Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D03
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: 50986338
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 218898 characters in sequence are not A, C, G, or T
File 116 of 170
Found at i:35706174 original size:22 final size:22
Alignment explanation
Indices: 35706148--35706191 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35706138 AGACAGGAGG
35706148 AGAAAGTCTACATGTTAAACAA
1 AGAAAGTCTACATGTTAAACAA
35706170 AGAAAGTCTACATGTTAAACAA
1 AGAAAGTCTACATGTTAAACAA
35706192 TGCCTTATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
AGAAAGTCTACATGTTAAACAA
Found at i:35711921 original size:10 final size:9
Alignment explanation
Indices: 35711907--35711971 Score: 51
Period size: 9 Copynumber: 6.9 Consensus size: 9
35711897 ATATTTTTTT
35711907 AAAAAATTA
1 AAAAAATTA
*
35711916 TAAAAATTTA
1 -AAAAAATTA
35711926 AAAAAATTA
1 AAAAAATTA
35711935 AAAATACA-TA
1 AAAA-A-ATTA
* *
35711945 GAGAAAGTTA
1 -AAAAAATTA
*
35711955 AAAAATTTA
1 AAAAAATTA
35711964 AAAAAATT
1 AAAAAATT
35711972 CTAAATAATA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 26 0.59
10 14 0.32
11 4 0.09
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.26
Consensus pattern (9 bp):
AAAAAATTA
Found at i:35711924 original size:22 final size:23
Alignment explanation
Indices: 35711881--35711924 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
35711871 ATTCAAAATA
*
35711881 TTTATAAAAATTTCAAATATTTT
1 TTTATAAAAATTTCAAAAATTTT
35711904 TTTA-AAAAATTAT-AAAAATTT
1 TTTATAAAAATT-TCAAAAATTT
35711925 AAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTATAAAAATTTCAAAAATTTT
Found at i:35719726 original size:106 final size:106
Alignment explanation
Indices: 35719536--35719742 Score: 360
Period size: 106 Copynumber: 2.0 Consensus size: 106
35719526 TCGACTACAA
* *
35719536 AAAGAGAGCGTCGAAAAAACTACATTCTTAGATTTGGACTTAAAATGGAATTTATGAGACATACT
1 AAAGAGAGCATCCAAAAAACTACATTCTTAGATTTGGACTTAAAATGGAATTTATGAGACATACT
*
35719601 AACCTCTTTTTTTACGATTCGTGTGTCCAAATCATAGATCG
66 AACCTCTTTTTGTACGATTCGTGTGTCCAAATCATAGATCG
* *
35719642 AAAGAGAGCATCCAAATAACTACATTCTTAGATTTGGACTTAAGATGGAATTTATGAGACATACT
1 AAAGAGAGCATCCAAAAAACTACATTCTTAGATTTGGACTTAAAATGGAATTTATGAGACATACT
*
35719707 AACCTCTTTTTGTATGATTCGTGTGTCCAAATCATA
66 AACCTCTTTTTGTACGATTCGTGTGTCCAAATCATA
35719743 TATCTTCAAT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 95 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (106 bp):
AAAGAGAGCATCCAAAAAACTACATTCTTAGATTTGGACTTAAAATGGAATTTATGAGACATACT
AACCTCTTTTTGTACGATTCGTGTGTCCAAATCATAGATCG
Found at i:35724711 original size:27 final size:27
Alignment explanation
Indices: 35724679--35724745 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
35724669 CCTATCAAGT
*
35724679 AGGCGCCAATGAAGGTGCTTCACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
35724706 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
35724733 AGGCGCCAATGAA
1 AGGCGCCAATGAA
35724746 TATTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.33, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:35724765 original size:19 final size:19
Alignment explanation
Indices: 35724741--35725128 Score: 159
Period size: 19 Copynumber: 19.6 Consensus size: 19
35724731 AGAGGCGCCA
35724741 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
35724760 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
35724780 ATAGTTAA-ATTTGT-ATTTATAGTT
1 AT-G--AATA-TTGTAATTT-T-G-T
* * *
35724804 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
35724821 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
35724842 ATGAATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
*
35724861 ATGAATATTGTAA-TAT-T
1 ATGAATATTGTAATTTTGT
* *
35724878 AT-AATTTTGTATGAATATTG-
1 ATGAATATTG--T-AATTTTGT
*
35724898 -T-AATTTTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
* *
35724915 ATGAATATTGTAATGTCGGGATAT
1 ATGAATATTGTAAT-T----TTGT
*
35724939 ATTGTAATATTGTAATTTTTTGC
1 A-TG-AATATTGTAA--TTTTGT
*
35724962 ATGAATATTGTAATTATTTT
1 ATGAATATTGTAATT-TTGT
35724982 AT-AATTAAATTTGT-ATTTATAGTT
1 ATGAA-T--A-TTGTAATTT-T-G-T
* * *
35725006 TTGGAT-TAGT-ATTTTGT
1 ATGAATATTGTAATTTTGT
35725023 ATGAATATTGTAATTTTTTGT
1 ATGAATATTGTAA--TTTTGT
*
35725044 ATGAATATTGTAGTTTTGT
1 ATGAATATTGTAATTTTGT
*
35725063 ATGAATATTGTAA-TAT-T
1 ATGAATATTGTAATTTTGT
*
35725080 AT-AATATTGTATGAATATTG-
1 ATGAATATTG--T-AATTTTGT
35725100 -T-AATATTGTAATTTTGT
1 ATGAATATTGTAATTTTGT
35725117 ATGAATATTGTA
1 ATGAATATTGTA
35725129 GTGTCGAGAT
Statistics
Matches: 284, Mismatches: 34, Indels: 102
0.68 0.08 0.24
Matches are distributed among these distances:
16 25 0.09
17 18 0.06
18 16 0.06
19 99 0.35
20 27 0.10
21 51 0.18
22 12 0.04
23 13 0.05
24 8 0.03
25 3 0.01
26 10 0.04
27 1 0.00
28 1 0.00
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.53
Consensus pattern (19 bp):
ATGAATATTGTAATTTTGT
Found at i:35724840 original size:21 final size:21
Alignment explanation
Indices: 35724815--35724904 Score: 112
Period size: 21 Copynumber: 4.1 Consensus size: 21
35724805 TGGATTAGTA
35724815 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
35724836 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
35724855 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTGT-A-A-T-T
35724880 AATTTTGTATGAATATTGTAATT
1 --TTTTGTATGAATATTGTAATT
35724903 TT
1 TT
35724905 GTAATTTTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 16
0.79 0.00 0.21
Matches are distributed among these distances:
19 17 0.28
20 1 0.02
21 22 0.36
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
27 17 0.28
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:35724876 original size:27 final size:27
Alignment explanation
Indices: 35724824--35725128 Score: 189
Period size: 27 Copynumber: 12.0 Consensus size: 27
35724814 ATTTTGTATG
35724824 AATATTGTAATTTT-T-TG--TA-TG-
1 AATATTGTAATTTTGTATGAATATTGT
35724845 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
35724872 AATATTATAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
35724899 AATTTTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
** *
35724926 -A-A-TG----TCGGGAT--ATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
*
35724944 AATATTGTAATTTTTTGCATGAATATTGT
1 AATATTGTAA--TTTTGTATGAATATTGT
* **
35724973 AATTATT-TTATAAT-TA--AAT-TTGT
1 AA-TATTGTAATTTTGTATGAATATTGT
* * * * *
35724996 -AT-TTATAGTTTTGGATTAGTATTTTGTAT
1 AATATTGTAATTTTGTA-T-GAATATTG--T
35725025 GAATATTGTAATTTT-T-TG--TA-TG-
1 -AATATTGTAATTTTGTATGAATATTGT
*
35725047 AATATTGTAGTTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
* *
35725074 AATATTATAATATTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
35725101 AATATTGTAATTTTGTATGAATATTGT
1 AATATTGTAATTTTGTATGAATATTGT
35725128 A
1 A
35725129 GTGTCGAGAT
Statistics
Matches: 218, Mismatches: 30, Indels: 66
0.69 0.10 0.21
Matches are distributed among these distances:
18 7 0.03
19 1 0.00
20 7 0.03
21 33 0.15
22 4 0.02
23 8 0.04
24 5 0.02
25 6 0.03
26 9 0.04
27 110 0.50
28 1 0.00
29 13 0.06
30 4 0.02
31 2 0.01
32 8 0.04
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.52
Consensus pattern (27 bp):
AATATTGTAATTTTGTATGAATATTGT
Found at i:35725077 original size:8 final size:8
Alignment explanation
Indices: 35725066--35725117 Score: 59
Period size: 8 Copynumber: 6.1 Consensus size: 8
35725056 GTTTTGTATG
35725066 AATATTGT
1 AATATTGT
*
35725074 AATATTAT
1 AATATTGT
35725082 AATATTGTAT
1 AATATTG--T
35725092 GAATATTGT
1 -AATATTGT
35725101 AATATTGT
1 AATATTGT
*
35725109 AATTTTGT
1 AATATTGT
35725117 A
1 A
35725118 TGAATATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
8 29 0.76
9 1 0.03
10 1 0.03
11 7 0.18
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (8 bp):
AATATTGT
Found at i:35725111 original size:202 final size:202
Alignment explanation
Indices: 35724744--35725196 Score: 822
Period size: 202 Copynumber: 2.3 Consensus size: 202
35724734 GGCGCCAATG
*
35724744 AATATTGTAA--TTTTGTATGAATATTGTAATTATTTTATAGTTAAATTTGTATTTATAGTTTTG
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
35724807 GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGT
66 GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGT
* * *
35724872 AATATTATAATTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTGTAATGTCGGGAT
131 AATATTATAATATTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGAGAT
35724937 ATATTGT
196 ATATTGT
*
35724944 AATATTGTAATTTTTTGCATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
*
35725009 GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAGTTTTGTATGAATATTGT
66 GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGT
*
35725074 AATATTATAATATTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAGTGTCGAGAT
131 AATATTATAATATTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGAGAT
35725139 ATATTGT
196 ATATTGT
35725146 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATT-AATTTGT
1 AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGT
35725197 TAGTAATTTA
Statistics
Matches: 243, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
200 10 0.04
201 7 0.03
202 226 0.93
ACGTcount: A:0.32, C:0.01, G:0.15, T:0.53
Consensus pattern (202 bp):
AATATTGTAATTTTTTGTATGAATATTGTAATTATTTTATAATTAAATTTGTATTTATAGTTTTG
GATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGT
AATATTATAATATTGTATGAATATTGTAATATTGTAATTTTGTATGAATATTGTAATGTCGAGAT
ATATTGT
Found at i:35729083 original size:24 final size:24
Alignment explanation
Indices: 35729056--35729105 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
35729046 ATACTAAAAG
35729056 GTATTATTAAACGAACCTAAACAT
1 GTATTATTAAACGAACCTAAACAT
*
35729080 GTATTATTAAATGAACCTAAACAT
1 GTATTATTAAACGAACCTAAACAT
35729104 GT
1 GT
35729106 CCTTAGTCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (24 bp):
GTATTATTAAACGAACCTAAACAT
Found at i:35730744 original size:35 final size:35
Alignment explanation
Indices: 35730705--35730813 Score: 209
Period size: 35 Copynumber: 3.1 Consensus size: 35
35730695 AGAATAACAA
*
35730705 TTTTACTGGTTTTTATTAAAGAAGAGAAATTTTCT
1 TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
35730740 TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
1 TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
35730775 TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
1 TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
35730810 TTTT
1 TTTT
35730814 CACCTCAAAA
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
35 73 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (35 bp):
TTTTACTGGTTTCTATTAAAGAAGAGAAATTTTCT
Found at i:35732112 original size:29 final size:29
Alignment explanation
Indices: 35732065--35732146 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
35732055 TTACCTCATG
* *
35732065 TTTATTGTCCTGACGGACTTTATCTTCTA
1 TTTATTGTCCCGACAGACTTTATCTTCTA
* * * *
35732094 TTTATTGTCCCGGCAGACTTTGTCTTGTG
1 TTTATTGTCCCGACAGACTTTATCTTCTA
* * *
35732123 TTTACTATCCCTACAGACTTTATC
1 TTTATTGTCCCGACAGACTTTATC
35732147 CCATGTTTAC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (29 bp):
TTTATTGTCCCGACAGACTTTATCTTCTA
Found at i:35732153 original size:29 final size:29
Alignment explanation
Indices: 35732107--35732215 Score: 130
Period size: 29 Copynumber: 3.8 Consensus size: 29
35732097 ATTGTCCCGG
* *
35732107 CAGACTTTGTCTTGTGTTTACTATCCCTA
1 CAGACTTTATCTCGTGTTTACTATCCCTA
* * *
35732136 CAGACTTTATCCCATGTTTACTAT-CTTGA
1 CAGACTTTATCTCGTGTTTACTATCCCT-A
* *
35732165 CAGACTTTATCTCGTGTTTACTGTCCCAA
1 CAGACTTTATCTCGTGTTTACTATCCCTA
*
35732194 CAAACTTTATCTCGTGTTTACT
1 CAGACTTTATCTCGTGTTTACT
35732216 GTCTCTACGA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 64 0.96
30 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (29 bp):
CAGACTTTATCTCGTGTTTACTATCCCTA
Found at i:35732190 original size:87 final size:86
Alignment explanation
Indices: 35732044--35732215 Score: 195
Period size: 87 Copynumber: 2.0 Consensus size: 86
35732034 GTTTCTCTTG
* * * * **
35732044 TCCCAACAGACTTACCTCATGTTTATTGTCCTGACGGACTTTATCTTCTATTTATTGTCCCGGCA
1 TCCCAACAGACTTACCTCATGTTTACTATCCTGACAGACTTTATCTTCTATTTACTGTCCCAACA
* * *
