Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008314.1 Hibiscus syriacus cultivar Beakdansim tig00111008_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2414839
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:687987 original size:24 final size:24
Alignment explanation
Indices: 687942--687986 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
687932 ATATATATAT
*
687942 ATATATTAAATGTTTTCAAAAATC
1 ATATATTAAATGTTTCCAAAAATC
*
687966 ATATA-TATATGTTTCCAAAAA
1 ATATATTAAATGTTTCCAAAAA
687987 AGTTTTCCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATATTAAATGTTTCCAAAAATC
Found at i:688043 original size:38 final size:37
Alignment explanation
Indices: 687953--688066 Score: 110
Period size: 37 Copynumber: 3.0 Consensus size: 37
687943 TATATTAAAT
*
687953 GTTTTCAAAA-ATCATAT-ATATATGTTTCCAAAAA-A
1 GTTTTCAAAATAT-ATATAATATATGTTTTCAAAAACA
* *
687988 GTTTTCCAAAA-ATTATATAATATATATTTTCAAAAACC
1 GTTTT-CAAAATA-TATATAATATATGTTTTCAAAAACA
688026 GTTTTCAAAATTATATATATATTATATGTATTTCAAAAACA
1 GTTTTCAAAA-TATATATA-A-TATATGT-TTTCAAAAACA
688067 TTCGCAAACT
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
35 5 0.08
36 10 0.15
37 21 0.32
38 11 0.17
39 2 0.03
40 6 0.09
41 10 0.15
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (37 bp):
GTTTTCAAAATATATATAATATATGTTTTCAAAAACA
Found at i:688950 original size:84 final size:82
Alignment explanation
Indices: 688740--689357 Score: 671
Period size: 84 Copynumber: 7.5 Consensus size: 82
688730 AAGGTCTTTA
* * *
688740 GCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
* *
688805 ACTCGAAGGTCTTTGGTC
65 ACTCGAAGGTCTTTGTTG
* * * * *
688823 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGA
*
688888 ACTCAAAGGTCTTTTGTTG
65 ACTCGAAGGTC-TTTGTTG
* * * *
688907 GCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCG
**
688972 AACTCGGGGGTC--T-TTG
64 AACTCGAAGGTCTTTGTTG
* *
688988 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
689053 ACTCGAAGGTC-TT-TTG
65 ACTCGAAGGTCTTTGTTG
* * * *
689069 GTCATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGT
1 G-C--AGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGT
*
689134 CGAACTCAAAGGTCTTTTGTTG
62 CGAACTCGAAGGTC-TTTGTTG
* * ** *
689156 GCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAATGTAATCG
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCG
**
689221 AACTCGGGGGTC--T-TTG
64 AACTCGAAGGTCTTTGTTG
* * *
689237 GCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGA
689302 ACTCGAAGGTC-TT-TTG
65 ACTCGAAGGTCTTTGTTG
* * * *
689318 GTCATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAAT
1 G-C--AGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
689358 AGTTTGTTTA
Statistics
Matches: 449, Mismatches: 66, Indels: 39
0.81 0.12 0.07
Matches are distributed among these distances:
80 51 0.11
81 97 0.22
82 4 0.01
83 65 0.14
84 176 0.39
85 49 0.11
86 3 0.01
87 4 0.01
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (82 bp):
GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAA
CTCGAAGGTCTTTGTTG
Found at i:689046 original size:165 final size:160
Alignment explanation
Indices: 688721--689357 Score: 702
Period size: 165 Copynumber: 3.9 Consensus size: 160
688711 TTGAATATAA
* *
688721 TCGAACTCAAAGGTCTTTAGCAGATAACCCTTCTTGACTTAAGCTATGCTGCAAATGATGTGCCT
1 TCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * * *
688786 TGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTAT
66 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG---CAGATAACCCTTCTCGACTTAAGTTAT
*
688851 GCTGTAAATGATGTGCCGTT-GAGCTGAGCGTAG
128 GCTGCAAATGATGTGCC-TTGGAGCTGAGCGTAG
* *
688884 TCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCAAAGGTC---T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* * * * ** * *
688949 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
62 G-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTT
689014 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
126 ATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * * * *
689049 TCGAACTCGAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCAAAGGTC-TTTGG-C--AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
* *
689114 GCCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTCGACTTA
62 GCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTC---T-TTGGCAGATAACCCTTCTCGACTTA
* * ** *
689178 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAATGTAA
122 AGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAG
*** * *
689218 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
1 TCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
* * *
689283 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTA
66 TGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGG-C--AGATAACCCTTCTCGACTTAAGTTA
*
689348 TGCTGTAAAT
127 TGCTGCAAAT
689358 AGTTTGTTTA
Statistics
Matches: 402, Mismatches: 53, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
162 8 0.02
163 21 0.05
164 28 0.07
165 195 0.49
166 1 0.00
167 44 0.11
168 79 0.20
169 26 0.06
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (160 bp):
TCGAACTCAAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAACCCTTCTCGACTTAAGTTATGCT
GCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:689124 original size:249 final size:249
Alignment explanation
Indices: 688703--689357 Score: 1186
Period size: 249 Copynumber: 2.6 Consensus size: 249
688693 GCTTGATTTG
* * * *** * * *
688703 CCTCTAAGTTGAATATAATCGAACTCAAAGGTCTTTAGCAGATAACCCTTCTTGACTTAAGCTAT
1 CCTCGAAGCTGAATGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
688768 GCTGCAAATGATGTGCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTC-TTTGGTCACAGATAAC
66 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
688832 CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGG
131 CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGG
688897 TCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
196 TCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
*
688951 CCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
689016 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
66 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
689081 CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGG
131 CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGG
