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
50 2 0.01
51 148 0.97
52 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:35343058 original size:556 final size:556
Alignment explanation
Indices: 35342006--35343679 Score: 3195
Period size: 556 Copynumber: 3.0 Consensus size: 556
35341996 AATTTATACC
*
35342006 AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTACAAACTTGAGA
1 AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
*
35342071 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATAAGTATT
66 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
*
35342136 AGTATTGAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
131 AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
35342201 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTAGATCCTATTTA
196 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTAGATCCTATTTA
* *
35342266 TTATGAATATAATATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAC
261 TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
35342331 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
326 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
35342396 GCCTCGTACCCTATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
391 GCCTCGTACCCTATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
*
35342461 TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGTGCCTCAACATGTCCTCTAG
456 TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
35342526 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
521 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
35342562 AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
1 AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
35342627 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
66 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
35342692 AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
131 AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
*
35342757 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTACATCCTATTTA
196 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTAGATCCTATTTA
35342822 TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
261 TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
35342887 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
326 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
*
35342952 GCCTCGTACCATATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
391 GCCTCGTACCCTATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
35343017 TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
456 TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
35343082 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
521 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
*
35343118 AGGATGATGAGTTGAGTTGATGTTGTTCTTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
1 AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
35343183 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
66 ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
35343248 AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
131 AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
*
35343313 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATTGGGTCTCGTAGATCCTATTTA
196 AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTAGATCCTATTTA
35343378 TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
261 TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
* *
35343443 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTATATTTGTTCTAGTAAT
326 TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
* **
35343508 GCCTCGTACCCTATTCTAGTGTCGAATACGGGTAAGAAGTGTTACAGGTCAAATCTGGCCTAACC
391 GCCTCGTACCCTATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
* *
35343573 TCGATCTCTTTAACAGAGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
456 TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
35343638 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
521 TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
35343674 AGGATG
1 AGGATG
35343680 GAATGCAGTA
Statistics
Matches: 1099, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
556 1099 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.35
Consensus pattern (556 bp):
AGGATGATGAGTTGAGTTGATGTTGTTATTTAAGCTAAAGTGATATTTTCATTGCAAACTTGAGA
ATTTCATAAATGTGTTAATGAAAGGTATAATCAATAAACGTTGAGTTAAATGATAAATACGTATT
AGTATTAAACTTAATGATTTGAATTGTGAACATGAGAAATTTGTGAATTGAATGAAATGGAAATG
AAGCATTGAATTATTAAGACTTGTGAATTGCATGAATATGTATCGGGTCTCGTAGATCCTATTTA
TTATGAATATAACATTTTGAGGATATATTATGAAGAATTATAAAATCATGTTAATAATTTGAAAG
TTTTAATTTAGATGAAGTTTTATAACTCGATTAAATACGTTTACAAGTGTATGTGTTCTAGTAAT