35732109 GACTTTGTCTTGTGTTTACTA
66 AACTTTATCTCGTGTTTACTA
* * *
35732130 TCCCTACAGACTTTATCC-CATGTTTACTATCTTGACAGACTTTATC-TCGTGTTTACTGTCCCA
1 TCCCAACAGAC-TTA-CCTCATGTTTACTATCCTGACAGACTTTATCTTC-TATTTACTGTCCCA
35732193 ACAAACTTTATCTCGTGTTTACT
63 ACAAACTTTATCTCGTGTTTACT
35732216 GTCTCTACGA
Statistics
Matches: 71, Mismatches: 12, Indels: 5
0.81 0.14 0.06
Matches are distributed among these distances:
86 12 0.17
87 57 0.80
88 2 0.03
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (86 bp):
TCCCAACAGACTTACCTCATGTTTACTATCCTGACAGACTTTATCTTCTATTTACTGTCCCAACA
AACTTTATCTCGTGTTTACTA
Found at i:35734254 original size:19 final size:19
Alignment explanation
Indices: 35734226--35734336 Score: 159
Period size: 19 Copynumber: 5.8 Consensus size: 19
35734216 AATCTTCAGG
*
35734226 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
35734245 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
35734264 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
35734283 GATATGCAATTTTAGATAT
1 GATATACAATCTTAGATAT
*
35734302 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
35734321 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
35734337 AGATATGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.39
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:35734276 original size:38 final size:38
Alignment explanation
Indices: 35734233--35734336 Score: 181
Period size: 38 Copynumber: 2.7 Consensus size: 38
35734223 AGGGATATGC
*
35734233 AATCTTAGATATGATATACAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
35734271 AATCTTAGATATGATATGCAATTTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
35734309 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
35734337 AGATATGATT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:35734362 original size:22 final size:21
Alignment explanation
Indices: 35734226--35734362 Score: 96
Period size: 19 Copynumber: 6.9 Consensus size: 21
35734216 AATCTTCAGG
*
35734226 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
**
35734245 GATATACAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
35734264 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
35734283 GATATGCAAT-TT-TAGATAT
1 GATATGTAATCTTAGAGATAT
*
35734302 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
35734321 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
35734343 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
35734363 TTAATTTGTA
Statistics
Matches: 100, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.02
19 73 0.73
20 2 0.02
22 12 0.12
23 11 0.11
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:35741265 original size:8 final size:8
Alignment explanation
Indices: 35741252--35741277 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
35741242 GAGTTGTTTT
35741252 TTTTCTTC
1 TTTTCTTC
35741260 TTTTCTTC
1 TTTTCTTC
35741268 TTTTCTTC
1 TTTTCTTC
35741276 TT
1 TT
35741278 AATGTTGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTCTTC
Found at i:35744629 original size:2 final size:2
Alignment explanation
Indices: 35744622--35744651 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
35744612 GAAGTACCTC
*
35744622 CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35744652 ATGCATTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:35753417 original size:15 final size:15
Alignment explanation
Indices: 35753397--35753429 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
35753387 AAAGAAAATA
*
35753397 CTTGGTATGGAGATT
1 CTTGGTATAGAGATT
35753412 CTTGGTATAGAGATT
1 CTTGGTATAGAGATT
35753427 CTT
1 CTT
35753430 AGAGATAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.27, T:0.42
Consensus pattern (15 bp):
CTTGGTATAGAGATT
Found at i:35755117 original size:13 final size:15
Alignment explanation
Indices: 35755089--35755132 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
35755079 TTTTATCAAT
*
35755089 AATTTATTCATTTTA
1 AATTTATTCTTTTTA
*
35755104 AGTTT-TT-TTTTTA
1 AATTTATTCTTTTTA
35755117 AATTTATTCTTTTTA
1 AATTTATTCTTTTTA
35755132 A
1 A
35755133 TTTCAAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (15 bp):
AATTTATTCTTTTTA
Found at i:35755134 original size:14 final size:14
Alignment explanation
Indices: 35755088--35755135 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
35755078 CTTTTATCAA
*
35755088 TAATTTATTCATTT
1 TAATTTATTCTTTT
35755102 TAAGTTT-TT-TTTT
1 TAA-TTTATTCTTTT
35755115 TAAATTTATTCTTTT
1 T-AATTTATTCTTTT
35755130 TAATTT
1 TAATTT
35755136 CAAAAGTCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
13 7 0.24
14 14 0.48
15 8 0.28
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.69
Consensus pattern (14 bp):
TAATTTATTCTTTT
Found at i:35758510 original size:16 final size:16
Alignment explanation
Indices: 35758489--35758521 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35758479 TTCAATACTT
35758489 AAATATATATTACAAA
1 AAATATATATTACAAA
35758505 AAATATATATTACAAA
1 AAATATATATTACAAA
35758521 A
1 A
35758522 TAATTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATATATTACAAA
Found at i:35761874 original size:33 final size:33
Alignment explanation
Indices: 35761832--35761987 Score: 99
Period size: 33 Copynumber: 4.6 Consensus size: 33
35761822 CCGTTACGGT
35761832 GGAATCAGCACTTAGCAACCACCAACGATTTGG
1 GGAATCAGCACTTAGCAACCACCAACGATTTGG
* * *** *
35761865 GGAATCAGCAGTTAGCAACCCCTTTCATATCCGAAGACACAGT
1 GGAATCAGCACTTAGCAACCAC---CA-A--C---GA-TTTGG
* *
35761908 GGAATCAGCACTTAGCAACCACCGATGATTTGG
1 GGAATCAGCACTTAGCAACCACCAACGATTTGG
*
35761941 GGAATCAGCACTTAGCAA-C-CC--C--TTGGG
1 GGAATCAGCACTTAGCAACCACCAACGATTTGG
35761968 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
35761988 CCCTTTTTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 27
0.69 0.12 0.19
Matches are distributed among these distances:
27 22 0.23
28 1 0.01
31 2 0.02
32 1 0.01
33 39 0.41
34 2 0.02
36 2 0.02
37 1 0.01
39 2 0.02
40 1 0.01
42 2 0.02
43 21 0.22
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAACGATTTGG
Found at i:35765053 original size:69 final size:69
Alignment explanation
Indices: 35764942--35765078 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
35764932 TTTGTTCACG
* *
35764942 AATCATGTTTTGAGCGTATATTTAAGTTAGGGAAGCTTTATTCTATGCAAATTGTACTGTGTGGG
1 AATCATGTTTTGAGCGTATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACTATACTGTGTGGG
35765007 ATCA
66 ATCA
* *
35765011 AATCATGTTTTGTGTGTATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACTATACTGTGTGGG
1 AATCATGTTTTGAGCGTATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACTATACTGTGTGGG
35765076 ATC
66 ATC
35765079 TCATCCCTCG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.27, C:0.10, G:0.23, T:0.40
Consensus pattern (69 bp):
AATCATGTTTTGAGCGTATATTTAAGTTAGGGAAGCTTTATTCTATGCAAACTATACTGTGTGGG
ATCA
Found at i:35770694 original size:3 final size:3
Alignment explanation
Indices: 35770686--35770722 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
35770676 GAAGTGGTAA
35770686 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
35770723 CAGAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:35772895 original size:41 final size:40
Alignment explanation
Indices: 35772850--35772939 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
35772840 AGCGGCACTT
* *
35772850 TTAGCGGCGTTTGGACAAAAAACGCCAC-TAGTAATCGAGCA
1 TTAGCGGCGTTT-GACAAAAAACGCCACAAAAT-ATCGAGCA
* * * *
35772891 TTAGCGGCATTTTACGAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCGAGCA
35772931 TTAGCGGCG
1 TTAGCGGCG
35772940 CTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
40 28 0.68
41 13 0.32
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.20
Consensus pattern (40 bp):
TTAGCGGCGTTTGACAAAAAACGCCACAAAATATCGAGCA
Found at i:35773280 original size:114 final size:111
Alignment explanation
Indices: 35772977--35773324 Score: 471
Period size: 113 Copynumber: 3.1 Consensus size: 111
35772967 AGCATTAACA
* *
35772977 GCGTTTTACAAAAAGCGCCGCAATAGAGTCACACAGAACGACGCCGTTTTCATATAGTTGGGAAC
1 GCGTTTTAC-AAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
35773042 ATTAGTGGCGGTTATTTCCAAGCGCCGCTAAAACTCCGTTCTACAGCG
65 ATTAGTGGCGGTT-TTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * *
35773090 GCGTTTTATACAAAGCGCCGCAATGGAGTAATACAGAACGACGCCGTTTTCATATATCTGGGAAC
1 GCGTTTTACA-AAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
* *
35773155 ATTAGTGGCGGTTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
65 ATTAGTGGCGGTTTT-CCCAAGCGCCGCTAATACTCCGTTCTACAGCG
* * * *
35773203 GCGTTTTACAAAATGCGTCGCAAATACAGTAACACAGAACGACGCCGTTTTCGTATATTTTGGAA
1 GCGTTTTACAAAA-GCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * *
35773268 CACTAGTGGCGGTATTTTCCCAAACGCCGCTAATAATCCGTTCTACAGCG
64 CATTAGTGGCGG--TTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
35773318 GCGTTTT
1 GCGTTTT
35773325 GCGTTAAGCG
Statistics
Matches: 206, Mismatches: 23, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
112 6 0.03
113 113 0.55
114 48 0.23
115 35 0.17
116 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.26
Consensus pattern (111 bp):
GCGTTTTACAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAACA
TTAGTGGCGGTTTTCCCAAGCGCCGCTAATACTCCGTTCTACAGCG
Found at i:35773483 original size:41 final size:42
Alignment explanation
Indices: 35773428--35773525 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 42
35773418 CCGCTGATGC
* * * *
35773428 TCCGCTCTAAAGCGGCATTTATGGAGAATCGCCGCTAAAT-T
1 TCCGGTCTATAGCGGCATTCATGGAGAAGCGCCGCTAAATCT
* * *
35773469 TCCGGTCTATAGCGGCGTTCCTGGAGAAGCGCCGGTAAATCT
1 TCCGGTCTATAGCGGCATTCATGGAGAAGCGCCGCTAAATCT
* *
35773511 T-GGGTCGATAGCGGC
1 TCCGGTCTATAGCGGC
35773526 GTTTGTGTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
41 45 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.24, G:0.30, T:0.24
Consensus pattern (42 bp):
TCCGGTCTATAGCGGCATTCATGGAGAAGCGCCGCTAAATCT
Found at i:35773526 original size:41 final size:41
Alignment explanation
Indices: 35773449--35773528 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
35773439 GCGGCATTTA
* *
35773449 TGGAGAATCGCCGCTAAATTTCCGGTCTATAGCGGCGTTCC
1 TGGAGAAGCGCCGCTAAATTTCCGGTCGATAGCGGCGTTCC
* *
35773490 TGGAGAAGCGCCGGTAAATCTT-GGGTCGATAGCGGCGTT
1 TGGAGAAGCGCCGCTAAAT-TTCCGGTCGATAGCGGCGTT
35773529 TGTGTAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 32 0.94
42 2 0.06
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (41 bp):
TGGAGAAGCGCCGCTAAATTTCCGGTCGATAGCGGCGTTCC
Found at i:35775654 original size:16 final size:16
Alignment explanation
Indices: 35775630--35775660 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35775620 ATTTTCCCTA
35775630 TTCTAAAATCCCTAAG
1 TTCTAAAATCCCTAAG
*
35775646 TTCTGAAATCCCTAA
1 TTCTAAAATCCCTAA
35775661 CTCATAAACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.32
Consensus pattern (16 bp):
TTCTAAAATCCCTAAG
Found at i:35776716 original size:2 final size:2
Alignment explanation
Indices: 35776704--35776739 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
35776694 AAGTATATGG
*
35776704 TA TA CTA TA TA TA TA TA AA TA TA TA TA TA TA TA TA T
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35776740 TTTGGTGATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:35778210 original size:9 final size:9
Alignment explanation
Indices: 35778196--35778253 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
35778186 ACTTACAACT
35778196 TACATAACA
1 TACATAACA
35778205 TACATAATACA
1 TACAT-A-ACA
*
35778216 TA-ATAACT
1 TACATAACA
*
35778224 TAC--AACT
1 TACATAACA
35778231 TACATAACA
1 TACATAACA
*
35778240 TACATAACT
1 TACATAACA
35778249 TACAT
1 TACAT
35778254 TCATAACTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
7 7 0.17
8 4 0.10
9 22 0.54
10 3 0.07
11 5 0.12
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (9 bp):
TACATAACA
Found at i:35778258 original size:13 final size:13
Alignment explanation
Indices: 35778202--35778266 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
35778192 AACTTACATA
35778202 ACATACATAA--T
1 ACATACATAACTT
35778213 ACATA-ATAACTT
1 ACATACATAACTT
* *
35778225 ACA-AC-TTACATA
1 ACATACATAAC-TT
35778237 ACATACATAACTT