689146 TCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
196 TCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
689200 CCTCGAAGCTGAATGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
1 CCTCGAAGCTGAATGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
*
689265 GCTACAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
66 GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
689330 CCTTCTAGCCTTGAGTTATGCTGTAAAT
131 CCTTCTAGCCTTGAGTTATGCTGTAAAT
689358 AGTTTGTTTA
Statistics
Matches: 392, Mismatches: 14, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
248 102 0.26
249 290 0.74
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (249 bp):
CCTCGAAGCTGAATGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
GCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCATAGATAAC
CCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCGTTGAGCTGAGCGTAGTCGAACTCAAAGG
TCTTTTGTTGGCAGACAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGC
Found at i:692275 original size:17 final size:14
Alignment explanation
Indices: 692241--692277 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
692231 TTTTCCTCCA
692241 TCTTCTTCGCTTTG
1 TCTTCTTCGCTTTG
692255 TCTTCTTCGCTTTG
1 TCTTCTTCGCTTTG
*
692269 TCCTCTTCG
1 TCTTCTTCG
692278 TCCAAATCCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.14, T:0.54
Consensus pattern (14 bp):
TCTTCTTCGCTTTG
Found at i:692757 original size:19 final size:19
Alignment explanation
Indices: 692733--692778 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
692723 AGTTAATGTG
692733 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
692752 AATGCAAAGAAAATAACGA
1 AATGCAAAGAAAATAACAA
692771 AATGCAAA
1 AATGCAAA
692779 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:693418 original size:17 final size:17
Alignment explanation
Indices: 693392--693424 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
693382 TGCAAACGAT
*
693392 GAACACAAAATAAAAGA
1 GAACAAAAAATAAAAGA
693409 GAACAAAAAATAAAAG
1 GAACAAAAAATAAAAG
693425 GGTTAGTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.12, T:0.06
Consensus pattern (17 bp):
GAACAAAAAATAAAAGA
Found at i:694554 original size:32 final size:31
Alignment explanation
Indices: 694486--694562 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 31
694476 AACAAAATGC
694486 TAATAAATAA-AAAATGAAAAAAGAAAAAAAA
1 TAAT-AATAATAAAATGAAAAAAGAAAAAAAA
*
694517 TAATAATAATAATAATGAAAGAAAGAATAAAAA
1 TAATAATAATAA-AATGAAA-AAAGAAAAAAAA
694550 -AATAATAATAAAA
1 TAATAATAATAAAA
694563 GGTTAAGTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
30 5 0.12
31 8 0.19
32 18 0.43
33 11 0.26
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.18
Consensus pattern (31 bp):
TAATAATAATAAAATGAAAAAAGAAAAAAAA
Found at i:695801 original size:21 final size:24
Alignment explanation
Indices: 695777--695827 Score: 63
Period size: 22 Copynumber: 2.2 Consensus size: 24
695767 AACAAAAAGA
695777 AATAAAT-AAATAAGAA-AA-AAT
1 AATAAATAAAATAAGAATAATAAT
* *
695798 AATAATTAAAATAATAATAATAAT
1 AATAAATAAAATAAGAATAATAAT
695822 AATAAA
1 AATAAA
695828 ATATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 6 0.25
22 8 0.33
23 2 0.08
24 8 0.33
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (24 bp):
AATAAATAAAATAAGAATAATAAT
Found at i:695810 original size:12 final size:11
Alignment explanation
Indices: 695784--695847 Score: 57
Period size: 10 Copynumber: 6.1 Consensus size: 11
695774 AGAAATAAAT
*
695784 AAATAAGAA-A
1 AAATAATAATA
695794 AAATAATAATTA
1 AAATAATAA-TA
695806 AAATAATAAT-
1 AAATAATAATA
695816 -AATAATAATA
1 AAATAATAATA
695826 AAAT-ATAA-A
1 AAATAATAATA
*
695835 ATATAATATATA
1 AAATAATA-ATA
695847 A
1 A
695848 TATATAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
9 13 0.29
10 15 0.33
11 5 0.11
12 12 0.27
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (11 bp):
AAATAATAATA
Found at i:695835 original size:7 final size:7
Alignment explanation
Indices: 695823--695856 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
695813 AATAATAATA
695823 ATAAAAT
1 ATAAAAT
695830 ATAAAAT
1 ATAAAAT
*
695837 ATAATAT
1 ATAAAAT
*
695844 ATAATAT
1 ATAAAAT
695851 ATAAAA
1 ATAAAA
695857 ATATTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATAAAAT
Found at i:695837 original size:21 final size:21
Alignment explanation
Indices: 695791--695856 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
695781 AATAAATAAG
695791 AAAA-AATAATAATTAAAATA-
1 AAAATAATAATAA-TAAAATAT
*
695811 ATAATAATAATAATAAAATAT
1 AAAATAATAATAATAAAATAT
*
695832 AAAAT-ATAATATATAATATAT
1 AAAATAATAATA-ATAAAATAT
695853 AAAA
1 AAAA
695857 ATATTTTCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 16 0.40
21 24 0.60
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAATAATAATAATAAAATAT
Found at i:695849 original size:12 final size:12
Alignment explanation
Indices: 695808--695851 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
695798 AATAATTAAA
695808 ATAATAATAATA-
1 ATAAT-ATAATAT
*
695820 ATAATAAAATAT
1 ATAATATAATAT
*
695832 AAAATATAATAT
1 ATAATATAATAT
695844 ATAATATA
1 ATAATATA
695852 TAAAAATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATATAATAT
Found at i:695886 original size:35 final size:35
Alignment explanation
Indices: 695832--695955 Score: 96
Period size: 34 Copynumber: 3.5 Consensus size: 35
695822 AATAAAATAT
695832 AAAATATA-ATATATAATATATAAAAATATTTTCAAA
1 AAAATATATATA-AT-ATATATAAAAATATTTTCAAA
695868 AAAA-ATTATATAATATATATTTTTAAAAATA-TTT-AAA
1 AAAATA-TATATAATATATA----TAAAAATATTTTCAAA
* * * *
695905 AAACTATATATTATATATTTAAAAATATTTTC-CA
1 AAAATATATATAATATATATAAAAATATTTTCAAA
* *
695939 AAATTATATATTATATA
1 AAAATATATATAATATA
695956 ATTTTCAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
33 8 0.11
34 20 0.27
35 6 0.08
36 8 0.11
37 20 0.27
38 4 0.05
39 8 0.11
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (35 bp):
AAAATATATATAATATATATAAAAATATTTTCAAA
Found at i:695906 original size:37 final size:37
Alignment explanation
Indices: 695835--695983 Score: 125
Period size: 35 Copynumber: 4.1 Consensus size: 37
695825 AAAATATAAA
*
695835 ATATAATATATAATATATAAAAATATTTTCAAAAAAAATT
1 ATATAATATATAATATTTAAAAATA-TTT--AAAAAAATT
* *
695875 ATATAATATAT-ATTTTTAAAAATATTT-AAAAAACT
1 ATATAATATATAATATTTAAAAATATTTAAAAAAATT
***
695910 ATAT-AT-TAT-ATATTTAAAAATATTTTCCAAAATT