GCCTCGTACCCTATTCTGGTGTCGAATACGGGTAAGGGGTGTTACAGGTCAAATCTGGCCTAACC
TCGATCTCTTCAACAGGGACAATATGAGTAGGATCAGAGCGGTAGCGCCTCAACATGTCCTCTAG
TATCTGAATCACCCTTTCAGACTGACCATCGGTCTG
Found at i:35349763 original size:40 final size:40
Alignment explanation
Indices: 35349716--35349807 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
35349706 CTTAGTCTCA
*
35349716 CACACTAAGTGTCAT-ATATAGCCGAAGCTAT-TCCCAATCG
1 CACACTAAGTGCCATCA-ATAGCCGAAGCTATCT-CCAATCG
* *
35349756 CACACTAAGTGCCATCAATAGCCGAAGCTATCTCGAATTG
1 CACACTAAGTGCCATCAATAGCCGAAGCTATCTCCAATCG
35349796 CACACTAAGTGC
1 CACACTAAGTGC
35349808 TAAACATAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (40 bp):
CACACTAAGTGCCATCAATAGCCGAAGCTATCTCCAATCG
Found at i:35352304 original size:29 final size:29
Alignment explanation
Indices: 35352255--35352320 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
35352245 TCTAAATTAA
*
35352255 CTCTGAATTTCTCAGTTCACATATTCGAC
1 CTCTGAATTTCTCAGTACACATATTCGAC
* **
35352284 CTTTGAATTTCTTGGTACACATATTCGAC
1 CTCTGAATTTCTCAGTACACATATTCGAC
35352313 CTCTGAAT
1 CTCTGAAT
35352321 CTTAAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.39
Consensus pattern (29 bp):
CTCTGAATTTCTCAGTACACATATTCGAC
Found at i:35357149 original size:40 final size:40
Alignment explanation
Indices: 35357094--35357183 Score: 128
Period size: 40 Copynumber: 2.2 Consensus size: 40
35357084 CTCAGTATCA
* *
35357094 CACACTAAGAACCATATATAGCCGAAGCTAT-TCCCAATCG
1 CACACTAAGTACCATAAATAGCCGAAGCTATCT-CCAATCG
* *
35357134 CACACTAAGTGCCATAAATAGCCGAAGCTATCTCGAATCG
1 CACACTAAGTACCATAAATAGCCGAAGCTATCTCCAATCG
35357174 CACACTAAGT
1 CACACTAAGT
35357184 TCTAAACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.29, G:0.14, T:0.20
Consensus pattern (40 bp):
CACACTAAGTACCATAAATAGCCGAAGCTATCTCCAATCG
Found at i:35359128 original size:20 final size:20
Alignment explanation
Indices: 35359103--35359210 Score: 85
Period size: 20 Copynumber: 5.4 Consensus size: 20
35359093 TTACACATTT
35359103 GTGCCTCTGTTTGCACTTCG
1 GTGCCTCTGTTTGCACTTCG
* * *
35359123 GTGCCTCTGTATACACTTCA
1 GTGCCTCTGTTTGCACTTCG
* * *
35359143 GTGTCTCTATTTTCACTTCCG
1 GTGCCTCTGTTTGCACTT-CG
** *
35359164 G-GCCTCTAATTGCACATT-T
1 GTGCCTCTGTTTGCAC-TTCG
* *
35359183 GTGCCTCTGGTTGCACTACG
1 GTGCCTCTGTTTGCACTTCG
35359203 GTGCCTCT
1 GTGCCTCT
35359211 ATATAGCATT
Statistics
Matches: 68, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
19 2 0.03
20 62 0.91
21 4 0.06
ACGTcount: A:0.12, C:0.30, G:0.20, T:0.38
Consensus pattern (20 bp):
GTGCCTCTGTTTGCACTTCG
Found at i:35359138 original size:40 final size:39
Alignment explanation
Indices: 35359094--35359215 Score: 113
Period size: 40 Copynumber: 3.1 Consensus size: 39
35359084 TGTACGGGAT
35359094 TACACATTTGTGCCTCTGTTTGCACTTCGGTGCCTCTGTA
1 TACACATTTGTGCCTCTGTTTGCACTTCGGTGCCTCT-TA
* * * * *
35359134 TACAC-TTCAGTGTCTCTATTTTCACTTCCGG-GCCTCTAA
1 TACACATT-TGTGCCTCTGTTTGCACTT-CGGTGCCTCTTA
* * *
35359173 TTGCACATTTGTGCCTCTGGTTGCACTACGGTGCCTCTATA
1 -TACACATTTGTGCCTCTGTTTGCACTTCGGTGCCTCT-TA
35359214 TA
1 TA
35359216 GCATTTCGAT
Statistics
Matches: 62, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
39 6 0.10
40 50 0.81
41 6 0.10
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.39
Consensus pattern (39 bp):
TACACATTTGTGCCTCTGTTTGCACTTCGGTGCCTCTTA
Found at i:35362296 original size:24 final size:24
Alignment explanation
Indices: 35362269--35362356 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 24
35362259 GCATATACAC
35362269 ATAACATTCATATGCATTTCATGA
1 ATAACATTCATATGCATTTCATGA
* * *
35362293 ATAATATCTCATA-ACA-TTCATATACA
1 ATAACAT-TCATATGCATTTC--AT-GA
35362319 CATAACATTCATATGCATTTCATGA
1 -ATAACATTCATATGCATTTCATGA
* *
35362344 ATAATATCCATAT
1 ATAACATTCATAT
35362357 ATTGTTTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
23 3 0.06
24 19 0.39
25 8 0.16
26 8 0.16
27 8 0.16
28 3 0.06
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (24 bp):
ATAACATTCATATGCATTTCATGA
Found at i:35362318 original size:51 final size:50
Alignment explanation
Indices: 35362260--35362355 Score: 183
Period size: 51 Copynumber: 1.9 Consensus size: 50
35362250 ATAAAGATAG
35362260 CATATACACATAACATTCATATGCATTTCATGAATAATATCTCATAACATT
1 CATATACACATAACATTCATATGCATTTCATGAATAATATC-CATAACATT
35362311 CATATACACATAACATTCATATGCATTTCATGAATAATATCCATA
1 CATATACACATAACATTCATATGCATTTCATGAATAATATCCATA
35362356 TATTGTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 4 0.09
51 41 0.91
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.34
Consensus pattern (50 bp):
CATATACACATAACATTCATATGCATTTCATGAATAATATCCATAACATT