1 ACATACATAACTT
*
35778250 ACATTCATAACTT
1 ACATACATAACTT
35778263 ACAT
1 ACAT
35778267 CAACTTATAT
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
10 4 0.09
11 9 0.21
12 8 0.19
13 19 0.44
14 3 0.07
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (13 bp):
ACATACATAACTT
Found at i:35778370 original size:19 final size:18
Alignment explanation
Indices: 35778348--35778408 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
35778338 GCATACATTT
35778348 ACTTACATAATACATAGTA
1 ACTTACATAATACATA-TA
*
35778367 ACTTACA-ACTTAC--ATA
1 ACTTACATA-ATACATATA
*
35778383 ACATACATAATACATAATA
1 ACTTACATAATACAT-ATA
35778402 ACTTACA
1 ACTTACA
35778409 ACTTACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
16 11 0.33
17 2 0.06
18 1 0.03
19 19 0.58
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.30
Consensus pattern (18 bp):
ACTTACATAATACATATA
Found at i:35778377 original size:26 final size:26
Alignment explanation
Indices: 35778321--35778428 Score: 82
Period size: 26 Copynumber: 4.1 Consensus size: 26
35778311 TTTTTATATA
35778321 AACTTACATAATACATAGCATACATT
1 AACTTACATAATACATAGCATACATT
* *
35778347 TACTTACATAATACATAGTA-AC-TT
1 AACTTACATAATACATAGCATACATT
35778371 ACAACTTACATAACATACATA--ATACATAAT
1 --AACTTACAT-A-ATACATAGCATACAT--T
* *
35778401 AACTTACA-ACTTACATAACATACATT
1 AACTTACATA-ATACATAGCATACATT
35778427 AA
1 AA
35778429 TTTTTTAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
24 2 0.03
25 2 0.03
26 38 0.56
27 3 0.04
28 22 0.32
30 1 0.01
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (26 bp):
AACTTACATAATACATAGCATACATT
Found at i:35778389 original size:16 final size:16
Alignment explanation
Indices: 35778365--35778424 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
35778355 TAATACATAG
*
35778365 TAACTTACAACTTACA
1 TAACATACAACTTACA
*
35778381 TAACATACATA-ATACATAA
1 TAACATACA-ACTTAC---A
*
35778400 TAACTTACAACTTACA
1 TAACATACAACTTACA
35778416 TAACATACA
1 TAACATACA
35778425 TTAATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
16 20 0.59
17 1 0.03
18 1 0.03
19 12 0.35
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (16 bp):
TAACATACAACTTACA
Found at i:35778415 original size:19 final size:19
Alignment explanation
Indices: 35778358--35778418 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
35778348 ACTTACATAA
*
35778358 TACATAGTAACTTACAACT
1 TACATAATAACTTACAACT
* *
35778377 TAC---ATAACATACATA-A
1 TACATAATAACTTACA-ACT
35778393 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
35778412 TACATAA
1 TACATAA
35778419 CATACATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
16 11 0.34
17 1 0.03
18 1 0.03
19 19 0.59
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.30
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:35778441 original size:35 final size:35
Alignment explanation
Indices: 35778181--35778425 Score: 157
Period size: 35 Copynumber: 6.8 Consensus size: 35
35778171 TACACAGTTT
35778181 TAATAACTTACAACTTACATAACATACATAATACA
1 TAATAACTTACAACTTACATAACATACATAATACA
35778216 TAATAACTTACAACTTACATAACATACATAACTTACA
1 TAATAACTTACAACTTACATAACATACATAA--TACA
* * ** *
35778253 TTCATAACTTACATCAACTTATATGTTTCCTTACATAATACA
1 -TAATAACTT--A-CAACTTACA---TAACATACATAATACA
* ** * **
35778295 TAACTTATATTTATGATTTTTATATA-A-AC-T--TACA
1 TAA--TA-ACTTACAACTTACATA-ACATACATAATACA
* * *
35778329 TAAT-ACATAGC-A--TACATTTACTTACATAATACA
1 TAATAACTTA-CAACTTACA-TAACATACATAATACA
*
35778362 TAGTAACTTACAACTTACATAACATACATAATACA
1 TAATAACTTACAACTTACATAACATACATAATACA
35778397 TAATAACTTACAACTTACATAACATACAT
1 TAATAACTTACAACTTACATAACATACAT
35778426 TAATTTTTTA
Statistics
Matches: 160, Mismatches: 26, Indels: 48
0.68 0.11 0.21
Matches are distributed among these distances:
28 3 0.02
29 1 0.01
30 6 0.04
31 1 0.01
32 1 0.01
33 8 0.05
34 12 0.08
35 73 0.46
36 5 0.03
37 6 0.04
38 9 0.06
40 1 0.01
41 15 0.09
42 5 0.03
43 2 0.01
44 12 0.08
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.35
Consensus pattern (35 bp):
TAATAACTTACAACTTACATAACATACATAATACA
Found at i:35778484 original size:60 final size:59
Alignment explanation
Indices: 35778399--35778526 Score: 193
Period size: 60 Copynumber: 2.2 Consensus size: 59
35778389 ATAATACATA
* ** * *
35778399 ATAACTTACAACTTACATAACATACATTAATTTTTTAAACTTATAGAAGTTACATAATAC
1 ATAACTTACAACTTACATAACATACATTAATATGAT-AACCTACAGAAGTTACATAATAC
*
35778459 ATAACTTACAACTTACATAACATACATTAATATGATAACCTACATAAGTTACATAATAC
1 ATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAGTTACATAATAC
35778518 ATAACTTAC
1 ATAACTTAC
35778527 CACTGAACAA
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
59 29 0.47
60 33 0.53
ACGTcount: A:0.46, C:0.17, G:0.03, T:0.34
Consensus pattern (59 bp):
ATAACTTACAACTTACATAACATACATTAATATGATAACCTACAGAAGTTACATAATAC
Found at i:35784132 original size:87 final size:86
Alignment explanation
Indices: 35783995--35784166 Score: 249
Period size: 87 Copynumber: 2.0 Consensus size: 86
35783985 AGGCAACATC
*
35783995 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCGGCAA
1 GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCAG-AA
35784060 CGAAAGAAGCAGAGGCAGCAGT
65 CGAAAGAAGCAGAGGCAGCAGT
* *
35784082 GAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGCAGATGCAGA
1 GAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTTAAAGCAGATGCAGA
* * *
35784145 GCGAGAGAAGCAGAGGCTGCAG
64 ACGAAAGAAGCAGAGGCAGCAG
35784167 CGAGGGAATC
Statistics
Matches: 77, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
86 21 0.27
87 52 0.68
88 4 0.05
ACGTcount: A:0.40, C:0.17, G:0.30, T:0.12
Consensus pattern (86 bp):
GAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTTAAAGCAGATGCAGAAC
GAAAGAAGCAGAGGCAGCAGT
Found at i:35784170 original size:21 final size:21
Alignment explanation
Indices: 35784144--35784183 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35784134 GCAGATGCAG
35784144 AGCGAGAGAAGCAGAGGCTGC
1 AGCGAGAGAAGCAGAGGCTGC
* *
35784165 AGCGAGGGAATCAGAGGCT
1 AGCGAGAGAAGCAGAGGCT
35784184 AAAATGAGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.42, T:0.07
Consensus pattern (21 bp):
AGCGAGAGAAGCAGAGGCTGC
Found at i:35784566 original size:42 final size:42
Alignment explanation
Indices: 35784507--35784915 Score: 331
Period size: 42 Copynumber: 9.6 Consensus size: 42
35784497 AAATTAGCGT
* * * ** *
35784507 CGTTTATTGGATAAGCGCCACTAAAGAACCCGCCTCTAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAACCCATCTATAGTGG
* *
35784549 CGTTTTGTGTATAAGCGCCGC-AAAAAACTCCAATCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAAC-CC-ATCTATAGTGG
* * * * *
35784592 CGTTTTTTGCATAAGCGCCGGTACAGAGCCATATCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAACC-CATCTATAGTGG
* * * **
35784635 CGTTTCTT-TATAAGCGTCGGTAAAGAAACATATCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAG-AACCCATCTATAGTGG
* * * *
35784677 CGTTTTTTGTATAAGCACCGCTATAGAACCGAGCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAACCCATCTATAGTGG
* *
35784719 CGTTTTTTGTATAAGCGCCGCTATAG-ACCCGAGCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAACCC-ATCTATAGTGG
* * * * *** *
35784761 CTTTTTTTGTATAAGCGCCGGTAGAGCAGATATCTATTGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGAACCCATCTATAGTGG
* * * * *
35784803 CGTTTTCTGTACAAACGCCGGTAAAGAAACCCGATCTGTAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAG-AACCC-ATCTATAGTGG
* * * *
35784847 CGTTTTTTGCATAAGCGCCGCGAAAGACTCCCACCTATAGTGG
1 CGTTTTTTGTATAAGCGCCGCTAAAGA-ACCCATCTATAGTGG
* *
35784890 CG-TTTCTGTGTAAGCGCCGCTAAAGA
1 CGTTTTTTGTATAAGCGCCGCTAAAGA
35784916 CGGTATTCTA
Statistics
Matches: 293, Mismatches: 63, Indels: 22
0.78 0.17 0.06
Matches are distributed among these distances:
41 9 0.03
42 174 0.59
43 74 0.25
44 36 0.12
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (42 bp):
CGTTTTTTGTATAAGCGCCGCTAAAGAACCCATCTATAGTGG
Found at i:35785194 original size:21 final size:20
Alignment explanation
Indices: 35785165--35785203 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
35785155 TAAAAAAAAC
35785165 TATAATATTTTTATGAATAAA
1 TATAATATTTTTAT-AATAAA
*
35785186 TATATTATTTTTATAATA
1 TATAATATTTTTATAATA
35785204 TATAGCATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATAATATTTTTATAATAAA
Found at i:35786699 original size:31 final size:30
Alignment explanation
Indices: 35786655--35786721 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 30
35786645 ACACATTAAC
* *
35786655 TTTGGTTTAATGTATAATTTTATATAAG-AAT
1 TTTGATTTAATG--TAATTTTATACAAGAAAT
* *
35786686 TTTGATTTTATGTAATTTTATACATGAAAT
1 TTTGATTTAATGTAATTTTATACAAGAAAT
35786716 TTTGAT
1 TTTGAT
35786722 CTGAGCCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 12 0.39
30 9 0.29
31 10 0.32
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (30 bp):
TTTGATTTAATGTAATTTTATACAAGAAAT
Found at i:35789498 original size:21 final size:21
Alignment explanation
Indices: 35789456--35789505 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
35789446 AAAAAAAATC
*
35789456 TTTAAAATATTATTAAATTTA
1 TTTAAAATATTATTAAAATTA
35789477 TTTAAAATA-TATTAAAAATTA
1 TTTAAAATATTATT-AAAATTA
35789498 TGTTAAAA
1 T-TTAAAA
35789506 ATTTTCAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 16 0.62
22 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAAAATATTATTAAAATTA
Found at i:35790932 original size:20 final size:20
Alignment explanation
Indices: 35790907--35790944 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35790897 GTCAATTTTG
35790907 TTTTTTGCTTCAATCAAGTT
1 TTTTTTGCTTCAATCAAGTT
*
35790927 TTTTTTTCTTCAATCAAG
1 TTTTTTGCTTCAATCAAG
35790945 CATGAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (20 bp):
TTTTTTGCTTCAATCAAGTT
Found at i:35791113 original size:19 final size:19
Alignment explanation
Indices: 35791089--35791145 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 19
35791079 ACATGTTAAT
35791089 ATAATTTTTAATATTTTTA
1 ATAATTTTTAATATTTTTA
** *
35791108 ATAATTTATTTTTATTTTAA
1 ATAATTT-TTAATATTTTTA
* *
35791128 AGATTTTTTAAT-TTTTTA
1 ATAATTTTTAATATTTTTA
35791146 GAATTACTGT
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
18 5 0.17
19 10 0.34
20 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
ATAATTTTTAATATTTTTA
Found at i:35791634 original size:7 final size:7
Alignment explanation
Indices: 35791624--35791663 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
35791614 TAAATAATAA
35791624 TATATAT
1 TATATAT
35791631 TATATAT
1 TATATAT
35791638 TATATAT
1 TATATAT
35791645 TATATAT
1 TATATAT
35791652 TATATAT
1 TATATAT
35791659 TATAT
1 TATAT
35791664 GTACTAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:35798052 original size:20 final size:19
Alignment explanation
Indices: 35798027--35798065 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35798017 CCGGCCCGGT
*
35798027 TTTTAATAAACACAAAAATA
1 TTTTAA-AAACAAAAAAATA
*
35798047 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
35798066 AAAATATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:35801057 original size:25 final size:25
Alignment explanation
Indices: 35801007--35801057 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
35800997 TCGTTTTGAG
* *
35801007 TAATTTTTTTTCTTTTATGTTCTTT
1 TAATTTTTTCTCTTTTATATTCTTT
* *
35801032 TAATTTTTTCTCTTTTTTATTTTTT
1 TAATTTTTTCTCTTTTATATTCTTT
35801057 T
1 T
35801058 TCCATTCTCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (25 bp):
TAATTTTTTCTCTTTTATATTCTTT
Found at i:35801442 original size:6 final size:6
Alignment explanation
Indices: 35801431--35801501 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
35801421 CTAAAACGTT
* * *
35801431 TTTTTC TTTTTC TTTTTC -CTCTC -TTTTC -TTTTC TTTTAC ATTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC
35801477 TTCTTTC TTTTGAT- TTTTTC TTTTT
1 TT-TTTC TTTT--TC TTTTTC TTTTT
35801502 GACTGTGTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 12 0.23
6 25 0.47
7 15 0.28
8 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:35801500 original size:26 final size:27
Alignment explanation
Indices: 35801432--35801501 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
35801422 TAAAACGTTT
35801432 TTTTCTTTTTCTTTTTCCTCTCTTTTC
1 TTTTCTTTTTCTTTTTCCTCTCTTTTC