1 ATATAATATATAATATTTAAAAATATTTAAAAAAATT
* * *
695944 ATATATTATATAAT-TTTCAAAAATGTTT--TAAAATT
1 ATATAATATATAATATTT-AAAAATATTTAAAAAAATT
695979 ATATA
1 ATATA
695984 TTACATGTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
33 18 0.19
34 11 0.12
35 23 0.24
36 6 0.06
37 11 0.12
38 3 0.03
39 11 0.12
40 11 0.12
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (37 bp):
ATATAATATATAATATTTAAAAATATTTAAAAAAATT
Found at i:695984 original size:35 final size:34
Alignment explanation
Indices: 695869--696197 Score: 248
Period size: 35 Copynumber: 9.5 Consensus size: 34
695859 ATTTTCAAAA
* * **
695869 AAAATTATATAATATATATTTTTAAAAATATTTAA
1 AAAATTATAT-ATATATATTTTCAAAAATGTTTTC
* *
695904 AAAACTATATAT-TATATATTT-AAAAATATTTTCC
1 AAAATTATATATATATAT-TTTCAAAAATGTTTT-C
695938 AAAATTATATATTATATAATTTTCAAAAATGTTTT-
1 AAAATTATATA-TATAT-ATTTTCAAAAATGTTTTC
* *
695973 AAAATTATATATTACATGTTTTCAAAAATGTTTT-
1 AAAATTATATA-TATATATTTTCAAAAATGTTTTC
* * * *
696007 ----TTTTAAATATATATTATTTAAAAATGATTTC
1 AAAATTATATATATATATT-TTCAAAAATGTTTTC
*
696038 AAAACTATA-ATATATATTTTC-AAAATGTTTTC
1 AAAATTATATATATATATTTTCAAAAATGTTTTC
*
696070 AAAAATTATATATAATATATATATAT-ATAAAATATTTTC
1 -AAAATTATATAT-ATATAT-T-T-TCA-AAAATGTTTTC
* *
696109 AAAAATCATATATATATATGTTTCCAAAAAAGTTTTCC
1 -AAAATTATATATATATAT-TTT-CAAAAATGTTTT-C
* * *
696147 AAAAATATATAAATATATTTTCAAAAACCGTTTTC
1 AAAATTATATATATATATTTTCAAAAA-TGTTTTC
696182 AAAATTATATATATAT
1 AAAATTATATATATAT
696198 TATATGTATT
Statistics
Matches: 241, Mismatches: 29, Indels: 48
0.76 0.09 0.15
Matches are distributed among these distances:
29 6 0.02
30 17 0.07
32 10 0.04
33 25 0.10
34 42 0.17
35 56 0.23
36 16 0.07
37 37 0.15
38 10 0.04
39 22 0.09
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.44
Consensus pattern (34 bp):
AAAATTATATATATATATTTTCAAAAATGTTTTC
Found at i:696113 original size:39 final size:37
Alignment explanation
Indices: 696043--696172 Score: 135
Period size: 39 Copynumber: 3.5 Consensus size: 37
696033 ATTTCAAAAC
* *
696043 TATAATATATATTTTCAAAATGTTTTCAAAAATTATA
1 TATAATATATATTTTCAAAATATTTTCAAAAATCATA
696080 TATAATATATATATATAT-AAAATATTTTCAAAAATCATA
1 TATAATATATAT-T-T-TCAAAATATTTTCAAAAATCATA
* * * *
696119 TAT-ATATATGTTTCCAAAAAAGTTTTCCAAAA--ATA
1 TATAATATATATTTTCAAAATA-TTTTCAAAAATCATA
696154 TATAA-ATATATTTTCAAAA
1 TATAATATATATTTTCAAAA
696173 ACCGTTTTCA
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
35 18 0.23
36 7 0.09
37 22 0.28
38 8 0.10
39 23 0.29
40 1 0.01
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (37 bp):
TATAATATATATTTTCAAAATATTTTCAAAAATCATA
Found at i:696121 original size:41 final size:37
Alignment explanation
Indices: 696043--696213 Score: 140
Period size: 37 Copynumber: 4.5 Consensus size: 37
696033 ATTTCAAAAC
*
696043 TATAATATATATTTTCAAAATGTTTTCAAAAATTATA
1 TATAATATATATTTTCAAAATATTTTCAAAAATTATA
*
696080 TATAATATATATATATAT-AAAATATTTTCAAAAATCATA
1 TATAATATATAT-T-T-TCAAAATATTTTCAAAAATTATA
* * * *
696119 TAT-ATATATGTTTCCAAAAAAGTTTTCCAAAA--ATA
1 TATAATATATATTTTCAAAATA-TTTTCAAAAATTATA
696154 TATAA-ATATATTTTCAAAA-ACCGTTTTC-AAAATTATA
1 TATAATATATATTTTCAAAATA---TTTTCAAAAATTATA
*
696191 TATATATTATATGTATTTCAAAA
1 TATA-A-TATATAT-TTTCAAAA
696214 ACATTCGCAA
Statistics
Matches: 111, Mismatches: 9, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
34 1 0.01
35 22 0.20
36 13 0.12
37 29 0.26
38 9 0.08
39 23 0.21
40 6 0.05
41 8 0.07
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (37 bp):
TATAATATATATTTTCAAAATATTTTCAAAAATTATA
Found at i:696132 original size:24 final size:25
Alignment explanation
Indices: 696092--696138 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
696082 TAATATATAT
696092 ATATATAAAATATTTT-CAAAAATC
1 ATATATAAAATATTTTCCAAAAATC
*
696116 ATATAT-ATATATGTTTCCAAAAA
1 ATATATAAAATAT-TTTCCAAAAA
696139 AGTTTTCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 9 0.45
25 6 0.30
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATATAAAATATTTTCCAAAAATC
Found at i:696194 original size:39 final size:38
Alignment explanation
Indices: 696043--696214 Score: 119
Period size: 39 Copynumber: 4.5 Consensus size: 38
696033 ATTTCAAAAC
*
696043 TATAATATATATTTTCAAAATGTTTTCAAAAATTATATA
1 TATAA-ATATATTTTCAAAAAGTTTTCAAAAATTATATA
* * *
696082 TAATATATATATATAT-AAAATA-TTTTCAAAAATCATATA
1 T-ATAAATATAT-TTTCAAAA-AGTTTTCAAAAATTATATA
* * *
696121 TAT--ATATGTTTCCAAAAAAGTTTTC-CAAA--A-ATA
1 TATAAATATATTTTC-AAAAAGTTTTCAAAAATTATATA
696154 TATAAATATATTTTCAAAAACCGTTTTC-AAAATTATATA
1 TATAAATATATTTTCAAAAA--GTTTTCAAAAATTATATA
* *
696193 TATATTATATGTATTTCAAAAA
1 TATA-AATATAT-TTTCAAAAA
696215 CATTCGCAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
33 6 0.06
34 6 0.06
35 9 0.09
36 18 0.17
37 9 0.09
38 3 0.03
39 35 0.33
40 10 0.10
41 9 0.09
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (38 bp):
TATAAATATATTTTCAAAAAGTTTTCAAAAATTATATA
Found at i:696925 original size:20 final size:20
Alignment explanation
Indices: 696902--696959 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
696892 ATTATTTTTT
696902 ATATTAATATATTTATGT-AA
1 ATATTAATATATTTAT-TAAA
* * *
696922 ATATTATTTTTTTTATTAAA
1 ATATTAATATATTTATTAAA
*
696942 ATATTTATATAATTTATT
1 ATATTAATAT-ATTTATT
696960 TATTTAGAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 1 0.03
20 22 0.76
21 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTAATATATTTATTAAA
Found at i:696963 original size:34 final size:32
Alignment explanation
Indices: 696881--696964 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
696871 TTAGTATTTT
* *
696881 TTTAAATAATTATTATTTTTTATATTAATATA
1 TTTATATAATTATTATTTTTTATATTAAAATA
* * *
696913 TTTATGTAAATATTATTTTTTTTATTAAAATA
1 TTTATATAATTATTATTTTTTATATTAAAATA
696945 TTTATATAATTTATTTATTT
1 TTTATATAA-TTA-TTATTT
696965 AGAATTATTA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 35 0.81
33 2 0.05
34 6 0.14
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TTTATATAATTATTATTTTTTATATTAAAATA
Found at i:697741 original size:126 final size:126
Alignment explanation
Indices: 697516--698040 Score: 1025
Period size: 126 Copynumber: 4.2 Consensus size: 126
697506 TAATGGAGCT
697516 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
1 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
697581 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