Found at i:35362642 original size:29 final size:29
Alignment explanation
Indices: 35362617--35362691 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
35362607 AGTCACTCGT
*
35362617 ACATAGTACCTAATAATATGAACACTGAC
1 ACATAGTACCTAATAATATAAACACTGAC
* * *
35362646 ACATAGTGCCTGATAATATAAACACTGGC
1 ACATAGTACCTAATAATATAAACACTGAC
* * *
35362675 ACGTAGTGCCTACTAAT
1 ACATAGTACCTAATAAT
35362692 TCCTAATGAC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATAGTACCTAATAATATAAACACTGAC
Found at i:35368529 original size:16 final size:17
Alignment explanation
Indices: 35368493--35368529 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
35368483 GTTATATTTA
*
35368493 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
35368510 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
35368526 ATTT
1 ATTT
35368530 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:35368684 original size:47 final size:47
Alignment explanation
Indices: 35368615--35368710 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
35368605 TTTGGTCTTC
35368615 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
35368662 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
1 AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
35368709 AA
1 AA
35368711 CACTACAAAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (47 bp):
AAACAATGTTTTATATTACTTATATTGTTTGATTAAAAATTATAATT
Found at i:35373686 original size:16 final size:16
Alignment explanation
Indices: 35373662--35373713 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
35373652 TGAATTACTG
*
35373662 ATTACAGCTTTATTCC
1 ATTACAGCTCTATTCC
* *
35373678 ATTAGAGCTCTATTCA
1 ATTACAGCTCTATTCC
35373694 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
35373710 ATTA
1 ATTA
35373714 AAGTGAACCA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:35381068 original size:14 final size:14
Alignment explanation
Indices: 35381045--35381084 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35381035 ACAGAAAAGT
*
35381045 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
35381059 AAATCATTTTACGG
1 AAAACATTTTACAG
35381073 AAAACATTTTAC
1 AAAACATTTTAC
35381085 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:35385550 original size:19 final size:20
Alignment explanation
Indices: 35385500--35385551 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
35385490 ATTTTTATTT
* *
35385500 ATTTTTTAATTTATATATAT
1 ATTTTATAATTTATATATAA
*
35385520 ATATTTA-GATTT-TATATAA
1 AT-TTTATAATTTATATATAA
35385539 ATTTTATAATTTA
1 ATTTTATAATTTA
35385552 ATTTTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
18 4 0.16
19 12 0.48
20 6 0.24
21 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTTATAATTTATATATAA
Found at i:35392177 original size:96 final size:96
Alignment explanation
Indices: 35392072--35392364 Score: 568
Period size: 96 Copynumber: 3.1 Consensus size: 96
35392062 TTATTTATAA
**
35392072 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTCCTTAAAAATTTAATCTATCTCCATTAT
1 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
35392137 TAAAAACTACTGTAAAAGATAAAATAATCAG
66 TAAAAACTACTGTAAAAGATAAAATAATCAG
35392168 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
1 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
35392233 TAAAAACTACTGTAAAAGATAAAATAATCAG
66 TAAAAACTACTGTAAAAGATAAAATAATCAG
35392264 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
1 ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
35392329 TAAAAACTACTGTAAAAGATAAAATAATCAG
66 TAAAAACTACTGTAAAAGATAAAATAATCAG
35392360 ATAAT
1 ATAAT
35392365 TACGTATAAT
Statistics
Matches: 195, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 195 1.00
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.35
Consensus pattern (96 bp):
ATAATAAAATTAAATTAAAAAATAAAATAATATTTTTTGTTAAAAATTTAATCTATCTCCATTAT
TAAAAACTACTGTAAAAGATAAAATAATCAG
Found at i:35399920 original size:40 final size:39
Alignment explanation
Indices: 35399889--35400098 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
35399879 GGACTAAGAT
* *
35399889 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
35399929 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
35399969 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
35400009 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
35400049 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
35400088 CCGAAGGCATT
1 CCGAAGGCATT
35400099 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:35400052 original size:120 final size:120
Alignment explanation
Indices: 35399836--35400098 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
35399826 TTGAATGCTG
* *