*
35801459 TTTTCTTTTACATTTTT-CT-TC-TTTC
1 TTTTCTTTTTC-TTTTTCCTCTCTTTTC
*
35801484 TTTTGATTTTTTCTTTTT
1 TTTT--CTTTTTCTTTTT
35801502 GACTGTGTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 8 0.22
26 7 0.19
27 17 0.46
28 5 0.14
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTTCTTTTTCTTTTTCCTCTCTTTTC
Found at i:35803448 original size:50 final size:50
Alignment explanation
Indices: 35803337--35803527 Score: 240
Period size: 50 Copynumber: 3.8 Consensus size: 50
35803327 CATAACATGC
* * ** *
35803337 CAAA-GCCATGTCCTAGACATGGTCTGACATGGGATGTTCTCATATCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG
** * **
35803387 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
*
35803437 CAAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATCTCGGTG
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
* * *
35803487 CCAACGCCATGTCTCAGACATGGTCTTACATGGGATCTCTC
1 CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
35803528 TACCCAAATG
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
50 95 0.79
51 26 0.21
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG
Found at i:35803899 original size:30 final size:29
Alignment explanation
Indices: 35803864--35803920 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 29
35803854 CCTCGACTCT
35803864 AACTTTGT-CAAAATTACAATTTTGCCCCTA
1 AACTTT-TACAAAATTAC-ATTTTGCCCCTA
* *
35803894 AACTTTTACATAATTACATTTTTCCCC
1 AACTTTTACAAAATTACATTTTGCCCC
35803921 AAGGCTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.25, G:0.04, T:0.40
Consensus pattern (29 bp):
AACTTTTACAAAATTACATTTTGCCCCTA
Found at i:35804858 original size:63 final size:64
Alignment explanation
Indices: 35804723--35804860 Score: 170
Period size: 63 Copynumber: 2.2 Consensus size: 64
35804713 GTCATTACAG
* ** * * *
35804723 TGTAACTCACTGATTCACAATTTAGAGACACACAGGCCAAGGACACGGGCGTGTGCCTAGGTCA
1 TGTAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCA
* * * *
35804787 TGTAACTCACTGATTCACAACTTAGAGACATAC-GGCCAGGGACACAAGCTTGTTCCCAAGCCA
1 TGTAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCA
*
35804850 TGTGACTCACT
1 TGTAACTCACT
35804861 AAGTGCGCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
63 32 0.51
64 31 0.49
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.22
Consensus pattern (64 bp):
TGTAACTCACTGATTCACAACTTAGAGACACACAGGCCAAGGACACAAGCGTGTGCCCAAGCCA
Found at i:35806282 original size:16 final size:17
Alignment explanation
Indices: 35806257--35806292 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
35806247 CAACATTTAA
35806257 TTTCCATTAAATATT-T
1 TTTCCATTAAATATTCT
*
35806273 TTTCCTTTAAATATTCT
1 TTTCCATTAAATATTCT
35806290 TTT
1 TTT
35806293 TTAAAAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.25, C:0.14, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTCCATTAAATATTCT
Found at i:35822875 original size:15 final size:15
Alignment explanation
Indices: 35822855--35822885 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35822845 TAACTCGCAT
*
35822855 TACACATAGTTCGTA
1 TACACATAGCTCGTA
35822870 TACACATAGCTCGTA
1 TACACATAGCTCGTA
35822885 T
1 T
35822886 GCAACATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (15 bp):
TACACATAGCTCGTA
Found at i:35822979 original size:20 final size:21
Alignment explanation
Indices: 35822946--35823004 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
35822936 CATAAATTGC
* *
35822946 ATAATAACATAGCTCGCATAA
1 ATAATAACACAGCTCACATAA
35822967 ATAA-AACACAGCTCACAT-A
1 ATAATAACACAGCTCACATAA
* * *
35822986 ATCATAGCAAAGCTCACAT
1 ATAATAACACAGCTCACAT
35823005 GGTATAGTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.12
20 24 0.75
21 4 0.12
ACGTcount: A:0.47, C:0.24, G:0.08, T:0.20
Consensus pattern (21 bp):
ATAATAACACAGCTCACATAA
Found at i:35826327 original size:11 final size:11
Alignment explanation
Indices: 35826270--35826328 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
35826260 TTTGTGCTGC
*
35826270 TATTTTGATGT
1 TATTTTGTTGT
*
35826281 TGTTTTGTTGT
1 TATTTTGTTGT
* *
35826292 CATTTTGTTAT
1 TATTTTGTTGT
* * *
35826303 TATATTGCTAT
1 TATTTTGTTGT
35826314 TATTTTGTTGT
1 TATTTTGTTGT
35826325 TATT
1 TATT
35826329 GTTTGGATAT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.15, C:0.03, G:0.15, T:0.66
Consensus pattern (11 bp):
TATTTTGTTGT
Found at i:35833587 original size:18 final size:18
Alignment explanation
Indices: 35833561--35833595 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
35833551 AGATGCATTT
*
35833561 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
35833579 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
35833596 TCCTTTTCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:35834058 original size:43 final size:44
Alignment explanation
Indices: 35834006--35834104 Score: 146
Period size: 44 Copynumber: 2.2 Consensus size: 44
35833996 TTATTTGTAC
* *
35834006 AAATATTTTGA-ATATTTTGATATTATTTTATGTAAAAAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
*
35834049 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAAAAAAATAG
1 AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
*
35834093 AAGTTTATTTGA
1 AAATTT-TTTGA
35834105 TGTAATAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
43 10 0.20
44 35 0.70
45 5 0.10
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (44 bp):
AAATTTTTTGAGATATTTTGATATTATTTGATGTAAAAAAATAG
Found at i:35834067 original size:44 final size:45
Alignment explanation
Indices: 35834018--35834104 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 45
35834008 ATATTTTGAA
*
35834018 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
*
35834062 TATTTTGATATTATTTGATGTAAAAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
35834105 TGTAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 35 0.88
45 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:35834106 original size:25 final size:25
Alignment explanation
Indices: 35834072--35834234 Score: 169
Period size: 25 Copynumber: 6.7 Consensus size: 25
35834062 TATTTTGATA
*
35834072 TTATTTGATGTAAAAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
35834097 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
35834122 TTATTTGATGCAATAAAATATAAGT
1 TTATTTGATGTAATAAAATAGAAGT
**
35834147 TTATTTGATGTAATAAAATA-AAAA
1 TTATTTGATGTAATAAAATAGAAGT
** ** *
35834171 AAATTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
35834191 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
35834217 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
35834235 ACCCTAACCT
Statistics
Matches: 112, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.02
21 9 0.08
22 1 0.01
23 1 0.01
24 11 0.10
25 87 0.78
26 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.13, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:35834282 original size:23 final size:23
Alignment explanation
Indices: 35834230--35835023 Score: 252
Period size: 29 Copynumber: 31.0 Consensus size: 23
35834220 TTTGATGTAA
* *
35834230 TAAAAACCCTAACCTAATTTAAC
1 TAAAAACCCTAACCTAAATTAAT
***
35834253 CCTAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAAATTAAT
35834276 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
**
35834305 TAAAAACCCTAACCTAACCTAATT
1 TAAAAACCCTAACCTAAATTAA-T
* *
35834329 TACTTAAAACCCTAAACCTTAACT--T
1 TA---AAAACCCT-AACCTAAATTAAT
**
35834354 TAAAAACCCTAACCTAGTTTAAT
1 TAAAAACCCTAACCTAAATTAAT
* *
35834377 TAAAAACCCTAAACCTTAACT--T
1 TAAAAACCCT-AACCTAAATTAAT
*
35834399 TAAAAACCCTAACCTAATTTAA-
1 TAAAAACCCTAACCTAAATTAAT
* *
35834421 TACAAAACCCTCACCTAAACCCTAAT
1 TA-AAAACCCTAACCTAAA--TTAAT
35834447 TAAAAACCCTAACCTAAATTAAT
1 TAAAAACCCTAACCTAAATTAAT
35834470 TAAAAACCCTAACCCTAACCTAAATTAAT
1 T--AAA----AACCCTAACCTAAATTAAT
*
35834499 TAAAAACCCTACCCCTAACCTAATTTAAT
1 T-AAAA----A-CCCTAACCTAAATTAAT
*
35834528 TACAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
*
35834557 TAAAAACCCTACCCCTAACCTAATTTAAT
1 T-AAAA----A-CCCTAACCTAAATTAAT
*
35834586 TACAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
*
35834615 TAAAAATCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAAATTAAT
35834644 TAAAAACCCTAAACC----TTAACT
1 TAAAAACCCT-AACCTAAATTAA-T
* * *
35834665 TAAAAATCCTAAACCTTAACT--T
1 TAAAAACCCT-AACCTAAATTAAT
*
35834687 TAAAAACCCTAACCTAATTTAAT
1 TAAAAACCCTAACCTAAATTAAT
35834710 TAAAGACCCTAACCCTAACCTAAATTAAT
1 T-AA-A----AACCCTAACCTAAATTAAT
*
35834739 TAAAAACCTTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAAATTAAT
35834768 TAAAAACCCTAACCCTAACCTAATTTAAT
1 TAAAAACCCTAA-CCT-A---AA-TTAAT
*
35834797 TAAAAACCCTAAACC---CTTAACT
1 TAAAAACCCT-AACCTAAATTAA-T
35834819 TAAAAACCCTAACCTTAACCTAATTTAAT
1 TAAAAACCCTAACC-T-A---AA-TTAAT
* *
35834848 TAAAAACCATAACCTAATTTAAT
1 TAAAAACCCTAACCTAAATTAAT
35834871 TAAACACCCTAACCCTAACCTAAATTAAT
1 T-AA-A----AACCCTAACCTAAATTAAT
*
35834900 TAAAAATCCTAACCCTAACCTAATTTAAT
1 T--AAA----AACCCTAACCTAAATTAAT
*
35834929 TAAAAACCCTAAACCCTTAACTTAA-
1 TAAAAACCCT-AA-CC-TAAATTAAT
* * *
35834954 -AACCCTAACCTTAACCTAATTTAAT
1 TAA---AAACCCTAACCTAAATTAAT
* *
35834979 TAAAAACCCTAATCTAATTTAAT
1 TAAAAACCCTAACCTAAATTAAT
* *
35835002 TAAAAACCCTAAACTAAGTTAA
1 TAAAAACCCTAACCTAAATTAA
35835024 CAATGTTACA
Statistics
Matches: 605, Mismatches: 64, Indels: 204
0.69 0.07 0.23
Matches are distributed among these distances:
20 4 0.01
21 43 0.07
22 42 0.07
23 137 0.23
24 45 0.07
25 35 0.06
26 13 0.02
27 24 0.04
28 28 0.05
29 192 0.32
30 17 0.03
31 2 0.00
33 2 0.00
34 7 0.01
35 14 0.02
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAAACCCTAACCTAAATTAAT
Found at i:35834290 original size:29 final size:29
Alignment explanation
Indices: 35834250--35834945 Score: 613
Period size: 29 Copynumber: 25.4 Consensus size: 29
35834240 AACCTAATTT
*
35834250 AACCCTAAACCCTAACCTAAATTAATTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
35834280 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834309 AACCCTAA-CCTAACCTAATTTACTT-AA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35834336 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834358 AACCCT-A-----ACCTAGTTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35834381 AACCCTAAACCT----TAA-CT--TTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834403 AACCCT-A-----ACCTAATTTAA-TACAA
1 AACCCTAACCCTAACCTAATTTAATTA-AA
* *
35834426 AACCCTCA-CCTAAACC----CTAATTAAA
1 AACCCTAACCCT-AACCTAATTTAATTAAA
35834451 AACCCTAA-CCT-A---AA-TTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834474 AACCCTAACCCTAACCTAAATTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35834503 AACCCTACCCCTAACCTAATTTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834532 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35834561 AACCCTACCCCTAACCTAATTTAATTACA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834590 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834619 AATCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* * *
35834648 AACCCTAAACCTTAACTTAA--AAATCCTAAA
1 AACCCT-AACCCTAACCTAATTTAAT--TAAA
**
35834678 CCTTAACTTTAAAAACCCTAACCTAATTTAATTAAA
1 ----AACCCT---AACCCTAACCTAATTTAATTAAA
* *
35834714 GACCCTAACCCTAACCTAAATTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834743 AACCTTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834772 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834801 AACCCTAAACCCT----T-A---ACTTAAA
1 AACCCT-AACCCTAACCTAATTTAATTAAA
*
35834823 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834852 AA-CC--A---TAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
35834875 CACCCTAACCCTAACCTAAATTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
35834904 AATCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
35834933 AACCCTAAACCCT
1 AACCCT-AACCCT
35834946 TAACTTAAAA
Statistics
Matches: 557, Mismatches: 47, Indels: 124
0.77 0.06 0.17
Matches are distributed among these distances:
20 5 0.01
21 11 0.02
22 33 0.06
23 56 0.10
24 11 0.02
25 20 0.04
26 6 0.01
27 10 0.02
28 26 0.05
29 320 0.57
30 33 0.06
32 3 0.01
34 4 0.01
36 16 0.03
38 3 0.01
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:35834359 original size:22 final size:22
Alignment explanation