66 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
*
697642 GCGCCTTCATGTGAATAGTGAAATAATAGGTATTGATATATCTAGTGTCCCCGAGGGACATGAGT
1 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
697707 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
66 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
697768 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
1 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
697833 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
66 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
*
697894 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA-GGACATGAAT
1 GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
697958 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
66 GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
698019 GCGCCTTCATGTGAATAGTGAA
1 GCGCCTTCATGTGAATAGTGAA
698041 CCGATTATAG
Statistics
Matches: 396, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
125 92 0.23
126 304 0.77
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (126 bp):
GCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGAGGGACATGAGT
GACATAATAGGGCAATGATAATATTCTCTGACGAAATAATGGAAGGCGCGCCCCCGGGAAC
Found at i:698121 original size:8 final size:8
Alignment explanation
Indices: 698108--698148 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
698098 TCACAATCTT
698108 TCAAATTC
1 TCAAATTC
698116 TCAAATTC
1 TCAAATTC
* *
698124 CCAAACTC
1 TCAAATTC
698132 T-AAATTC
1 TCAAATTC
698139 TCAAATTC
1 TCAAATTC
698147 TC
1 TC
698149 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Found at i:711840 original size:224 final size:221
Alignment explanation
Indices: 711484--711909 Score: 739
Period size: 224 Copynumber: 1.9 Consensus size: 221
711474 GAACCTCCAT
711484 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCGAAATAATAAAAAAAATATTTTT
1 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCGAAATAATAAAAAAAATATTTTT
* *
711549 ATTCAATAAAAACATTGACTTAATTGAAAAATATATATATAGGGGTATTATTGTAATTATTCCTA
66 ATTCAATAAAAACAGTGACTTAATTGAAAAAAATATATATAGGGGTATTATTGTAATTATTCCTA
711614 AATATATAAGGTAAAATTATATAT-TTTTCGGGTC-GGTATTTTTCACCCTAAACCCAAACCCGA
131 AATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGA
711677 CCCGACCTAAATAAAGTTTCACCGAC
196 CCCGACCTAAATAAAGTTTCACCGAC
*
711703 CCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAAATTATTT
1 CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA-CCGAAATAATAAAAAAAA-TATTT
711768 TTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTAT
64 TTATTCAATAAAAACAGTGACTTAATTGAAAAAAA-TATATATAG--GGGTATTATTGTAATTAT
* *
711833 TCCTAAATATATAAGGTAAACTTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAA
126 TCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCAAA
*
711898 CTCGACCCGACC
191 CCCGACCCGACC
711910 CGAATATCAC
Statistics
Matches: 194, Mismatches: 6, Indels: 7
0.94 0.03 0.03
Matches are distributed among these distances:
219 39 0.20
220 18 0.09
221 38 0.20
222 9 0.05
224 46 0.24
225 10 0.05
226 34 0.18
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (221 bp):
CCGACCCGACCCGAATATATGAATTAGAAACCCGACCCGACCGAAATAATAAAAAAAATATTTTT
ATTCAATAAAAACAGTGACTTAATTGAAAAAAATATATATAGGGGTATTATTGTAATTATTCCTA
AATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCAAACCCGA
CCCGACCTAAATAAAGTTTCACCGAC
Found at i:712183 original size:259 final size:255
Alignment explanation
Indices: 711704--712291 Score: 972
Period size: 260 Copynumber: 2.3 Consensus size: 255
711694 TTCACCGACC
* *
711704 CGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCGAAATAATAAAAAAAATTATTTT
1 CGACCCGACCCGAATATATGAATTAGAAACCCAACCCGACCCGAAATAAT-AAAAAAATTATTTT
711769 TATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTATT
65 TATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTATT
* *
711834 CCTAAATATATAAGGTAAACTTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAAC
130 CATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAAC
711899 TCGACCCGACCCGAATATCACACTTAAAAAAA-CGACCCGACCCGACCAAAATAAAGTTT-
195 TCGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTA
711958 C-ACCCGACCCGAATATATGAATTAGAAACCCAACCCGACCCGAAATAATAAAAAAATTATTTTT
1 CGACCCGACCCGAATATATGAATTAGAAACCCAACCCGACCCGAAATAATAAAAAAATTATTTTT
*
712022 ATTCAATAAAAACAGTGACTTAATTGAAAAAAATATATATATATATATATATAGGGTATTATTGT
66 ATTCAATAAAAACAGTGACTTAATTG---AAAA-A-A-AT-TATATATAGA-AGGGTATTATTGT
712087 AATTATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTC-GGTATTTTTCACCCTAAA
123 AATTATTCATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAA
*
712151 CCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCGACTCGACCCGACCAAAATAAAGT
188 CCCGAACTCGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGT
712216 TTCA
253 TT-A
*
712220 CTGACCCGACCCGAATATATGAATTAGAAACTCAACCCGACCCGAAATAAT-AAAAAA-TATTTT
1 C-GACCCGACCCGAATATATGAATTAGAAACCCAACCCGACCCGAAATAATAAAAAAATTATTTT
712283 TATTCAATA
65 TATTCAATA
712292 TATAAATAAG
Statistics
Matches: 314, Mismatches: 7, Indels: 18
0.93 0.02 0.05
Matches are distributed among these distances:
252 41 0.13
253 46 0.15
254 1 0.00
255 4 0.01
256 1 0.00
257 1 0.00
258 2 0.01
259 66 0.21
260 83 0.26
262 16 0.05
263 6 0.02
264 47 0.15
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.27
Consensus pattern (255 bp):
CGACCCGACCCGAATATATGAATTAGAAACCCAACCCGACCCGAAATAATAAAAAAATTATTTTT
ATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATATAGAAGGGTATTATTGTAATTATTC
ATAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGTATTTTTCACCCTAAACCCGAACT
CGACCCGACCCGAATATCACACTTAAAAAAACCGACCCGACCCGACCAAAATAAAGTTTA
Found at i:713118 original size:28 final size:28
Alignment explanation
Indices: 713082--713149 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
713072 CCTAAACCCG
* *
713082 AACCTGACCCGAATATCACATTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
713110 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
713138 AACCCGACCCGA
1 AACCCGACCCGA
713150 CTCGACCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.44, C:0.32, G:0.09, T:0.15
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:713184 original size:37 final size:38
Alignment explanation
Indices: 713114--713187 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
713104 TAAAAAAACC
713114 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