35399836 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
35399900 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
35399956 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
35400019 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
35400075 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35400099 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:35400118 original size:79 final size:80
Alignment explanation
Indices: 35399837--35400133 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
35399827 TGAATGCTGT
* ** * * * **
35399837 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
35399900 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
35399917 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
35399981 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
35399997 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
35400061 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
35400076 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
35400134 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:35407870 original size:40 final size:39
Alignment explanation
Indices: 35407839--35408048 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
35407829 GGACTAAGAT
* *
35407839 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
35407879 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
35407919 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
35407959 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
35407999 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
35408038 CCGAAGGCATT
1 CCGAAGGCATT
35408049 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:35408002 original size:120 final size:120
Alignment explanation
Indices: 35407786--35408048 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
35407776 TTGAATGCTG
* *
35407786 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
35407850 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
35407906 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
35407969 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
35408025 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35408049 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:35408068 original size:79 final size:80
Alignment explanation
Indices: 35407787--35408083 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
35407777 TGAATGCTGT
* ** * * * **
35407787 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
35407850 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
35407867 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
35407931 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
35407947 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
35408011 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
35408026 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
35408084 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:35427185 original size:258 final size:259
Alignment explanation
Indices: 35426727--35427327 Score: 974
Period size: 259 Copynumber: 2.3 Consensus size: 259
35426717 GGTGCTTCCA
* *
35426727 ACCATAACGAGTTTTAGATAGAATTATCATATTTTATTGCTCATAAGTAGATCTTTCACAGTTAA
1 ACCATAACGAGTTTTAGATAGAATTATCATATTTTATTACTCATAAGTAGATCTTTCACAGTCAA
*
35426792 ATATTTTGCTTTCAACCCCTTAATAGGGATGATGATAAAAGATCACAAAGATAGTGACAATCAAT
66 ATATTTTGCTTTCAACCCCTTAATAGGGATGATGAAAAAAGATCACAAAGATAGTGACAATCAAT
*
35426857 TTAATTTAATAACAAGAGTAATCAATAACTCAATCCTCCCTTTTTTTTCCTCCTTTCAAAATAAA
131 TTAATTTAATAACAAGAGTAATCAATAACTCAATCCTCCCTTTTTTTTCATCCTTTCAAAATAAA
* *
35426922 TATTTATAACAATAGTGATTCATATGAAGT-TAATCTTTTCTTCATTCACAATGTCAATATGAT
196 TATTTATAACAATAGTGATTCATATGAAATATAATCTTTTATTCATTCACAATGTCAATATGAT
* *
35426985 ACCATAACAAGTTTTAGATAGAATTATCATATGTTATTACTCATAAGTAGATCTTTCACAGTCAA
1 ACCATAACGAGTTTTAGATAGAATTATCATATTTTATTACTCATAAGTAGATCTTTCACAGTCAA
* *
35427050 ATATTTTGCTTTCAGCCCCTTAATAGGGATGATGAAAAAAAGATTACAAAGATAG-GCACAATCA
66 ATATTTTGCTTTCAACCCCTTAATAGGGATGATG-AAAAAAGATCACAAAGATAGTG-ACAATCA
*
35427114 ATTTAATTTAATAACAAGAGTAATCAATAACTCAAT-CTTCCTTTTTTTTCATCCTTTCAAAATA
129 ATTTAATTTAATAACAAGAGTAATCAATAACTCAATCCTCCCTTTTTTTTCATCCTTTCAAAATA
* * * * * *
35427178 GATATTTATATCAATAGTGATTCTTATGAAATATAATTTTTTATTCGTTCACAATGTTAATATGA
194 AATATTTATAACAATAGTGATTCATATGAAATATAATCTTTTATTCATTCACAATGTCAATATGA
35427243 T
259 T
* * * *
35427244 ACCATAATGAGTTTTCGATAGAATTATCATATTTTATTTCTCATAAGTAGATCTTTCATAGTCAA
1 ACCATAACGAGTTTTAGATAGAATTATCATATTTTATTACTCATAAGTAGATCTTTCACAGTCAA
35427309 ATATTTTGCTTTCAACCCC
66 ATATTTTGCTTTCAACCCC
35427328 GTTGTAACAA
Statistics
Matches: 316, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