Indices: 35834334--35834410 Score: 97
Period size: 22 Copynumber: 3.5 Consensus size: 22
35834324 TAATTTACTT
35834334 AAAACCCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
35834356 AAAACCCT-AACCTAGTTTAA--TTA
1 AAAACCCTAAACC----TTAACTTTA
35834379 AAAACCCTAAACCTTAACTTTA
1 AAAACCCTAAACCTTAACTTTA
35834401 AAAACCCTAA
1 AAAACCCTAA
35834411 CCTAATTTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
20 4 0.08
21 4 0.08
22 21 0.44
23 11 0.23
24 4 0.08
25 4 0.08
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (22 bp):
AAAACCCTAAACCTTAACTTTA
Found at i:35834385 original size:45 final size:45
Alignment explanation
Indices: 35834317--35834481 Score: 219
Period size: 45 Copynumber: 3.6 Consensus size: 45
35834307 AAAACCCTAA
*
35834317 CCTAACCTAATTTACTT-AAAACCCTAAACCTTAACTTTAAAAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAAC
*
35834361 CCTAACCTAGTTTAATTAAAAACCCTAAACCTTAACTTTAAAAAC
1 CCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAAC
* *
35834406 CCTAACCTAATTTAA-TACAAAACCCT-CACCTAAACCCTAATTAAAAAC
1 CCTAACCTAATTTAATTA-AAAACCCTAAACCTTAA--CT--TTAAAAAC
*
35834454 CCTAACCTAAATTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
35834482 CCCTAACCTA
Statistics
Matches: 106, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
44 23 0.22
45 49 0.46
46 2 0.02
48 30 0.28
49 2 0.02
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (45 bp):
CCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAAC
Found at i:35834452 original size:25 final size:23
Alignment explanation
Indices: 35834256--35834497 Score: 179
Period size: 23 Copynumber: 10.0 Consensus size: 23
35834246 ATTTAACCCT
*
35834256 AAACCCTAACCTAAATTAATTAA
1 AAACCCTAACCTAAACTAATTAA
*
35834279 AAACCCTAACCCTAACCTAATTTAATTAA
1 AAACCCTAA-CCT-A---AA-CTAATTAA
*
35834308 AAACCCTAACCTAACCTAATTTACTTA
1 AAACCCTAACCTAAACTAA-TTA---A
*
35834335 AAACCCTAAACCTTAACT--TTAA
1 AAACCCT-AACCTAAACTAATTAA
***
35834357 AAACCCTAACCTAGTTTAATTAA
1 AAACCCTAACCTAAACTAATTAA
*
35834380 AAACCCTAAACCTTAACT--TTAA
1 AAACCCT-AACCTAAACTAATTAA
**
35834402 AAACCCTAACCTAATTTAA-TACA
1 AAACCCTAACCTAAACTAATTA-A
*
35834425 AAACCCTCACCTAAACCCTAATTAA
1 AAACCCTAACCTAAA--CTAATTAA
*
35834450 AAACCCTAACCTAAATTAATTAA
1 AAACCCTAACCTAAACTAATTAA
*
35834473 AAACCCTAACCCTAACCTAAATTAA
1 AAACCCTAA-CCTAAACT-AATTAA
35834498 TTAAAAACCC
Statistics
Matches: 175, Mismatches: 22, Indels: 42
0.73 0.09 0.18
Matches are distributed among these distances:
21 13 0.07
22 21 0.12
23 53 0.30
24 19 0.11
25 28 0.16
26 2 0.01
27 9 0.05
28 13 0.07
29 17 0.10
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.26
Consensus pattern (23 bp):
AAACCCTAACCTAAACTAATTAA
Found at i:35834701 original size:21 final size:22
Alignment explanation
Indices: 35834643--35834698 Score: 96
Period size: 21 Copynumber: 2.6 Consensus size: 22
35834633 CCTAATTTAA
35834643 TTAAAAACCCTAAACCTTAAC-
1 TTAAAAACCCTAAACCTTAACT
*
35834664 TTAAAAATCCTAAACCTTAACT
1 TTAAAAACCCTAAACCTTAACT
35834686 TTAAAAACCCTAA
1 TTAAAAACCCTAA
35834699 CCTAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
TTAAAAACCCTAAACCTTAACT
Found at i:35834725 original size:182 final size:168
Alignment explanation
Indices: 35834451--35834990 Score: 605
Period size: 182 Copynumber: 3.2 Consensus size: 168
35834441 CCTAATTAAA
* * *
35834451 AACCCTAACCTAAATTAATTAAAAACCCT-AACCCTAACCTAAATTAATTAAAAACCCTACCCCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACCTAACTTAATT-AAAA----A-CCCT
* *
35834515 AACCTAATTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTACCCCTAACCTAA
60 AACCTAATTTAATTA-AAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAA
* *
35834580 TTTAATTACAAACCCTAACCCTAACCTAATTTAATTAAAAATCCT
124 TTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
35834625 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTAAAAATCCTAAACCTTAACTTTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAA-C----CTT---AA-CCT-AA-CTTAA--TTAA
*
35834690 AAACCCTAACCTAATTTAATTAAAGACCCTAACCCTAACCTAAATTAATTAAAAACCTTAACCCT
53 AAACCCTAACCTAATTTAATTAAA-ACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCT
35834755 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
117 AACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* * *
35834807 AAACCCT----T-A---ACTTAAAAACCCT-AACCTTAACCTAATTTAATTAAAAACCATAACCT
1 -AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACCTAACTTAATTAAAAACCCTAACCT
*
35834863 AATTTAATTAAACACCCTAACCCTAACCTAAATTAATTAAAAATCCTAACCCTAACCTAATTTAA
65 AATTTAATTAAA-ACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
35834928 TTAAAAACCCTAAACCCT----T-A---ACTT-AAAACCCT
129 TTAAAAACCCT-AACCCTAACCTAATTTAATTAAAAACCCT
*
35834960 AACCTTAACCTAATTTAATTAAAAACCCTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA
35834991 TCTAATTTAA
Statistics
Matches: 323, Mismatches: 17, Indels: 65
0.80 0.04 0.16
Matches are distributed among these distances:
152 5 0.02
153 8 0.02
154 3 0.01
156 1 0.00
157 2 0.01
158 1 0.00
160 12 0.04
161 89 0.28
162 6 0.02
163 4 0.01
164 2 0.01
165 3 0.01
166 2 0.01
169 3 0.01
173 1 0.00
174 30 0.09
175 14 0.04
176 1 0.00
178 1 0.00
179 1 0.00
180 2 0.01
181 2 0.01
182 106 0.33
183 9 0.03
184 3 0.01
185 2 0.01
186 4 0.01
187 4 0.01
188 2 0.01
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (168 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACCTAACTTAATTAAAAACCCTAACCTA
ATTTAATTAAAACCCTAACCCTAACCTAAATTAATTAAAAACCCTAACCCTAACCTAATTTAATT
AAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:35834752 original size:153 final size:155
Alignment explanation
Indices: 35834538--35834945 Score: 626
Period size: 153 Copynumber: 2.6 Consensus size: 155
35834528 TACAAACCCT
* * *
35834538 AACCCTAACCTAATTTAATTAAAAACCCTACCCCTAACCTAATTTAATTACAAACCCTAACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTA-AAAACCTAACCCTA
*
35834603 ACCTAATTTAATTAAAAATCCTAACCCTAACCTAATTTAATTAAAAACCCTAAA-CCTTAACTTA
65 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTA
*
35834667 AAAATCCTAAACCTTAA-C-T-TTAAA
130 AAAACCCT-AACCTTAACCTTATTAAA
*
35834691 AACCCTAACCTAATTTAATTAAAGACCCTAACCCTAACCTAAATTAATTAAAAACCTTAACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACC-TAACCCTA
35834756 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTA
65 ACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTA
35834821 AAAACCCTAACCTTAACCTAATTTAATTAAA
130 AAAACCCTAACCTTAACC----TT-ATTAAA
* *
35834852 AACCATAACCTAATTTAATTAAACACCCTAACCCTAACCTAAATTAATTAAAAATCCTAACCCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAA-CCTAACCCTA
35834917 ACCTAATTTAATTAAAAACCCTAAACCCT
65 ACCTAATTTAATTAAAAACCCT-AACCCT
35834946 TAACTTAAAA
Statistics
Matches: 235, Mismatches: 8, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
152 5 0.02
153 116 0.49
154 18 0.08
159 1 0.00
161 87 0.37
162 8 0.03
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.28
Consensus pattern (155 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAAATTAATTAAAAACCTAACCCTAA
CCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTAA
AAACCCTAACCTTAACCTTATTAAA
Found at i:35834824 original size:22 final size:20
Alignment explanation
Indices: 35834792--35834837 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
35834782 CTAACCTAAT
35834792 TTAA-TTAAAAACCCTAAACCC
1 TTAACTTAAAAACCCT-AA-CC
35834813 TTAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACC
35834833 TTAAC
1 TTAAC
35834838 CTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 6 0.25
22 11 0.46
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (20 bp):
TTAACTTAAAAACCCTAACC
Found at i:35834829 original size:51 final size:49
Alignment explanation
Indices: 35834686--35834915 Score: 217
Period size: 52 Copynumber: 4.3 Consensus size: 49
35834676 AACCTTAACT
* * *
35834686 TTAAAAACCCTAACCTAATTTAATTAAAGACCCTAACCCTAACCTAAATTAA
1 TTAAAAACCCTAACC---CTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
35834738 TTAAAAACCTTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAA
1 TT--AAA----AACCCTAACC---CTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
35834796 TTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTAACCTAATTTAA
1 TTAAAAACCCT-AACCCTTAA-TTAAAAACCCTAACCCTAACCTAATTTAA
* * * *
35834847 TTAAAAACCATAACCTAATTTAATTAAACACCCTAACCCTAACCTAAATTAA
1 TTAAAAACCCTAACC---CTTAATTAAAAACCCTAACCCTAACCTAATTTAA
*
35834899 TTAAAAATCCTAACCCT
1 TTAAAAACCCTAACCCT
35834916 AACCTAATTT
Statistics
Matches: 155, Mismatches: 12, Indels: 25
0.81 0.06 0.13
Matches are distributed among these distances:
49 1 0.01
50 8 0.05
51 38 0.25
52 47 0.30
53 8 0.05
54 3 0.02
56 3 0.02
58 47 0.30
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (49 bp):
TTAAAAACCCTAACCCTTAATTAAAAACCCTAACCCTAACCTAATTTAA
Found at i:35835165 original size:116 final size:116
Alignment explanation
Indices: 35835020--35835257 Score: 440
Period size: 116 Copynumber: 2.1 Consensus size: 116
35835010 CTAAACTAAG
* *
35835020 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
35835085 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
*
35835136 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
35835201 TAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
35835252 TTAATA
1 TTAATA
35835258 CAATTTATCA
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (116 bp):
TTAATAATGTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
Found at i:35835274 original size:17 final size:18
Alignment explanation
Indices: 35835233--35835274 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
35835223 TTTACTAACC
* *
35835233 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
35835251 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
35835268 ATTAATA
1 ATTAATA
35835275 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:35838536 original size:127 final size:126
Alignment explanation
Indices: 35838227--35838578 Score: 564
Period size: 127 Copynumber: 2.8 Consensus size: 126
35838217 CCAAACATGA
* *
35838227 TACTGTAGAAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
**
35838292 AGAAGTAATTTTATACTATTTGCTCAGAAACGTC--AAAAAAAATTATTTCTTACATGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATTATTTCTTACATGACC
* * *
35838351 TACTGTAGCAAAAGCGCGTCTACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
* * *
35838416 AGAAACGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATAATTATTTCTTTCGTGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAA-AATTATTTCTTACATGACC
*
35838478 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTTAAATAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
**
35838543 AGAAGCGATTTTATACTATTTTATCAGAAACGTCAA
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA
35838579 CTCGAAATTA
Statistics
Matches: 208, Mismatches: 17, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
124 91 0.44
126 6 0.03
127 111 0.53
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.30
Consensus pattern (126 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAAATTATTTCTTACATGACC
Found at i:35838739 original size:21 final size:21
Alignment explanation
Indices: 35838713--35838758 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
35838703 GGGAGCAGAC
35838713 GCTATACTCTCAACATCATCA
1 GCTATACTCTCAACATCATCA
35838734 GCTATACTCTCAACATCATCA
1 GCTATACTCTCAACATCATCA
35838755 GCTA
1 GCTA
35838759 CGGCTCGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.28
Consensus pattern (21 bp):
GCTATACTCTCAACATCATCA
Found at i:35839827 original size:41 final size:41
Alignment explanation
Indices: 35839770--35839878 Score: 182
Period size: 41 Copynumber: 2.7 Consensus size: 41
35839760 TTTAACATAT
* *
35839770 TCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
35839811 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
*
35839852 TCACCGGCACTTAGCCTGCTAGACTTA
1 TCACCGGCACTTAGCCTGCTAGGCTTA
35839879 AAGTCCGAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCAGA
Found at i:35839897 original size:41 final size:40
Alignment explanation
Indices: 35839769--35839955 Score: 177
Period size: 41 Copynumber: 4.6 Consensus size: 40
35839759 ATTTAACATA
* * *