713152 CGACCCGAATATCACACTT-AAAAAACCCGACCCGAC
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGAC
713188 CCGAACAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 17 0.47
38 19 0.53
ACGTcount: A:0.39, C:0.38, G:0.11, T:0.12
Consensus pattern (38 bp):
CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
Found at i:714185 original size:2 final size:2
Alignment explanation
Indices: 714178--714235 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
714168 TAGGAACGCA
714178 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
714220 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
714236 TAAAATTGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:714532 original size:15 final size:15
Alignment explanation
Indices: 714512--714614 Score: 109
Period size: 15 Copynumber: 6.5 Consensus size: 15
714502 TAATAAGGTT
714512 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
714527 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
714542 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
* *
714557 AATTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
714576 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
714594 ATTTA-TTTAAAATA
1 ATTTATTTTAAAATA
714608 ATTTATT
1 ATTTATT
714615 AGTATGGATT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
14 14 0.19
15 41 0.55
16 3 0.04
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 6 0.08
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:714653 original size:69 final size:66
Alignment explanation
Indices: 714512--714668 Score: 208
Period size: 69 Copynumber: 2.3 Consensus size: 66
714502 TAATAAGGTT
*
714512 ATTTATTTTAAAATAATTTATTTTAAAATAATTTATTATAAAATAAATTATTATAAAATATGGAT
1 ATTTATTTTAAAATAATTTA-TTTAAAATAATTTATTATAAAATAAATTATTATAAAACATGGAT
714577 TG
65 TG
* * * * * *
714579 ATTTATTTTAAAATAATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAACGTGG
1 ATTTATTTTAAAATAATTTATTTAAAATAATTTATTA-TA--AAATAAATTATTATAAAACATGG
714644 ATTG
63 ATTG
714648 ATTTATTTT-AAATAATTTATT
1 ATTTATTTTAAAATAATTTATT
714669 AGTATGGATT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
66 17 0.21
67 22 0.28
68 12 0.15
69 29 0.36
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (66 bp):
ATTTATTTTAAAATAATTTATTTAAAATAATTTATTATAAAATAAATTATTATAAAACATGGATT
G
Found at i:714661 original size:54 final size:54
Alignment explanation
Indices: 714594--714799 Score: 376
Period size: 54 Copynumber: 3.8 Consensus size: 54
714584 TTTTAAAATA
* **
714594 ATTTATTTAAAATAATTTATTAGTATGGATTGATTTATTTTAAAACGTGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
714648 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
714702 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
714756 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
714800 TAATTTATTA
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 148 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.51
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:714696 original size:22 final size:22
Alignment explanation
Indices: 714671--714713 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
714661 AATTTATTAG
714671 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
714693 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
714714 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:714731 original size:86 final size:85
Alignment explanation
Indices: 714641--714997 Score: 270
Period size: 86 Copynumber: 4.3 Consensus size: 85
714631 TTTTAAAACG
714641 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
*
714706 ATTTTAAATAATTTATTAGTA
66 A-TTTAAATAATTTATTAATA
** ** * ** * * * *
714727 TGGATTGATTTATTTTAAA-ATATGGATT-G-ATTTATTTTAAATAATTTATTAGTATGAATTGA
1 TGGATTGATTTATTTTAAATA-ATTTATTAGTATGGA-TTGATTTATTTTA-AAATATGGATTGA
714789 TTTATTTTAAATAATTTATTAATA
63 TTTA-TTTAAATAATTTATTAATA
**
714813 TGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTATTTT-AAATAATTTATTTGTA
1 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAAT-ATGGA-TTG-A
** * ** * *
714867 TGGATTGATTTATTTTA-AAATA
63 TTTATTTAAATAATTTATTAATA
*
714889 TGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTT
1 TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
* *
714954 A-TT--AT--TGTAGTT-GTA
66 ATTTAAATAATTTA-TTAATA
714969 TGGATTGATTTATTTTAAATAATTTATTA
1 TGGATTGATTTATTTTAAATAATTTATTA
714998 TTGTAGTTGT
Statistics
Matches: 209, Mismatches: 40, Indels: 50
0.70 0.13 0.17
Matches are distributed among these distances:
75 2 0.01
76 19 0.09
77 23 0.11
78 6 0.03
79 4 0.02
80 33 0.16
81 1 0.00
82 1 0.00
83 3 0.01
84 6 0.03
85 17 0.08
86 90 0.43
87 4 0.02
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (85 bp):
TGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTT
ATTTAAATAATTTATTAATA
Found at i:714750 original size:22 final size:22
Alignment explanation
Indices: 714725--714767 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
714715 AATTTATTAG
714725 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
714747 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
714768 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:714775 original size:14 final size:14
Alignment explanation
Indices: 714756--714808 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
714746 ATATGGATTG
714756 ATTTATTTTAAATA
1 ATTTATTTTAAATA
* *
714770 ATTTATTAGTATGAATTG
1 ATTTATT--T-T-AAATA
714788 ATTTATTTTAAATA
1 ATTTATTTTAAATA
714802 ATTTATT
1 ATTTATT
714809 AATATGGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 17 0.55
15 1 0.03
16 2 0.06
17 1 0.03
18 10 0.32
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
ATTTATTTTAAATA
Found at i:714788 original size:140 final size:140
Alignment explanation
Indices: 714644--714939 Score: 556
Period size: 140 Copynumber: 2.1 Consensus size: 140
714634 TAAAACGTGG
*
714644 ATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATT
714709 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
66 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
714774 ATTAGTATGA
131 ATTAGTATGA
714784 ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATT
1 ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATT
*
714849 TTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
66 TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
* *
714914 ATTTGTATGG