258 149 0.47
259 167 0.53
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.38
Consensus pattern (259 bp):
ACCATAACGAGTTTTAGATAGAATTATCATATTTTATTACTCATAAGTAGATCTTTCACAGTCAA
ATATTTTGCTTTCAACCCCTTAATAGGGATGATGAAAAAAGATCACAAAGATAGTGACAATCAAT
TTAATTTAATAACAAGAGTAATCAATAACTCAATCCTCCCTTTTTTTTCATCCTTTCAAAATAAA
TATTTATAACAATAGTGATTCATATGAAATATAATCTTTTATTCATTCACAATGTCAATATGAT
Found at i:35428602 original size:115 final size:115
Alignment explanation
Indices: 35428400--35428633 Score: 441
Period size: 115 Copynumber: 2.0 Consensus size: 115
35428390 TGATTGTATT
35428400 ATTTCCATGTATATGAAATTAATCACATATCCGACGATGACCGACAAGTATTAAGTCTCGTTTGA
1 ATTTCCATGTATATGAAATTAATCACATATCCGACGATGACCGACAAGTATTAAGTCTCGTTTGA
35428465 ATAAATAAAATTCGATAGATACAGGGTTCTCAAATTGGTTGTGGTTCTGC
66 ATAAATAAAATTCGATAGATACAGGGTTCTCAAATTGGTTGTGGTTCTGC
* *
35428515 ATTTCCATGTATATGAAATTAATCACATATCCGACGATGACTGACAAGTATTAAGTCTTGTTTGA
1 ATTTCCATGTATATGAAATTAATCACATATCCGACGATGACCGACAAGTATTAAGTCTCGTTTGA
*
35428580 ATAAATAAAATTCGATAGATACAGGGTTCTCGAATTGGTTGTGGTTCTGC
66 ATAAATAAAATTCGATAGATACAGGGTTCTCAAATTGGTTGTGGTTCTGC
35428630 ATTT
1 ATTT
35428634 GTTGTGGACA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 116 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (115 bp):
ATTTCCATGTATATGAAATTAATCACATATCCGACGATGACCGACAAGTATTAAGTCTCGTTTGA
ATAAATAAAATTCGATAGATACAGGGTTCTCAAATTGGTTGTGGTTCTGC
Found at i:35428952 original size:24 final size:24
Alignment explanation
Indices: 35428890--35428991 Score: 71
Period size: 25 Copynumber: 4.2 Consensus size: 24
35428880 TCTGCAAAGA
* * * *
35428890 TTCCCGGTATTGGCTCGTTTGAACC
1 TTCCCGTTAATGGCTCGTAT-AAGC
* * *
35428915 TTCCCATTATTGGCTCGTATTAGC
1 TTCCCGTTAATGGCTCGTATAAGC
*
35428939 TTCCCGTTAATGGCTC-TCTAAAGC
1 TTCCCGTTAATGGCTCGTAT-AAGC
* * *
35428963 TTCTCGTTACATGGCTCGCATGAGC
1 TTCCCGTTA-ATGGCTCGTATAAGC
35428988 TTCC
1 TTCC
35428992 TGTTTTTATC
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.03
24 27 0.45
25 30 0.50
26 1 0.02
ACGTcount: A:0.16, C:0.28, G:0.20, T:0.36
Consensus pattern (24 bp):
TTCCCGTTAATGGCTCGTATAAGC
Found at i:35428988 original size:25 final size:24
Alignment explanation
Indices: 35428914--35428991 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
35428904 TCGTTTGAAC
* * * *
35428914 CTTCCCATTATTGGCTCGTATTAG
1 CTTCCCGTTAATGGCTCGCATAAG
*
35428938 CTTCCCGTTAATGGCTCTC-TAAAG
1 CTTCCCGTTAATGGCTCGCAT-AAG
* *
35428962 CTTCTCGTTACATGGCTCGCATGAG
1 CTTCCCGTTA-ATGGCTCGCATAAG
35428987 CTTCC
1 CTTCC
35428992 TGTTTTTATC
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
23 1 0.02
24 26 0.62
25 14 0.33
26 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (24 bp):
CTTCCCGTTAATGGCTCGCATAAG
Found at i:35432744 original size:25 final size:25
Alignment explanation
Indices: 35432686--35432747 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
35432676 ATCGTCCTCT
*
35432686 TTTTTGTTCTTTTTCTTTTTTTCTC
1 TTTTTGTTCTTTTTCTTTTCTTCTC
*
35432711 CTTTT-TTCTGTTTTCTTTTCTTC-C
1 TTTTTGTTCT-TTTTCTTTTCTTCTC
35432735 TTTTTGTTCTTTT
1 TTTTTGTTCTTTT
35432748 GTGTGCTGCG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (25 bp):
TTTTTGTTCTTTTTCTTTTCTTCTC
Found at i:35433464 original size:100 final size:100
Alignment explanation
Indices: 35433291--35433685 Score: 515
Period size: 100 Copynumber: 4.0 Consensus size: 100
35433281 GATTCGTAGC
* * *
35433291 TTGTAGCTTCAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATACACCG-TCGTGGCTTTAATC
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGAT-GTGGCTTTAATC
* * ** *
35433355 TGTTCCGCTGCATCGCTTGGGGAGTAAGATTCGTTG
65 TGCTCCACTGCATCGCCAGGGGAGTAAGATTCGCTG
*
35433391 TTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
* * * *
35433456 GTTCCGCTGCATTGCCTA-GGGAGTAAGATTCACTG
66 GCTCCACTGCATCGCC-AGGGGAGTAAGATTCGCTG
* * * *
35433491 TTGTAGCTTTAATCTTTTTAACTGTAATGTTGGGGAAGCGAGATTCACCGATGTGGATTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
* * * **
35433556 GCTCCATTGCATCGCCAGAGAAGTAAGATTCGCCA
66 GCTCCACTGCATCGCCAGGGGAGTAAGATTCGCTG
* * *
35433591 TTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGATTTGGCTTTAATCT
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
* *
35433656 GCTCCACTGCATTGCCAGGGGGGTAAGATT
66 GCTCCACTGCATCGCCAGGGGAGTAAGATT
35433686 TCTGGCTTTA
Statistics
Matches: 259, Mismatches: 33, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
99 1 0.00
100 257 0.99
101 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (100 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
GCTCCACTGCATCGCCAGGGGAGTAAGATTCGCTG
Found at i:35433535 original size:50 final size:50
Alignment explanation