35839769 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCTTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACTTAAAGC-CGATTCAG
* **
35839810 ATCACCGGCACTTAGCCTGCTAGGTTTATAA-CCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGACTTA-AAGCC-GATTCAG
* *
35839851 ATCACCGGCACTTAGCCTGCTAGACTTAAAGTCCGAATT-AT
1 TTCACCGGCACTTAGCCTGCTAGACTTAAAG-CCG-ATTCAG
*
35839892 TTCACCGGC-CTTAAGCCTGCTAGACTTAAAGTCCGAATT-AT
1 TTCACCGGCACTT-AGCCTGCTAGACTTAAAG-CCG-ATTCAG
35839933 TTCACCGGC-CTTAAGCCTGCTAG
1 TTCACCGGCACTT-AGCCTGCTAG
35839956 GTTTTAAACC
Statistics
Matches: 132, Mismatches: 8, Indels: 12
0.87 0.05 0.08
Matches are distributed among these distances:
40 5 0.04
41 121 0.92
42 6 0.05
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (40 bp):
TTCACCGGCACTTAGCCTGCTAGACTTAAAGCCGATTCAG
Found at i:35852959 original size:69 final size:69
Alignment explanation
Indices: 35852885--35853318 Score: 363
Period size: 69 Copynumber: 6.3 Consensus size: 69
35852875 GCAGTTTTTC
* * * * *
35852885 GCCTGCGAACTTTGATTTTACAGCTGAGAGCTTTACTCTCGCTAACTGTATTAGAGGTCACGGCT
1 GCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGCT
35852950 CTTT
66 CTTT
* * * *
35852954 ACCTGCGAACCTTGATTTTACAAAT-AGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGTGAC
1 GCCTGCGAACCTTGATTTTACAACTGA-GAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGC
35853018 TCTTT
65 TCTTT
* * * * * * **
35853023 GCCTGCAAACCTTGATTTTACAACTGGGAGCTATGTTCTCGCTAACTGTGTTGGAGGTTGCGATT
1 GCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGCT
35853088 CTTT
66 CTTT
* ** * * * ** * * ***
35853092 GCCTGCGAATCTTGATTTTACAGTTGGGAGCTGTGCTTTTACTAATTGTGTTGGAGGTTATGGCT
1 GCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGCT
*
35853157 CTTC
66 CTTT
* * * * * * *
35853161 GTCTGCGAATCTTAATTTTACAATTGAGAGCTTT-CGTCTCGCTAATTATGTTGGAGGTCGCGGC
1 GCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGC-TCTCGCTAACTGTGTTAGAGGTCGCGGC
*
35853225 TCTTC
65 TCTTT
* ** * ** * *
35853230 ACCTATGAACCTTGATTTTACAACT-AGGAGCTTTACTCTTTCTAACTGTGTTAGAGGTTGCGAC
1 GCCTGCGAACCTTGATTTTACAACTGA-GAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGC
35853294 TC-TT
65 TCTTT
* *
35853298 CCCTTGCGAACCTTCATTTTA
1 GCC-TGCGAACCTTGATTTTA
35853319 TAAACGACAA
Statistics
Matches: 294, Mismatches: 65, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
68 6 0.02
69 287 0.98
70 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (69 bp):
GCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGCTCTCGCTAACTGTGTTAGAGGTCGCGGCT
CTTT
Found at i:35853063 original size:138 final size:137
Alignment explanation
Indices: 35852882--35853318 Score: 462
Period size: 138 Copynumber: 3.2 Consensus size: 137
35852872 GGCGCAGTTT
* * * * * *
35852882 TTCGCCTGCGAACTTTGATTTTACAGCTGAGAGCTTTACTCTCGCTAACTGTATTAGAGGTCACG
1 TTCGCCTGCGAACCTTGATTTTACAACTGAGAGCTTT-GTCTCGCTAACTGTGTTGGAGGTCGCG
**
35852947 GCTCTTTACCTGCGAACCTTGATTTTACAAATAGGAGCTTTGCTCTCGCTAACTGTGTTAGAGGT
65 GCTCTTTACCTGCGAACCTTGATTTTACAAATAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGT
*
35853012 CGTGACTC
130 TGTGACTC
* * * * *
35853020 TTTGCCTGCAAACCTTGATTTTACAACTGGGAGCTATGTTCTCGCTAACTGTGTTGGAGGTTGCG
1 TTCGCCTGCGAACCTTGATTTTACAACTGAGAGCTTTG-TCTCGCTAACTGTGTTGGAGGTCGCG
** * * ** * * * * *
35853085 ATTCTTTGCCTGCGAATCTTGATTTTACAGTTGGGAGCTGTGCTTTTACTAATTGTGTTGGAGGT
65 GCTCTTTACCTGCGAACCTTGATTTTACAAATAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGT
* *
35853150 TATGGCTC
130 TGTGACTC
* * * * * *
35853158 TTCGTCTGCGAATCTTAATTTTACAATTGAGAGCTTTCGTCTCGCTAATTATGTTGGAGGTCGCG
1 TTCGCCTGCGAACCTTGATTTTACAACTGAGAGCTTT-GTCTCGCTAACTGTGTTGGAGGTCGCG
* ** * * *
35853223 GCTCTTCACCTATGAACCTTGATTTTACAACTAGGAGCTTTACTCTTTCTAACTGTGTTAGAGGT
65 GCTCTTTACCTGCGAACCTTGATTTTACAAATAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGT
*
35853288 TGCGACTC
130 TGTGACTC
*
35853296 TTC-CCTTGCGAACCTTCATTTTA
1 TTCGCC-TGCGAACCTTGATTTTA
35853319 TAAACGACAA
Statistics
Matches: 236, Mismatches: 60, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
137 1 0.00
138 234 0.99
139 1 0.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (137 bp):
TTCGCCTGCGAACCTTGATTTTACAACTGAGAGCTTTGTCTCGCTAACTGTGTTGGAGGTCGCGG
CTCTTTACCTGCGAACCTTGATTTTACAAATAGGAGCTTTGCTCTTACTAACTGTGTTAGAGGTT
GTGACTC
Found at i:35861557 original size:4 final size:4
Alignment explanation
Indices: 35861548--35861580 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
35861538 GATATTTTAG
*
35861548 ATTA ATTA ATTA ATTA ATT- ATTA ATTT ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
35861581 ATTTTAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (4 bp):
ATTA
Found at i:35865740 original size:19 final size:19
Alignment explanation
Indices: 35865716--35865807 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
35865706 ATAATCTTCA
35865716 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
35865735 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
35865754 ATGATATGCAATCTTAGCT
1 ATGATATGCAATCTTAGAT
*
35865773 ATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
35865792 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
35865808 AAAGATATGA
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:35865760 original size:38 final size:38
Alignment explanation
Indices: 35865716--35865832 Score: 180
Period size: 38 Copynumber: 3.0 Consensus size: 38
35865706 ATAATCTTCA
35865716 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
*
35865754 ATGATATGCAATCTTAGCTATGATATGTAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
*
35865792 ATGATATGCAATCTTAAAAGATATGATTTTGTAATCTTAGA
1 ATGATATGCAATCTT---AGATATGA-TATGTAATCTTAGA
35865833 GATTTAATTT
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 52 0.72
41 7 0.10
42 13 0.18
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (38 bp):
ATGATATGCAATCTTAGATATGATATGTAATCTTAGAT
Found at i:35872257 original size:45 final size:45
Alignment explanation
Indices: 35872193--35872362 Score: 218
Period size: 44 Copynumber: 3.8 Consensus size: 45
35872183 CGATGACCCC
*
35872193 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * * *
35872238 AGTCCTATTTCCCTAGTCAGCAGTGGAATAGTTTG-AAAATTGTA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * * *
35872282 AATCATATCTCCCTGGTCAGTAGTGGAATAGGTT-AAAGATTGTG
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
* * *
35872326 AGTCATATCTCCTTGGTTAGCAGTGGAATAAGTTGAA
1 AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAA
35872363 GATTGTGAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
44 73 0.68
45 34 0.32
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (45 bp):
AGTCATATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAAATTGTA
Found at i:35872662 original size:167 final size:168
Alignment explanation
Indices: 35872367--35872680 Score: 432
Period size: 167 Copynumber: 1.9 Consensus size: 168
35872357 GTTGAAGATT
* * * *
35872367 GTGAATCTTACTTCTCTGACGTTATAGCGGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTC
1 GTGAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTCAGGACAGCGAATCTTATCTC
* * *
35872432 CCTGGCGTTAAGACTTGAAATAGCTGAAGCGGAGTAGATTAAAGCTGTAGGCAGCGAATCCTATC
66 CCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
35872497 TCTTTGGCATTACAGTGAAATAGATTGAATCCAAAACG
131 TCTTTGGCATTACAGTGAAATAGATTGAATCCAAAACG
* * * * * *
35872535 GTGAATCTTACTTCCCTGACATTGTAGCGGAGCAGATTGAAGC-CATGACGGTGAATTTTATCTC
1 GTGAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTCAGGACAGCGAATCTTATCTC
* * * * * * * *
35872599 CCTGGCATTAAGGCTTGGATTAGCTTAAGTGGAGCGGATTGAAGCTATGGGCAGCGAATCCTATC
66 CCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
35872664 TCTTTGGCATTACAGTG
131 TCTTTGGCATTACAGTG
35872681 GAGCAGATTA
Statistics
Matches: 125, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
167 86 0.69
168 39 0.31
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (168 bp):
GTGAATCTTACTTCCCTGACATTATAGCGGAGCAGATTAAAGCTCAGGACAGCGAATCTTATCTC
CCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCAGCGAATCCTATC
TCTTTGGCATTACAGTGAAATAGATTGAATCCAAAACG
Found at i:35872740 original size:167 final size:166
Alignment explanation
Indices: 35872420--35872742 Score: 391
Period size: 167 Copynumber: 1.9 Consensus size: 166
35872410 TGAGGGCAGC
* * *
35872420 GAATCTTATCTCCCTGGCGTTAAGACTTGAAATAGCTGAAGCGGAGTAGATTAAAGCTGTAGGCA
1 GAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCA
* * *
35872485 GCGAATCCTATCTCTTTGGCATTACAGTGAAATAGATTGAATCCAAAACGGTGAATCTTACTTCC
66 GCGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAATCC-AAACGGCGAATCTTACTTCC
* *
35872550 CTGACATTGTAGCGGAGCAGATTGAAGCCATGACGGT
130 CTGACATTGTAGCAGAACAGATTGAAGCCATGACGGT
* * * * * * * * *
35872587 GAATTTTATCTCCCTGGCATTAAGGCTTGGATTAGCTTAAGTGGAGCGGATTGAAGCTATGGGCA
1 GAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCA
* *
35872652 GCGAATCCTATCTCTTTGGCATTACAGTGGAGCAGATTAAAGTCGC-AACGGCGAATCTTAC-TC
66 GCGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAA-TC-CAAACGGCGAATCTTACTTC
* *
35872715 CTCTGGC-TGTGTAGTAGAACAGATTGAA
129 C-CTGACAT-TGTAGCAGAACAGATTGAA
35872743 ACTACGACAG
Statistics
Matches: 131, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
166 4 0.03
167 124 0.95
168 2 0.02
169 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (166 bp):
GAATCTTATCTCCCTGGCATTAAGACTTGAAATAGCTGAAGCGGAGCAGATTAAAGCTATAGGCA
GCGAATCCTATCTCTTTGGCATTACAGTGAAACAGATTAAATCCAAACGGCGAATCTTACTTCCC
TGACATTGTAGCAGAACAGATTGAAGCCATGACGGT
Found at i:35872889 original size:50 final size:50
Alignment explanation
Indices: 35872835--35873094 Score: 137
Period size: 50 Copynumber: 5.2 Consensus size: 50
35872825 GTAGTGGAAC
*
35872835 AGATTGAAGCTACAACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
* ** * ** *** ** * ** *
35872885 AGATTGAAACCGCAACGACGAAT-TTTTCTTCCCTGGCGGTGTAGTGGAAT
1 AGATTGAAGCTACAACGGCGAATCTAGT-TTCCCCAACATTGTAATTAAAA
** *
35872935 AGATTGAAGCTATGACGGCGAATCTCGTTTCCCCAACATTGTAATTAAAA
1 AGATTGAAGCTACAACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
** ** * * * * ** * ** *
35872985 AGATTGAAGCCGCAAACGATGAATTTTA-CTTCCCTAGCGGTGTAGTGGAAC
1 AGATTGAAGCTAC-AACGGCGAA-TCTAGTTTCCCCAACATTGTAATTAAAA
* * * *
35873036 AGATTGAAGCTACGACGGCGAATCTTGTTTCCCCAACATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
*
35873086 AGACTGAAG
1 AGATTGAAG
35873095 ATGGCAAGTT
Statistics
Matches: 137, Mismatches: 68, Indels: 10
0.64 0.32 0.05
Matches are distributed among these distances:
49 4 0.03
50 98 0.72
51 33 0.24
52 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTAGTTTCCCCAACATTGTAATTAAAA
Found at i:35873053 original size:101 final size:100
Alignment explanation
Indices: 35872685--35873094 Score: 500
Period size: 100 Copynumber: 4.1 Consensus size: 100
35872675 ACAGTGGAGC
* * * * * * *
35872685 AGATTAAAGTCGCAACGGCGAATCTTAC-TCCTCTGGCTGTGTAGTAGAACAGATTGAAACTACG
1 AGATTGAAGCCGCAACGACGAATTTTACTTCC-CTGGCGGTGTAGTGGAACAGATTGAAGCTACG
* * * * * *
35872749 ACAGCAAATTTGGTTTCCCCAATATTACAATTAAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
* * * * ** *
35872785 ATATTAAAGCCGCAACGGCGAATCTTAC-TCCCTTGGCAATGTAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCCGCAACGACGAATTTTACTTCCC-TGGCGGTGTAGTGGAACAGATTGAAGCTACG
35872849 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
* * * *
35872885 AGATTGAAACCGCAACGACGAATTTTTCTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTATGA
1 AGATTGAAGCCGCAACGACGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
* *
35872950 CGGCGAATCTCGTTTCCCCAACATTGTAATTAAAA
66 CGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
* *
35872985 AGATTGAAGCCGCAAACGATGAATTTTACTTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACG
1 AGATTGAAGCCGC-AACGACGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACG
* *
35873050 ACGGCGAATCTTGTTTCCCCAACATTGCAATTTAAA
65 ACGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
*
35873086 AGACTGAAG
1 AGATTGAAG
35873095 ATGGCAAGTT
Statistics
Matches: 271, Mismatches: 36, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
99 1 0.00
100 179 0.66
101 91 0.34
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (100 bp):
AGATTGAAGCCGCAACGACGAATTTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACGA
CGGCGAATCTAGTTTCCCCAACATTGCAATTAAAA
Found at i:35882293 original size:19 final size:19
Alignment explanation
Indices: 35882269--35882360 Score: 166
Period size: 19 Copynumber: 4.8 Consensus size: 19
35882259 AATCTTCAAG
35882269 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35882288 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
35882307 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
35882326 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
35882345 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
35882361 ATATATGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 71 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:35882337 original size:57 final size:59
Alignment explanation
Indices: 35882269--35882383 Score: 180
Period size: 57 Copynumber: 1.9 Consensus size: 59
35882259 AATCTTCAAG
35882269 GATATGCAATCTTAGATATGATATGCAATCTTAG-ATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCTTAGAATATGATTATGTAATCTTAGATAT
* *
35882326 GATATGTAATCTTAGATATGATATGCAATCTTAGAATATATGATTTTGTAATCTTAGA
1 GATATGCAATCTTAGATATGATATGCAATCTTAG-A-ATATGATTATGTAATCTTAGA
35882384 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
57 33 0.63
60 6 0.12
61 13 0.25
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (59 bp):
GATATGCAATCTTAGATATGATATGCAATCTTAGAATATGATTATGTAATCTTAGATAT
Found at i:35892100 original size:90 final size:90
Alignment explanation
Indices: 35891870--35892123 Score: 278
Period size: 90 Copynumber: 2.8 Consensus size: 90
35891860 AACTACTATT
* * * * * *
35891870 TAAAATGTTCGTATTATCTTTATACCCGTAAATAAATTTTAGTTCGTATTATTTATTTGTCGAAT
1 TAAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTTCGTATTATTTGTTGGTCGAAT
** *
35891935 TTTATATTTTCATATATCAGTTTTG
66 TTTATATTTTCATATATCAAATTTC
* * * * * * **
35891960 TAAAATATTTGTATTATTTGTGGATCTGTAAA-AATGTTTTAGTCCGTATTATTTGCCGGTCGAA
1 TAAAATGTTCGTATTATTTTTGTATCTGTAAATAA-ATTTTAGTTCGTATTATTTGTTGGTCGAA
35892024 TTTTATATTTTCATATATCAAATTTC
65 TTTTATATTTTCATATATCAAATTTC
* * * *
35892050 TAAAATGTTCGTATTATTTTTGTATATGTAAATAAAATTTA-TTTGTTATTATTTGTTGGTCAAA
1 TAAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTTCG-TATTATTTGTTGGTCGAA
*
35892114 TTATATATTT
65 TTTTATATTT
35892124 CCGTATATTA
Statistics
Matches: 131, Mismatches: 30, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
89 4 0.03
90 125 0.95
91 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.11, T:0.51
Consensus pattern (90 bp):
TAAAATGTTCGTATTATTTTTGTATCTGTAAATAAATTTTAGTTCGTATTATTTGTTGGTCGAAT
TTTATATTTTCATATATCAAATTTC
Found at i:35896096 original size:30 final size:30
Alignment explanation
Indices: 35896062--35896136 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
35896052 GTGAACAATA
35896062 CCCCAACGGTCAAAATTTTGACCGTTGCCC
1 CCCCAACGGTCAAAATTTTGACCGTTGCCC
*
35896092 CCCCAACGGCCAAAATTTTGACCGTTGCCC
1 CCCCAACGGTCAAAATTTTGACCGTTGCCC
35896122 CCCCAACGGTCAAAA
1 CCCCAACGGTCAAAA
35896137 AATAAAAACT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.27, C:0.39, G:0.16, T:0.19
Consensus pattern (30 bp):
CCCCAACGGTCAAAATTTTGACCGTTGCCC
Found at i:35896271 original size:51 final size:51
Alignment explanation
Indices: 35896211--35896325 Score: 212
Period size: 51 Copynumber: 2.3 Consensus size: 51
35896201 TCCTCTCTAA
35896211 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
35896262 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
35896313 TCCCCTCAATTTC
1 TCCTCTCAATTTC
35896326 ATTTTTTAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:35896353 original size:10 final size:10
Alignment explanation
Indices: 35896326--35896391 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
35896316 CCTCAATTTC
*
35896326 ATTTTTTAAA
1 ATTTTTTTAA
**
35896336 ATAATTTTAA
1 ATTTTTTTAA
*
35896346 ATTTTTTTAT
1 ATTTTTTTAA
35896356 ATTTTTTTAAA
1 ATTTTTTT-AA
**
35896367 ATAATTTTAA
1 ATTTTTTTAA
*
35896377 ATTTTTTTAT
1 ATTTTTTTAA
35896387 ATTTT
1 ATTTT
35896392 CATCAATGGC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
10 36 0.84
11 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:35896365 original size:31 final size:31
Alignment explanation
Indices: 35896327--35896391 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
35896317 CTCAATTTCA
35896327 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
35896358 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTTTAAATTTTTTTATAT
35896389 TTT
1 TTT
35896392 CATCAATGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTTTAAATTTTTTTATAT
Found at i:35898619 original size:25 final size:25
Alignment explanation
Indices: 35898590--35898658 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
35898580 TTTAAATTTA
35898590 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
35898615 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
35898640 TCTATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
35898659 ACCCTAACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
25 24 0.62
26 15 0.38
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.41
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:35898677 original size:18 final size:18
Alignment explanation
Indices: 35898654--35898903 Score: 155
Period size: 18 Copynumber: 15.5 Consensus size: 18
35898644 TTTGATGTAA
35898654 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
35898672 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAACTTAAT
35898690 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
35898708 TTAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
* *
35898726 TAAAAACCCAAAC-T--C
1 TAAAAACCCTAACTTAAT
*
35898741 T---AA-CCTAATTTAAT
1 TAAAAACCCTAACTTAAT
* *
35898755 TAAAAACCTTAACCCTAA-
1 TAAAAACCCTAA-CTTAAT
*
35898773 T-------CTAATTTAAT
1 TAAAAACCCTAACTTAAT
35898784 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
* **
35898802 T-AAAACCCAAAC---CC
1 TAAAAACCCTAACTTAAT
35898816 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
35898830 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
**
35898848 TAAAAACCCTAAC---CC
1 TAAAAACCCTAACTTAAT
*
35898863 T---AA-CCTAAGTTAAT
1 TAAAAACCCTAACTTAAT
35898877 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
35898895 TAAAAACCC
1 TAAAAACCC
35898904 AAACCCTAAC
Statistics
Matches: 174, Mismatches: 28, Indels: 60
0.66 0.11 0.23
Matches are distributed among these distances:
10 3 0.02
11 18 0.10
12 7 0.04
14 4 0.02
15 2 0.01
17 17 0.10
18 120 0.69
19 3 0.02
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:35898757 original size:29 final size:29
Alignment explanation
Indices: 35898715--35898797 Score: 121
Period size: 29 Copynumber: 2.9 Consensus size: 29
35898705 AATTTAAAAC
* *
35898715 CCTAACTTAATTAAAAACCCAAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
* *
35898744 CCTAATTTAATTAAAAACCTTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAA
*
35898773 TCTAATTTAATTAAAAACCCTAACT
1 CCTAATTTAATTAAAAACCCTAACT
35898798 TAATTAAAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (29 bp):
CCTAATTTAATTAAAAACCCTAACTCTAA
Found at i:35898795 original size:47 final size:47
Alignment explanation
Indices: 35898744--35898936 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
35898734 CAAACTCTAA
* ** * *
35898744 CCTAATTTAATTAAAAACCTTAACCCTAATCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
35898791 CCTAACTTAATT-AAAACCCAAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
* *
35898837 CCTAACTTAATTAAAAACCCTAACCCTAACCTAAGTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
35898884 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
35898931 CCTAAC
1 CCTAAC
35898937 CCTAACCTAA
Statistics
Matches: 136, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 42 0.31
47 94 0.69
ACGTcount: A:0.47, C:0.26, G:0.01, T:0.26
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAAC
Found at i:35898879 original size:29 final size:29
Alignment explanation
Indices: 35898837--35899087 Score: 263
Period size: 29 Copynumber: 8.8 Consensus size: 29
35898827 AATTAAAAAC
35898837 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
35898866 CCTAAGTTAATTAAAAACCCTAA-CTTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* ****
35898894 -TTAA---AAACCCAAACCCT-A-----A
1 CCTAACTTAATTAAAAACCCTAACCCTAA
35898913 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
35898942 CCTAATTTGATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
* *
35898971 CCTAATTTAATTAAAAACCCTAACCATAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
35899000 CCTAACTTAATTAAAAACCCTAACCCTAACTCTAA
1 CCTAACTTAATTAAAAACCCTAA--C---C-CTAA
35899035 CCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAACTTAATTAAAAACCCTAACCCTAA
*
35899064 CCTAATTTAATTAAAAACCCTAAC
1 CCTAACTTAATTAAAAACCCTAAC
35899088 TTAATTAAAA
Statistics
Matches: 187, Mismatches: 19, Indels: 32
0.79 0.08 0.13
Matches are distributed among these distances:
19 1 0.01
20 3 0.02
23 10 0.05
24 10 0.05
27 3 0.02
28 4 0.02
29 126 0.67
30 1 0.01
31 1 0.01
33 1 0.01
34 1 0.01
35 26 0.14
ACGTcount: A:0.45, C:0.28, G:0.01, T:0.25
Consensus pattern (29 bp):
CCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:35899026 original size:64 final size:64
Alignment explanation
Indices: 35898899--35899087 Score: 291
Period size: 64 Copynumber: 3.0 Consensus size: 64
35898889 CTTAATTAAA
* *
35898899 AACCCAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTGATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
* *
35898963 AACCCTAA-CCTAA--T---TTAATTAAAAACCCTAACCATAACCTAACTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
*
35899021 AACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
35899085 AAC
1 AAC
35899088 TTAATTAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
58 49 0.44
59 4 0.04
61 2 0.02
63 5 0.04
64 52 0.46
ACGTcount: A:0.45, C:0.30, G:0.01, T:0.25
Consensus pattern (64 bp):
AACCCTAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCT
Found at i:35899084 original size:58 final size:58
Alignment explanation
Indices: 35898884--35899141 Score: 292
Period size: 58 Copynumber: 4.4 Consensus size: 58
35898874 AATTAAAAAC
* * *
35898884 CCTAACTTAATTAAAAACCCAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
* * * *
35898942 CCTAATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCATAA
1 CCTAATTTAATTAAAAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
*
35899000 CCTAACTTAATTAAAAACCCTAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
1 CCTAATTTAATT--AAA----AACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
* ***** *
35899064 CCTAATTTAATTAAAAACCCTAACT-TAA-TTAA---AAACCCTAACCCTAACTCTAA
1 CCTAATTTAATTAAAAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
35899117 CCTAATTTAATTAAAAACCCTAACT
1 CCTAATTTAATTAAAAACCCTAACT
35899142 TAATTTTACT
Statistics
Matches: 176, Mismatches: 18, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
53 40 0.23
56 3 0.02
57 3 0.02
58 73 0.41
60 3 0.02
62 3 0.02
64 51 0.29
ACGTcount: A:0.45, C:0.28, G:0.00, T:0.26
Consensus pattern (58 bp):
CCTAATTTAATTAAAAACCCTAACTCTAACCTAACTTAATTAAAAACCCTAACCCTAA
Found at i:35899086 original size:23 final size:19
Alignment explanation
Indices: 35899070--35899146 Score: 74
Period size: 18 Copynumber: 4.3 Consensus size: 19
35899060 CTAACCTAAT
35899070 TTAATTAAAAACCCTAA-C
1 TTAATTAAAAACCCTAACC
35899088 TTAATTAAAAACCCTAACC
1 TTAATTAAAAACCCTAACC
* * ** *
35899107 CTAACT-CTAA-CCTAA-T
1 TTAATTAAAAACCCTAACC
35899123 TTAATTAAAAACCCTAA-C
1 TTAATTAAAAACCCTAACC
35899141 TTAATT
1 TTAATT
35899147 TTACTAACCA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
16 4 0.09
17 7 0.15
18 30 0.65
19 5 0.11
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAATTAAAAACCCTAACC
Found at i:35899089 original size:47 final size:47
Alignment explanation
Indices: 35899035--35899146 Score: 161
Period size: 47 Copynumber: 2.3 Consensus size: 47
35899025 CTAACTCTAA
*
35899035 CCTAACTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
35899082 CCTAACTTAATTAAAAACCCTAACCCTAACTCTAACCTAATTTAATTAAAAAC
1 CCTAACTTAATTAAAAACCCTAACCCTAAC-CTAA-C----TTAATTAAAAAC