131 ATTAGTATGA
714924 ATTGATTTATTTTAAA
1 ATTGATTTATTTTAAA
714940 ATATGGATTG
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 152 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (140 bp):
ATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAATATGGATTGATTTATT
TTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTT
ATTAGTATGA
Found at i:714834 original size:22 final size:22
Alignment explanation
Indices: 714809--714853 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
714799 ATAATTTATT
714809 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
714831 AATATGGATTGATTTATTTTAA
1 AATATGGATTGATTTATTTTAA
714853 A
1 A
714854 TAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (22 bp):
AATATGGATTGATTTATTTTAA
Found at i:714837 original size:108 final size:108
Alignment explanation
Indices: 714617--714997 Score: 391
Period size: 108 Copynumber: 3.5 Consensus size: 108
714607 AATTTATTAG
**
714617 TATGGATTGATTTATTTTAAAACGTGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
* * ** * * *
714682 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AG
66 TTATTTT-AAATA---ATTTATTTATATGGATTGATTTATTTTAAAA
*
714725 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
*
714790 TTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAA
66 TTATTTTAAATAATTTATTTATATGGATTGATTTATTTTAAAA
* * * ** * * *
714833 TATGGATTGATTTATTTT-AAATA---ATTTATTTGTATGGATTGATTTATTTTAAAATATGGAT
1 TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTA--TT--AGTATGGAT
*
714894 TGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
62 TGATTTATTTTAAATAATTTATTTATATGGATTGATTTATTTTAAAA
***
714941 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTA
1 TATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTATTTTAAATAATTTATTA
714998 TTGTAGTTGT
Statistics
Matches: 225, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
104 32 0.14
106 4 0.02
107 10 0.04
108 154 0.68
109 1 0.00
110 2 0.01
111 1 0.00
112 1 0.00
113 2 0.01
114 2 0.01
116 16 0.07
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.52
Consensus pattern (108 bp):
TATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGAT
TTATTTTAAATAATTTATTTATATGGATTGATTTATTTTAAAA
Found at i:714842 original size:54 final size:54
Alignment explanation
Indices: 714779--714987 Score: 331
Period size: 54 Copynumber: 4.0 Consensus size: 54
714769 AATTTATTAG
* **
714779 TATGAATTGATTTATTTTAAATAATTTATTAATATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
714833 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
714887 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
* *
714941 TATGGATTGATTTA--TT--AT--TGTAGTTGTATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAA
714988 TAATTTATTA
Statistics
Matches: 150, Mismatches: 5, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
48 27 0.18
50 2 0.01
52 2 0.01
54 119 0.79
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (54 bp):
TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAA
Found at i:714890 original size:22 final size:22
Alignment explanation
Indices: 714865--714907 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
714855 AATTTATTTG
714865 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
714887 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
714908 TAATTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:715046 original size:31 final size:31
Alignment explanation
Indices: 715011--715070 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
715001 TAGTTGTATG
* *
715011 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
715042 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
715071 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:715603 original size:2 final size:2
Alignment explanation
Indices: 715592--715627 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
715582 ATTTTCTAAT
715592 TA TA -A TA TA TA TA TA TA TA 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 TA T
715628 GAATAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:715896 original size:2 final size:2
Alignment explanation
Indices: 715889--715946 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
715879 AGAAATCTGA
715889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
715931 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
715947 TTTCGAAGAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:727913 original size:21 final size:22
Alignment explanation
Indices: 727869--727915 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
727859 GATTTTTTTT
*
727869 TTTTTTTTTAATTATTATATAA
1 TTTTTTTTTAATTATTATAAAA
727891 TTTTTTTTTACATT-TT-TAAAA
1 TTTTTTTTTA-ATTATTATAAAA
727912 TTTT
1 TTTT
727916 ATAAATTCGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 12 0.52
23 3 0.13
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTAATTATTATAAAA
Found at i:734749 original size:7 final size:7
Alignment explanation
Indices: 734737--734761 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
734727 AGAGTGATTT
734737 TGAGTAG
1 TGAGTAG
734744 TGAGTAG
1 TGAGTAG
734751 TGAGTAG
1 TGAGTAG
734758 TGAG
1 TGAG
734762 GTGGCGGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (7 bp):
TGAGTAG
Found at i:735477 original size:20 final size:20
Alignment explanation
Indices: 735454--735491 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
735444 CGAGTTGCGA
*
735454 ATTTTGTTTTCGCAACGCGT
1 ATTTCGTTTTCGCAACGCGT
735474 ATTTCGTTTTCGCAACGC
1 ATTTCGTTTTCGCAACGC
735492 TAATTACCTA
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:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTTCGTTTTCGCAACGCGT
Found at i:735494 original size:83 final size:83
Alignment explanation
Indices: 735380--735540 Score: 277
Period size: 83 Copynumber: 1.9 Consensus size: 83
735370 TTCTCCAAAA
*
735380 TCGCAACGCGAATTTTATTTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAAATTC
1 TCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAAATTC
*
735445 GAGTTGCGAATTTTGTTT
66 GAGTTACGAATTTTGTTT
* * *
735463 TCGCAACGCGTATTTCGTTTTCGCAACGCTAATTACCTATATCGGTAATTGGCGTTGCGAAATTC
1 TCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAAATTC
735528 GAGTTACGAATTT
66 GAGTTACGAATTT
735541 GGAGAATTCG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (83 bp):
TCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCTATATCGGTAATTAGCGTTGCGAAATTC
GAGTTACGAATTTTGTTT
Found at i:735616 original size:21 final size:21
Alignment explanation
Indices: 735590--735640 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
735580 TTAACTATTT
735590 GCAACGCGATTCTCCAAAATC
1 GCAACGCGATTCTCCAAAATC
735611 GCAACGCGATTCTCCAAAATC
1 GCAACGCGATTCTCCAAAATC
735632 GCAACGCGA
1 GCAACGCGA
735641 ATTTCATTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (21 bp):
GCAACGCGATTCTCCAAAATC
Found at i:735767 original size:90 final size:90
Alignment explanation
Indices: 735609--735781 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 90
735599 TTCTCCAAAA
*
735609 TCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTTGCAACGCTAATTACCAAAATAG
1 TCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATAG
735674 GTAATTAGCGTTGCGAAAACGAAAT
66 GTAATTAGCGTTGCGAAAACGAAAT
** * *
735699 TCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTTGTTTTCGCAACGCTAATTACCAATATCG
1 TCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATAG
735764 GTAATTAGCGTTGCGAAA
66 GTAATTAGCGTTGCGAAA
735782 TTTGAGTTGC
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 78 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (90 bp):
TCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATAG
GTAATTAGCGTTGCGAAAACGAAAT
Found at i:735814 original size:257 final size:250
Alignment explanation
Indices: 735358--735845 Score: 699
Period size: 257 Copynumber: 1.9 Consensus size: 250
735348 AAACAGTACT
* * * *
735358 ATCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTTATTTTCGCAACGCTAATTACCTATATC
1 ATCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATA
* * ***** *
735423 GGTAATTAGCGTTGCGAAATTCGAGTTGCGAATTTTGTTTTCGCAACGCGTATTTCGTTTTCGCA
66 GGTAATTAGCGTTGCGAAATACGAATTGCGAATTTCAAAATCGCAACGCGAATTTCGTTTTCGCA
* * *
735488 ACGCTAATTACCTATATCGGTAATTGGCGTTGCGAAATTCGAGTTACGAATTTGGAGAATTCGCG
131 ACGCTAATTACCAATATCGGTAATTAGCGTTGCGAAATTCGAGTTACGAATTTGGAGAATTCACG
*
735553 TTGCGATTTACATATTATCGTTGCGATTTAACTATTTGCAACGCGATTCTCCAAA
196 TTGCGATATACATATTATCGTTGCGATTTAACTATTTGCAACGCGATTCTCCAAA
*
735608 ATCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTTGCAACGCTAATTACCAAAATA
1 ATCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATA
* *
735673 GGTAATTAGCGTTGCGAAA-ACGAAATTCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTTG
66 GGTAATTAGCGTTGCGAAATACG-AATT-G---CG-AATT-T-CAAAATCGCAACGCGAATTTCG
* *
735737 TTTTCGCAACGCTAATTACCAATATCGGTAATTAGCGTTGCGAAATTTGAGTTGCGAATTTGGAG
123 TTTTCGCAACGCTAATTACCAATATCGGTAATTAGCGTTGCGAAATTCGAGTTACGAATTTGGAG
*
735802 AATTCACGTTGCGATATACATATTATCGTTGCGATTTACCTATT
188 AATTCACGTTGCGATATACATATTATCGTTGCGATTTAACTATT
735846 CGCGTTGCGA
Statistics
Matches: 208, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
249 2 0.01
250 82 0.39
251 1 0.00
254 2 0.01
255 3 0.01
256 1 0.00
257 117 0.56
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (250 bp):
ATCGCAACGCGATTCTCCAAAATCGCAACGCGAATTTCATTTTCGCAACGCTAATTACCAAAATA
GGTAATTAGCGTTGCGAAATACGAATTGCGAATTTCAAAATCGCAACGCGAATTTCGTTTTCGCA
ACGCTAATTACCAATATCGGTAATTAGCGTTGCGAAATTCGAGTTACGAATTTGGAGAATTCACG
TTGCGATATACATATTATCGTTGCGATTTAACTATTTGCAACGCGATTCTCCAAA
Found at i:735833 original size:20 final size:20
Alignment explanation
Indices: 735808--735855 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
735798 GGAGAATTCA
*
735808 CGTTGCGATATACATATTAT
1 CGTTGCGATATACATATTAG
* * *
735828 CGTTGCGATTTACCTATTCG
1 CGTTGCGATATACATATTAG
735848 CGTTGCGA
1 CGTTGCGA
735856 AATTCGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
CGTTGCGATATACATATTAG
Found at i:735866 original size:14 final size:14
Alignment explanation
Indices: 735843--735873 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
735833 CGATTTACCT
*
735843 ATTCGCGTTGCGAA
1 ATTCGAGTTGCGAA
735857 ATTCGAGTTGCGAA
1 ATTCGAGTTGCGAA
735871 ATT
1 ATT
735874 GGAGAATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (14 bp):
ATTCGAGTTGCGAA
Found at i:735898 original size:76 final size:76
Alignment explanation
Indices: 735771--735932 Score: 252
Period size: 76 Copynumber: 2.1 Consensus size: 76
735761 TCGGTAATTA
* * *
735771 GCGTTGCGAAATTTGAGTTGCGAATTTGGAGAATTCACGTTGCGATATACATATTATCGTTGCGA
1 GCGTTGCGAAATTCGAGTTGCGAAATTGGAGAATTCACATTGCGATATACATATTATCGTTGCGA
735836 TTTACCTATTC
66 TTTACCTATTC
** * * *
735847 GCGTTGCGAAATTCGAGTTGCGAAATTGGAGAATTTGCATTGTGATTTACATATTATTGTTGCGA
1 GCGTTGCGAAATTCGAGTTGCGAAATTGGAGAATTCACATTGCGATATACATATTATCGTTGCGA
735912 TTTACCTATTC
66 TTTACCTATTC
735923 GCGTTGCGAA
1 GCGTTGCGAA
735933 TTACATATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (76 bp):
GCGTTGCGAAATTCGAGTTGCGAAATTGGAGAATTCACATTGCGATATACATATTATCGTTGCGA
TTTACCTATTC
Found at i:735915 original size:20 final size:20
Alignment explanation
Indices: 735890--735955 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
735880 TTTGCATTGT
*
735890 GATTTACATATTATTGTTGC
1 GATTTACATATTATCGTTGC
* **
735910 GATTTACCTATTCGCGTTGC
1 GATTTACATATTATCGTTGC
*
735930 GAATTACATATTATCGTTGC
1 GATTTACATATTATCGTTGC
735950 GATTTA
1 GATTTA
735956 ACTATTCGCG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (20 bp):
GATTTACATATTATCGTTGC
Found at i:735939 original size:40 final size:40
Alignment explanation
Indices: 735893--735974 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
735883 GCATTGTGAT
* *
735893 TTACATATTATTGTTGCGATTTACCTATTCGCGTTGCGAA
1 TTACATATTATCGTTGCGATTTAACTATTCGCGTTGCGAA
735933 TTACATATTATCGTTGCGATTTAACTATTCGCGTTGCGAA
1 TTACATATTATCGTTGCGATTTAACTATTCGCGTTGCGAA
735973 TT
1 TT
735975 TGACTTTCGC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (40 bp):
TTACATATTATCGTTGCGATTTAACTATTCGCGTTGCGAA
Found at i:735961 original size:20 final size:20
Alignment explanation
Indices: 735905--735994 Score: 103
Period size: 20 Copynumber: 4.5 Consensus size: 20
735895 ACATATTATT
*
735905 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTAACTATTCGC
* **
735925 GTTGCGAATT-ACATATTATC
1 GTTGCGATTTAAC-TATTCGC
735945 GTTGCGATTTAACTATTCGC
1 GTTGCGATTTAACTATTCGC
*
735965 GTTGCGAATTTGACT-TTCGC
1 GTTGCG-ATTTAACTATTCGC
735985 GTTGCGATTT
1 GTTGCGATTT
735995 TGGAACCTGT
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 5 0.08
20 45 0.76
21 9 0.15
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (20 bp):