Indices: 35433291--35433655 Score: 218
Period size: 50 Copynumber: 7.3 Consensus size: 50
35433281 GATTCGTAGC
* * * *
35433291 TTGTAGCTTCAATCTTTTTAACTGCAATGTCGAGGAAGCAAGATACACCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
* * * *** * ***
35433341 TCGTGGCTTTAATCTGTTCCGCTGC-ATCGCTTGGGG-AGTAAGATTCGTTG
1 TTGTAGCTTTAATCTTTTTAACTGCAAT-G-TTGGGGAAGCAAGATTCACCG
* *
35433391 TTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCAAGATTCACCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
* * * *** * * * * *
35433441 ATGTGGCTTTAATCTGTTCCGCTGCATTGCCTAGGG-AGTAAGATTCACTG
1 TTGTAGCTTTAATCTTTTTAACTGCAATG-TTGGGGAAGCAAGATTCACCG
* *
35433491 TTGTAGCTTTAATCTTTTTAACTGTAATGTTGGGGAAGCGAGATTCACCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
* * * ** ** * *** * * * *
35433541 ATGTGGATTTAATCTGCTCCATTGC-ATCGCCAGAGAAGTAAGATTCGCCA
1 TTGTAGCTTTAATCTTTTTAACTGCAAT-GTTGGGGAAGCAAGATTCACCG
* * *
35433591 TTGTGGCTTTAATCTTTTTAACTACAATGTCGGGGAAGCAAGATTCACCG
1 TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
*
35433641 ATT-TGGCTTTAATCT
1 -TTGTAGCTTTAATCT
35433656 GCTCCACTGC
Statistics
Matches: 223, Mismatches: 83, Indels: 18
0.69 0.26 0.06
Matches are distributed among these distances:
49 13 0.06
50 197 0.88
51 13 0.06
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (50 bp):
TTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
Found at i:35433778 original size:44 final size:44
Alignment explanation
Indices: 35433706--35433993 Score: 172
Period size: 44 Copynumber: 6.7 Consensus size: 44
35433696 ATCTGATGCG
* * * * *
35433706 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* * *
35433750 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTCA
* *
35433794 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT--TTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTT-T-ACTTCA
* * * *
35433838 ATTTGCTCCACTATAACCTCAGGGAGATAAGA----TT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
* ** * * *
35433877 GTCTATTCCACTGTAATCTCAGGGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
* * * * *
35433918 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* * *
35433962 ATCCGTTCCACTGTAATCTCAGGGAAATAAGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA
35433994 CTTGTGGCTT
Statistics
Matches: 191, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
39 30 0.16
40 1 0.01
41 31 0.16
42 4 0.02
43 4 0.02
44 119 0.62
45 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
Found at i:35434148 original size:132 final size:132
Alignment explanation
Indices: 35433998--35434576 Score: 702
Period size: 132 Copynumber: 4.4 Consensus size: 132
35433988 ATAAGACTTG
* *
35433998 TGGCTTAAATCTGTTTCCCTACTCCTGAGGAAGATAAGAGTCGCCGTCTTCGATCTGCTCCACTA
1 TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
* ** * * *
35434063 TTTATTAGGGAGATAAGATTTGCT-ATCTTCAACCTGCTCCTCTGCTACTCAGGGAGACAAGGCT
66 CTGCTTAGGGAGATAAGATCTG-TAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCT
*
35434127 TGA
130 CGA
* * * * * *
35434130 TGGCTTAAATCTGCTTCCC-ACTATCTTGGAAAGATAAGAGTT-ACCGTCGTT-GATCTACTCCA
1 TGGCTTAAATCTGTTTCCCTACT-CCTGGGGAAGATAAGA-TTCGCCGTC-TTCGATCTGCTCCA
**
35434192 CTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGG
63 CTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGG
*
35434257 CTCGG
128 CTCGA
* * * * * * *
35434262 TGGCTTAAATCTGCTTCCC-ACTATCT-TGGAATGATAATATTTGTCGTCTTTGATCTGCTCCAC
1 TGGCTTAAATCTGTTTCCCTACT-CCTGGGGAA-GATAAGATTCGCCGTCTTCGATCTGCTCCAC
* * * * * * *
35434325 TACTGCTTAAGGATATAATATTTGTAATCTTCAACCTGCTCCTCTACTGCTCAAGGAGACAAGGC
64 TACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGC
*
35434390 TCAA
129 TCGA
*
35434394 TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTA
1 TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
* *
35434459 TTGCTTTGGGAGATAAGATCTGTAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTC
66 CTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTC
*
35434524 GG
131 GA
* * *
35434526 TGGCTTAAATCTGTTTCCATACTCATGGGGAAGATGAGATTCGCCGTCTTC
1 TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTC
35434577 ATTGATCTGT
Statistics
Matches: 382, Mismatches: 56, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
131 10 0.03
132 362 0.95
133 10 0.03
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (132 bp):
TGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTA
CTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTGCTCCGCTGCTGCTCAGGGAGACAAGGCTC
GA
Found at i:35435817 original size:22 final size:20
Alignment explanation
Indices: 35435792--35435836 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