35899135 CCTAACTTAATT
1 CCTAACTTAATT
35899147 TTACTAACCA
Statistics
Matches: 58, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
47 30 0.52
48 4 0.07
53 24 0.41
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (47 bp):
CCTAACTTAATTAAAAACCCTAACCCTAACCTAACTTAATTAAAAAC
Found at i:35899204 original size:55 final size:55
Alignment explanation
Indices: 35899142--35899305 Score: 199
Period size: 55 Copynumber: 3.0 Consensus size: 55
35899132 AACCCTAACT
*
35899142 TAATTTTACTAACCATTAACACAATTATT-GGACTTAATAATTTAACATAATTTGA
1 TAATTTTACTAACCATTAACAAAATT-TTGGGACTTAATAATTTAACATAATTTGA
**
35899197 TAATTTTACTAACCATTAACAAAATTTTGGGACTTAATAATTTTTCATAATTTGA
1 TAATTTTACTAACCATTAACAAAATTTTGGGACTTAATAATTTAACATAATTTGA
** * * *
35899252 TAATTTTACCTAATTTAATTAAAAAAAATTT-GG-CTTAATAATTTTACATAATTT
1 TAATTTTA-CTAA--CCATTAACAAAATTTTGGGACTTAATAATTTAACATAATTT
35899306 TACATAATTT
Statistics
Matches: 97, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
54 2 0.02
55 57 0.59
56 24 0.25
57 2 0.02
58 12 0.12
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (55 bp):
TAATTTTACTAACCATTAACAAAATTTTGGGACTTAATAATTTAACATAATTTGA
Found at i:35899248 original size:65 final size:62
Alignment explanation
Indices: 35899178--35899443 Score: 278
Period size: 65 Copynumber: 4.2 Consensus size: 62
35899168 ATTGGACTTA
* *
35899178 ATAATTTAACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAATAATTTTTC
1 ATAATTTTACATAATTTGATAATTTTACTAA--ATTAACAAAATTTTGGG-CTTAATAATTTTAC
* * * *
35899243 ATAA-TTT-GATAATTTTACCTAA--TT--T-AATTAAAAAAAATTT-GGCTTAATAATTTTAC
1 ATAATTTTACATAATTTGA--TAATTTTACTAAATTAACAAAATTTTGGGCTTAATAATTTTAC
* * ** *
35899299 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAATTTTTTTTGGCTTAATAATTTTAC
1 ATAATTTTACATAATTTGATAATTTTA-CTAAATTAA-CAA-AATTTTGGGCTTAATAATTTTAC
35899364 ATAATTTTACATAATTTGATAATTTTACTAACCATTAACAAAATTTTGGGACTTAATAATTTTAC
1 ATAATTTTACATAATTTGATAATTTTACTAA--ATTAACAAAATTTTGGG-CTTAATAATTTTAC
35899429 ATAATTTTACATAAT
1 ATAATTTTACATAAT
35899444 GTTAGATTTG
Statistics
Matches: 167, Mismatches: 18, Indels: 32
0.77 0.08 0.15
Matches are distributed among these distances:
56 20 0.12
57 5 0.03
58 22 0.13
60 1 0.01
61 2 0.01
62 5 0.03
63 12 0.07
64 15 0.09
65 81 0.49
66 4 0.02
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.46
Consensus pattern (62 bp):
ATAATTTTACATAATTTGATAATTTTACTAAATTAACAAAATTTTGGGCTTAATAATTTTAC
Found at i:35899265 original size:18 final size:18
Alignment explanation
Indices: 35899233--35899267 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35899223 TTGGGACTTA
*
35899233 ATAATTTTTCATAATTTG
1 ATAATTTTACATAATTTG
*
35899251 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
35899268 AATTAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.54
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:35899266 original size:28 final size:28
Alignment explanation
Indices: 35899234--35899333 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
35899224 TGGGACTTAA
35899234 TAATTTTTCATAATTTGATAATTTTACC
1 TAATTTTTCATAATTTGATAATTTTACC
* * *
35899262 TAATTTAATTAAAAAAAATTTGGCTTAATAATTTTACA
1 TAATTT--TT---CATAATTT-G----ATAATTTTACC
*
35899300 TAATTTTACATAATTTGATAATTTTACC
1 TAATTTTTCATAATTTGATAATTTTACC
35899328 TAATTT
1 TAATTT
35899334 AATTAATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 20
0.67 0.09 0.24
Matches are distributed among these distances:
28 22 0.40
30 2 0.04
32 1 0.02
33 12 0.22
34 1 0.02
36 1 0.02
38 16 0.29
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (28 bp):
TAATTTTTCATAATTTGATAATTTTACC
Found at i:35899304 original size:10 final size:10
Alignment explanation
Indices: 35899289--35899380 Score: 61
Period size: 10 Copynumber: 9.7 Consensus size: 10
35899279 ATTTGGCTTA
35899289 ATAATTTTAC
1 ATAATTTTAC
35899299 ATAATTTTAC
1 ATAATTTTAC
*
35899309 ATAA-TTT-G
1 ATAATTTTAC
35899317 ATAATTTTAC
1 ATAATTTTAC
*
35899327 CTAA-TTTA-
1 ATAATTTTAC
*
35899335 ATTAATTTT-T
1 A-TAATTTTAC
* ****
35899345 TTTGGCTTA-
1 ATAATTTTAC
35899354 ATAATTTTAC
1 ATAATTTTAC
35899364 ATAATTTTAC
1 ATAATTTTAC
35899374 ATAATTT
1 ATAATTT
35899381 GATAATTTTA
Statistics
Matches: 61, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
8 4 0.07
9 20 0.33
10 37 0.61
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:35899312 original size:66 final size:66
Alignment explanation
Indices: 35899233--35899443 Score: 295
Period size: 65 Copynumber: 3.2 Consensus size: 66
35899223 TTGGGACTTA
* *
35899233 ATAATTTTTCATAATTTGATAATTTTACCTAATTTAATTAAAAAAAATTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTA
35899298 C
66 C
****
35899299 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATT-AATTTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTA
35899363 C
66 C
** *
35899364 ATAATTTTACATAATTTGATAATTTTA-CTAA--CCATTAACAAAATTTTGGGACTTAATAATTT
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTT-GG-CTTAATAATTT
35899426 TAC
64 TAC
35899429 ATAATTTTACATAAT
1 ATAATTTTACATAAT
35899444 GTTAGATTTG
Statistics
Matches: 129, Mismatches: 13, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
62 3 0.02
63 5 0.04
64 6 0.05
65 77 0.60
66 38 0.29
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.48
Consensus pattern (66 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAAAAATTTTGGCTTAATAATTTTA
C
Found at i:35899322 original size:18 final size:18
Alignment explanation
Indices: 35899289--35899380 Score: 67
Period size: 18 Copynumber: 4.8 Consensus size: 18
35899279 ATTTGGCTTA
35899289 ATAATTTTACATAATTTTAC
1 ATAA-TTTA-ATAATTTTAC
*
35899309 ATAATTTGATAATTTTAC
1 ATAATTTAATAATTTTAC
* **
35899327 CTAATTTAATTAATTTTTT
1 ATAATTTAA-TAATTTTAC
* ***
35899346 TTGGCTTAATAATTTTAC
1 ATAATTTAATAATTTTAC
35899364 ATAATTTTACATAATTT
1 ATAA-TTTA-ATAATTT
35899381 GATAATTTTA
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
18 25 0.46
19 18 0.33
20 11 0.20
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (18 bp):
ATAATTTAATAATTTTAC
Found at i:35899434 original size:10 final size:10
Alignment explanation
Indices: 35899419--35899443 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
35899409 TTGGGACTTA
35899419 ATAATTTTAC
1 ATAATTTTAC
35899429 ATAATTTTAC
1 ATAATTTTAC
35899439 ATAAT
1 ATAAT
35899444 GTTAGATTTG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:35902778 original size:124 final size:124
Alignment explanation
Indices: 35902551--35902896 Score: 586
Period size: 124 Copynumber: 2.8 Consensus size: 124
35902541 CCAAACTTGC
* *
35902551 TACTATAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTGGT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* * *
35902616 AAAAGCAATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACA
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACA
*
35902675 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCTTGGT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
* *
35902740 AGAGGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACC
66 AGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACA
* *
35902799 TACTGTAGCAAAATCGCGTCTACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGGT
1 TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
35902864 AGAAGCGATTTTATACTATTTGAC-CAGAAACGT
66 AGAAGCGATTTTATACTATTTG-CTCAGAAACGT
35902897 CAACTCGAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
124 208 1.00
125 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
TACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGT
AGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCTTACATGACA
Found at i:35905932 original size:64 final size:61
Alignment explanation
Indices: 35905854--35906139 Score: 181
Period size: 64 Copynumber: 4.7 Consensus size: 61
35905844 AATTAATTTA
* *
35905854 TAATTTATAATTTAAACTTTAATTAGTTATTATTTAATTAAAATCTACCTATTAAATTATTTCT
1 TAATTTAAAATTTAAA-TTTAATT-GTTATT-TTTAATTAAAATCTATCTATTAAATTATTTCT
* * * * *
35905918 TAATTTAAAATTT-AA-TTAATT-TTTTCCTTTTTATTTAAA---ATCTATTCAATTGTTTCAT
1 TAATTTAAAATTTAAATTTAATTGTTAT--TTTTAATTAAAATCTATCTATTAAATTATTTC-T
* * * * *
35905976 T-ATTTATACTTT--A---AATTGATA-TTTTAATTAAAATATATCTATTCAATTAATTT-T
1 TAATTTAAAATTTAAATTTAATTGTTATTTTTAATTAAAATCTATCTATTAAATT-ATTTCT
* * * *
35906030 TAATTTAAACTTTAATTATTTACTTTTTATTTTGTAATTAAAATCTATATATTAAATTATTTCT
1 TAATTTAAAATTTAA--ATTTAATTGTTATTTT-TAATTAAAATCTATCTATTAAATTATTTCT
* *
35906094 TAATTTAAAATTT-AA-TTAATTTTTCCCTTTTTCAATTAAAATCTAT
1 TAATTTAAAATTTAAATTTAATTGTT--ATTTTT-AATTAAAATCTAT
35906140 TCAATTGTTT
Statistics
Matches: 176, Mismatches: 24, Indels: 46
0.72 0.10 0.19
Matches are distributed among these distances:
52 10 0.06
54 6 0.03
55 23 0.13
56 4 0.02
57 23 0.13
58 2 0.01
59 4 0.02
60 17 0.10
61 9 0.05
62 22 0.12
63 10 0.06
64 46 0.26
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.54
Consensus pattern (61 bp):
TAATTTAAAATTTAAATTTAATTGTTATTTTTAATTAAAATCTATCTATTAAATTATTTCT
Found at i:35905938 original size:27 final size:27
Alignment explanation
Indices: 35905861--35905943 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 27
35905851 TTATAATTTA
* *
35905861 TAATTTAAACTTTAATTAGTTATTAT-T
1 TAATTTAAAATTTAATTAATTATT-TCT
*
35905888 TAA-TTAAAATCTACCTATTAAATTATTTCT
1 TAATTTAAAATTTA---ATT-AATTATTTCT
*
35905918 TAATTTAAAATTTAATTAATTTTTTC
1 TAATTTAAAATTTAATTAATTATTTC
35905944 CTTTTTATTT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
26 8 0.18
27 11 0.24
28 3 0.07
29 4 0.09
30 10 0.22
31 9 0.20
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (27 bp):
TAATTTAAAATTTAATTAATTATTTCT
Found at i:35906023 original size:55 final size:56
Alignment explanation
Indices: 35905861--35906221 Score: 186
Period size: 57 Copynumber: 6.3 Consensus size: 56
35905851 TTATAATTTA
* * * * *
35905861 TAATTTAAACTTT-AATTAGTTATTATTTAATTAAAATCTACCTATTAAATTATTTCT
1 TAATTTAAACTTTAAATT-GATATT-TCTAATTAAAATATATCTATTCAATTATTTCT
* * * ** * *
35905918 TAATTTAAAATTT-AATTAATTTTTTCCTTTTTATTTAA-A-ATCTATTCAATTGTTTCAT
1 TAATTTAAACTTTAAATTGA-TATTT-CTAATTA--AAATATATCTATTCAATTATTTC-T
*
35905976 T-ATTTATACTTTAAATTGATATTT-TAATTAAAATATATCTATTCAATTAATTT-T
1 TAATTTAAACTTTAAATTGATATTTCTAATTAAAATATATCTATTCAATT-ATTTCT
* * * * *
35906030 TAATTTAAACTTTAATTATTTACTTTTTATTTTGTAATTAAAATCTATATATTAAATTATTTCT
1 TAATTTAAACTTTAA--ATTGA-----TA-TTTCTAATTAAAATATATCTATTCAATTATTTCT
* * * ** * * * *
35906094 TAATTTAAAATTT-AATTAATTTTTCCCTTTTTCAATTAAAATCTATTCAATTGTTT-T
1 TAATTTAAACTTTAAATTGATATTT--CTAATTAAAAT-ATATCTATTCAATTATTTCT
* * *
35906151 ATTATTTATACTTTAAATTGATATTT-TAATTAAAATCTATCTATTCAATTAATTT-T
1 -TAATTTAAACTTTAAATTGATATTTCTAATTAAAATATATCTATTCAATT-ATTTCT
35906207 TAATTTAAACTTTAA
1 TAATTTAAACTTTAA
35906222 TTATTTACTT
Statistics
Matches: 226, Mismatches: 52, Indels: 54
0.68 0.16 0.16
Matches are distributed among these distances:
53 2 0.01
54 3 0.01
55 56 0.25
56 15 0.07
57 61 0.27
58 30 0.13
59 11 0.05
61 4 0.02
62 2 0.01
63 8 0.04
64 34 0.15
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (56 bp):
TAATTTAAACTTTAAATTGATATTTCTAATTAAAATATATCTATTCAATTATTTCT
Found at i:35906101 original size:112 final size:111
Alignment explanation
Indices: 35905886--35906102 Score: 235
Period size: 112 Copynumber: 1.9 Consensus size: 111
35905876 TTAGTTATTA
* *
35905886 TTTAATTAAAATCTACCTATTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTTCCTTTTTA
1 TTTAATTAAAATATACCTATTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTTCATTTTTA
* * ** *
35905951 TTTAAAATCTATTCAATTGTTTCATTATTTATACTTTAAATTGATAT
66 ATTAAAATCTATT-AATTATTAAATTATTTATAATTTAAATTGATAT
* * * * *
35905998 TTTAATTAAAATATATCTATTCAATTAATTT-TTAATTTAAACTTTAATTATTTACTTTTTATTT
1 TTTAATTAAAATATACCTATTAAATT-ATTTCTTAATTTAAAATTTAATTAATT--TTTTCATTT
*
35906062 TGTAATTAAAATCTA-T-A-TATTAAATTATTTCTTAATTTAAA
63 T-TAATTAAAATCTATTAATTATTAAATTATTT-ATAATTTAAA
35906103 ATTTAATTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
111 10 0.11
112 52 0.60
113 4 0.05
114 9 0.10
115 12 0.14
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.54
Consensus pattern (111 bp):
TTTAATTAAAATATACCTATTAAATTATTTCTTAATTTAAAATTTAATTAATTTTTTCATTTTTA
ATTAAAATCTATTAATTATTAAATTATTTATAATTTAAATTGATAT
Done.