35435782 TTAGCCTCTC
*
35435792 CATTTTTACTTTTTCATTTATT
1 CATTTTTA-ATTTTCATTT-TT
35435814 CATTTTTAATTTTCATTTTT
1 CATTTTTAATTTTCATTTTT
35435834 CAT
1 CAT
35435837 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTTAATTTTCATTTTT
Found at i:35442579 original size:23 final size:22
Alignment explanation
Indices: 35442536--35442579 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
35442526 CTTTTTCTTT
*
35442536 TTTTCTCCTTTTTTATGTTTTA
1 TTTTCTCCTTTTTTATCTTTTA
35442558 TTTTCTTCCTTTTTGT-TCTTTT
1 TTTTC-TCCTTTTT-TATCTTTT
35442580 GTGTGCTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 5 0.26
23 13 0.68
24 1 0.05
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTCTCCTTTTTTATCTTTTA
Found at i:35444488 original size:21 final size:22
Alignment explanation
Indices: 35444464--35444506 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
35444454 GTAAAACGTG
35444464 AGAT-AAATGGATAAAA-TAAAA
1 AGATGAAAT-GATAAAACTAAAA
*
35444485 AGATGATATGATAAAACTAAAA
1 AGATGAAATGATAAAACTAAAA
35444507 CATGGCACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.14, T:0.21
Consensus pattern (22 bp):
AGATGAAATGATAAAACTAAAA
Found at i:35454600 original size:10 final size:10
Alignment explanation
Indices: 35454585--35454609 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35454575 GAATCTGTCG
35454585 AAAATAAATC
1 AAAATAAATC
35454595 AAAATAAATC
1 AAAATAAATC
35454605 AAAAT
1 AAAAT
35454610 TTATTATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAAATC
Found at i:35457150 original size:33 final size:33
Alignment explanation
Indices: 35457073--35457190 Score: 148
Period size: 33 Copynumber: 3.5 Consensus size: 33
35457063 ACATTGTTAG
* *
35457073 TCCAACCAAACACACCAGATGCTCACACA-AGCCAA
1 TCCAACC-AACACACCA-ATGCTCATA-AGAGCTAA
** *
35457108 TCCCTCCAACACACCAATGGTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
*
35457141 TCCAACCAACACACTAATGCTCATAAGAGCTAA
1 TCCAACCAACACACCAATGCTCATAAGAGCTAA
35457174 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
35457191 ACAAAGTGTA
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 57 0.79
34 9 0.12
35 5 0.07
ACGTcount: A:0.42, C:0.36, G:0.08, T:0.14
Consensus pattern (33 bp):
TCCAACCAACACACCAATGCTCATAAGAGCTAA
Found at i:35467347 original size:20 final size:19
Alignment explanation
Indices: 35467322--35467361 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
35467312 CTAGACTTGT
35467322 AGGGAAAGACAACACATAG
1 AGGGAAAGACAACACATAG
35467341 NAGGGAAAGACAACACATAG
1 -AGGGAAAGACAACACATAG
35467361 A
1 A
35467362 AAGAAGGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.53, C:0.15, G:0.25, T:0.05
Consensus pattern (19 bp):
AGGGAAAGACAACACATAG
Found at i:35470971 original size:15 final size:15
Alignment explanation
Indices: 35470951--35470980 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35470941 TCCACTATTA
*
35470951 TGTCTTTCGTGTTTT
1 TGTCTTTCATGTTTT
35470966 TGTCTTTCATGTTTT
1 TGTCTTTCATGTTTT
35470981 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.17, T:0.67
Consensus pattern (15 bp):
TGTCTTTCATGTTTT
Found at i:35483832 original size:16 final size:15
Alignment explanation
Indices: 35483800--35483838 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
35483790 TGATAATAAC
35483800 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
35483816 TCATTATAATGTATAT
1 TAATTATAAT-TATAT
35483832 TAATTAT
1 TAATTAT
35483839 TATAAACTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:35486156 original size:613 final size:613
Alignment explanation
Indices: 35485031--35486244 Score: 2061
Period size: 613 Copynumber: 2.0 Consensus size: 613
35485021 TAGAAATAAG
*
35485031 ATTGAATAAAATAACATTTAACTCAGAAATCATGTATACTTCCGTACAAACATGAAATAGAAAGT
1 ATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCCGTACAAACATGAAATAGAAAGT
*
35485096 AATCACTAGCATTTAGAAAAGAAATATAAAAGAAACAAGTGGAGAGTACTATTCCTAGAAAATCT
66 AATCACTAGCATTTAGAAAAGAAATATAAAAGAAACAAGTAGAGAGTACTATTCCTAGAAAATCT
35485161 CAACTTAATCTCTCAACTCCCTCTTGTGTCACACTCAAGACTCCTTGTCAAGAGCTAATATGCAT
131 CAACTTAATCTCTCAACTCCCTCTTGTGTCACACTCAAGACTCCTTGTCAAGAGCTAATATGCAT
* *
35485226 CCCTTTCACGTTGGTTCACCTGTAAGAGGCTTAAGCCACCATAGCCGAAAAGCTTCAAAATATAG
196 CCCTTTCACGTTGGTTCACCCGTAAGAGGCTTAAGCCACCATAGCCGAAAAGCTTCAAAAGATAG
* *
35485291 GTTCAATAAGATAATACCCCAAAAAGCCTCCCTTTTTTTTTCTTTTTCACATGAATATTTGTATT
261 GTTCAATAAGATAATACCCCAAAAACCCTCCATTTTTTTTTCTTTTTCACATGAATATTTGTATT
* * * * *
35485356 CTTCCAAATAGCACAAGTGTCCTTTCATCAAAATCATGCTGCTTCTGTATGTACAAGTTGGTTAT
326 CTTCCAAATAGCACAAGTGTCATTTCATCAAAATCATGCAGCCTCTATAGGTACAAGTTGGTTAT
* * * * ** *
35485421 ACCAGATTGGATAGCTCACAAATTTTTGTTCTTATCTAGACAACTGTCAAGTGCGGTGACAATTT
391 ACCAGACTGGACAGCTCACAAATTTTTGTTCTTATCCAGACAACTATCAAGTGCGACGACAATTC
* * *
35485486 TGGGCGCAATCTGGAAATACTCATGCAGTGATATCAGTACCAAAACATGATGAAATTAAGGAAAA
456 TGGGCGCAATCTAGAAATACTCATGCAGTGACATCAGTACCAAAACATGACGAAATTAAGGAAAA
35485551 ATATGTTAAGATTCACTGAGTTATAAAATGCAATTTACTAAAATGAAAATGCTAAAATATGTGCT
521 ATATGTTAAGATTCACTGAGTTATAAAATGCAATTTACTAAAATGAAAATGCTAAAATATGTGCT
35485616 AAAGATAACTAAATGGAAAGATAACTAA
586 AAAGATAACTAAATGGAAAGATAACTAA
*
35485644 ATTGAATAAAATAACATTTAACCCAGAAATCATGTATGCTTCCGTACAAACATGAAATAGAAAGT
1 ATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCCGTACAAACATGAAATAGAAAGT
*
35485709 AATCACTAGCGTTTAGAAAAGAAATATAAAAGAAACAAGTAGAGAGTACTATTCCTAGAAAATCT
66 AATCACTAGCATTTAGAAAAGAAATATAAAAGAAACAAGTAGAGAGTACTATTCCTAGAAAATCT
* ** * *
35485774 CGACTTAATCTCTCAACTCCCTCTTGTGTTGCACTCAGGACTCCTTGTCAAGAGCTAATCTGCAT
131 CAACTTAATCTCTCAACTCCCTCTTGTGTCACACTCAAGACTCCTTGTCAAGAGCTAATATGCAT
35485839 CCCTTTCACGTTGGTTCACCCGTAAGAGGCTTAAGCCACCATAGCCGAAAAGCTTCAAAAGATAG
196 CCCTTTCACGTTGGTTCACCCGTAAGAGGCTTAAGCCACCATAGCCGAAAAGCTTCAAAAGATAG
* *
35485904 GTTCAATAAGATAATACCCCAAAAACCCTCCATTTTTTTTTCTTTTTCACGTGACTATTTGTATT
261 GTTCAATAAGATAATACCCCAAAAACCCTCCATTTTTTTTTCTTTTTCACATGAATATTTGTATT
* *
35485969 CTTGCAAATAGCAC-AGTTGTCATTTCATCAGAATCATGCAGCCTCTATAGGTACAAGTTGGTTA
326 CTTCCAAATAGCACAAG-TGTCATTTCATCAAAATCATGCAGCCTCTATAGGTACAAGTTGGTTA
* * * *
35486033 TACCAGACTGGACAGCTCACACATTTTTGTTCTTATCCGGACAGCTATCAAGTGCGACGGCAATT
390 TACCAGACTGGACAGCTCACAAATTTTTGTTCTTATCCAGACAACTATCAAGTGCGACGACAATT
35486098 CTGGGCGCAATCTAGAAATACTCATGCAGTGACATCAGTACCAAAACATGACGAAATTAAGGAAA
455 CTGGGCGCAATCTAGAAATACTCATGCAGTGACATCAGTACCAAAACATGACGAAATTAAGGAAA
* * *
35486163 AATATGTTAAGATTCACTTAGTTGTAAAATGCAATTTACTAAACTGAAAATGCTAAAATATGTGC
520 AATATGTTAAGATTCACTGAGTTATAAAATGCAATTTACTAAAATGAAAATGCTAAAATATGTGC
35486228 TAAAGATAACTAAATGG
585 TAAAGATAACTAAATGG
35486245 GGACAAATTA
Statistics
Matches: 561, Mismatches: 39, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
612 2 0.00
613 559 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (613 bp):
ATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCCGTACAAACATGAAATAGAAAGT
AATCACTAGCATTTAGAAAAGAAATATAAAAGAAACAAGTAGAGAGTACTATTCCTAGAAAATCT
CAACTTAATCTCTCAACTCCCTCTTGTGTCACACTCAAGACTCCTTGTCAAGAGCTAATATGCAT
CCCTTTCACGTTGGTTCACCCGTAAGAGGCTTAAGCCACCATAGCCGAAAAGCTTCAAAAGATAG
GTTCAATAAGATAATACCCCAAAAACCCTCCATTTTTTTTTCTTTTTCACATGAATATTTGTATT
CTTCCAAATAGCACAAGTGTCATTTCATCAAAATCATGCAGCCTCTATAGGTACAAGTTGGTTAT
ACCAGACTGGACAGCTCACAAATTTTTGTTCTTATCCAGACAACTATCAAGTGCGACGACAATTC
TGGGCGCAATCTAGAAATACTCATGCAGTGACATCAGTACCAAAACATGACGAAATTAAGGAAAA
ATATGTTAAGATTCACTGAGTTATAAAATGCAATTTACTAAAATGAAAATGCTAAAATATGTGCT
AAAGATAACTAAATGGAAAGATAACTAA
Found at i:35489759 original size:45 final size:45
Alignment explanation
Indices: 35489695--35489786 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
35489685 TAATAAAACG
*
35489695 TCATCCGTCTGGAAGACCAATATTTCCTCAAAGGGTTCACAACCT
1 TCATCCATCTGGAAGACCAATATTTCCTCAAAGGGTTCACAACCT
*
35489740 TCATCCATCTGGAAGACCAATATTTCCTCGAAGGGTTCACAACCT
1 TCATCCATCTGGAAGACCAATATTTCCTCAAAGGGTTCACAACCT
35489785 TC
1 TC
35489787 TCAATAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.27
Consensus pattern (45 bp):
TCATCCATCTGGAAGACCAATATTTCCTCAAAGGGTTCACAACCT
Found at i:35494628 original size:13 final size:13
Alignment explanation
Indices: 35494610--35494639 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
35494600 TGGGTTATTA
35494610 GCATTTTGATGTT
1 GCATTTTGATGTT
*
35494623 GCATTTTGGTGTT
1 GCATTTTGATGTT
35494636 GCAT
1 GCAT
35494640 CAGGGTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.27, T:0.50
Consensus pattern (13 bp):
GCATTTTGATGTT
Found at i:35495041 original size:15 final size:15
Alignment explanation
Indices: 35495003--35495048 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
35494993 AGTAGTTGTC
** *
35495003 AAAGCAATAACTTGA
1 AAAGCAATAAGATAA
35495018 AAA-CAATAAGATAA
1 AAAGCAATAAGATAA
35495032 AAAGCAATAAGATAA
1 AAAGCAATAAGATAA
35495047 AA
1 AA
35495049 TATGATAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.65, C:0.09, G:0.11, T:0.15
Consensus pattern (15 bp):
AAAGCAATAAGATAA
Found at i:35496486 original size:15 final size:16
Alignment explanation
Indices: 35496466--35496498 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35496456 CTTTAAAAAG
35496466 CATTTCA-ACTTAATT
1 CATTTCATACTTAATT
*
35496481 CATTTCATGCTTAATT
1 CATTTCATACTTAATT
35496497 CA
1 CA
35496499 CAACAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.30, C:0.21, G:0.03, T:0.45
Consensus pattern (16 bp):
CATTTCATACTTAATT
Done.