GTTGCGATTTAACTATTCGC
Found at i:736028 original size:20 final size:20
Alignment explanation
Indices: 735960--736030 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
735950 GATTTAACTA
735960 TTCGCGTTGCGAATTTG-AC
1 TTCGCGTTGCGAATTTGAAC
*
735979 TTTCGCGTTGCGATTTTGGAAC
1 -TTCGCGTTGCGAATTT-GAAC
* * * *
736001 CT-GTGTTGCGAAATTGAAG
1 TTCGCGTTGCGAATTTGAAC
736020 TTCGCGTTGCG
1 TTCGCGTTGCG
736031 GACTTGTTGG
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 4 0.10
20 32 0.80
21 2 0.05
22 2 0.05
ACGTcount: A:0.15, C:0.18, G:0.30, T:0.37
Consensus pattern (20 bp):
TTCGCGTTGCGAATTTGAAC
Found at i:737705 original size:21 final size:20
Alignment explanation
Indices: 737681--737722 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
737671 GTCATGCAAC
*
737681 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
737702 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
737722 T
1 T
737723 TGTAAGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:757191 original size:170 final size:170
Alignment explanation
Indices: 756909--757241 Score: 666
Period size: 170 Copynumber: 2.0 Consensus size: 170
756899 GTATACAGAG
756909 ATAAGTTGAAATAATCTAAAGTAGGAAAATAAAGAGAATCTCCTTGAAACATGCAAAAGGGAGAA
1 ATAAGTTGAAATAATCTAAAGTAGGAAAATAAAGAGAATCTCCTTGAAACATGCAAAAGGGAGAA
756974 AGAGGAAAGATCCAAAATTTACCTAGCATGGTTAAATGCAACTGTACAGAAGATACTCTACAAAT
66 AGAGGAAAGATCCAAAATTTACCTAGCATGGTTAAATGCAACTGTACAGAAGATACTCTACAAAT
757039 TCACGCACAAACTTAGATATGCTAAACATAGAAGAGGAAA
131 TCACGCACAAACTTAGATATGCTAAACATAGAAGAGGAAA
757079 ATAAGTTGAAATAATCTAAAGTAGGAAAATAAAGAGAATCTCCTTGAAACATGCAAAAGGGAGAA
1 ATAAGTTGAAATAATCTAAAGTAGGAAAATAAAGAGAATCTCCTTGAAACATGCAAAAGGGAGAA
757144 AGAGGAAAGATCCAAAATTTACCTAGCATGGTTAAATGCAACTGTACAGAAGATACTCTACAAAT
66 AGAGGAAAGATCCAAAATTTACCTAGCATGGTTAAATGCAACTGTACAGAAGATACTCTACAAAT
757209 TCACGCACAAACTTAGATATGCTAAACATAGAA
131 TCACGCACAAACTTAGATATGCTAAACATAGAA
757242 AGGGTCAAAA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
170 163 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (170 bp):
ATAAGTTGAAATAATCTAAAGTAGGAAAATAAAGAGAATCTCCTTGAAACATGCAAAAGGGAGAA
AGAGGAAAGATCCAAAATTTACCTAGCATGGTTAAATGCAACTGTACAGAAGATACTCTACAAAT
TCACGCACAAACTTAGATATGCTAAACATAGAAGAGGAAA
Found at i:764528 original size:44 final size:44
Alignment explanation
Indices: 764480--764573 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
764470 TTTTCTATTC
* * * *
764480 TACTGTGAAGGTTTTTATGGCAGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
764524 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
764568 TACTGT
1 TACTGT
764574 TATTGGTGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (44 bp):
TACTGTAAAGGCTTTTATGCCAGGGGATGTTTTTAAGTTTTATG
Found at i:767388 original size:2 final size:2
Alignment explanation
Indices: 767375--767412 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
767365 TTTTACAAGC
767375 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
767413 TAGTATGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:773821 original size:3 final size:3
Alignment explanation
Indices: 773813--773936 Score: 189
Period size: 3 Copynumber: 40.3 Consensus size: 3
773803 CGGGTATTTT
773813 TTA TTA TTA TT- TATA TATA TTTA TTA TTTA TTA TTA TTA TTA TT- TATA
1 TTA TTA TTA TTA T-TA T-TA -TTA TTA -TTA TTA TTA TTA TTA TTA T-TA
773861 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
773909 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
773937 ATGTTTATTA
Statistics
Matches: 115, Mismatches: 0, Indels: 12
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.02
3 102 0.89
4 10 0.09
5 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:777729 original size:31 final size:32
Alignment explanation
Indices: 777693--777754 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
777683 ATTTTACATG
777693 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
777724 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
777755 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:780829 original size:22 final size:24
Alignment explanation
Indices: 780804--780857 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
780794 AAGTGCGAAG
*
780804 ATCAAAGCAAAA-A-CAAAGAAAA
1 ATCAAAGAAAAAGAGCAAAGAAAA
780826 ATCAAAGAAAAAGAGCAAAG-AAA
1 ATCAAAGAAAAAGAGCAAAGAAAA
*
780849 AGCAAAGAA
1 ATCAAAGAA
780858 CAAAAAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 11 0.39
23 12 0.43
24 5 0.18
ACGTcount: A:0.70, C:0.11, G:0.15, T:0.04
Consensus pattern (24 bp):
ATCAAAGAAAAAGAGCAAAGAAAA
Found at i:780852 original size:10 final size:11
Alignment explanation
Indices: 780806--780857 Score: 54
Period size: 11 Copynumber: 4.6 Consensus size: 11
780796 GTGCGAAGAT
780806 CAAAGCAAAAA-
1 CAAAG-AAAAAG
*
780817 CAAAGAAAAAT
1 CAAAGAAAAAG
780828 CAAAGAAAAAGAG
1 CAAAG-AAAA-AG
780841 CAAAG-AAAAG
1 CAAAGAAAAAG
780851 CAAAGAA
1 CAAAGAA
780858 CAAAAAGAGG
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
10 12 0.33
11 14 0.39
12 4 0.11
13 6 0.17
ACGTcount: A:0.71, C:0.12, G:0.15, T:0.02
Consensus pattern (11 bp):
CAAAGAAAAAG
Found at i:782514 original size:104 final size:104
Alignment explanation
Indices: 782382--782578 Score: 290
Period size: 104 Copynumber: 1.9 Consensus size: 104
782372 TTGAGACAAT
* *
782382 TTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTT
1 TTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTT
782447 GATTCAC-TTAAAACAAAATTAATCTCACCTAGATTGTTG
66 GATTCACATT-AAACAAAATTAATCTCACCTAGATTGTTG
* * *
782486 TTTCT-TTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATT
1 TTTCTCTT-AAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATT
* * *
782550 TGTTTCACATTAAACAAAGTTGATCTCAC
65 TGATTCACATTAAACAAAATTAATCTCAC
782579 TTGAGATCGT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
103 2 0.02
104 79 0.95
105 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.39
Consensus pattern (104 bp):
TTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTT
GATTCACATTAAACAAAATTAATCTCACCTAGATTGTTG
Found at i:782623 original size:30 final size:31
Alignment explanation
Indices: 782589--782651 Score: 74
Period size: 35 Copynumber: 1.9 Consensus size: 31
782579 TTGAGATCGT
*
782589 TTTCT-CAAATTTTGTTTCGCTTGAGACAGC
1 TTTCTACAAATTTTGTCTCGCTTGAGACAGC
782619 TTTCTAAAAACAAATTTTGTCTCGCTTGAGACA
1 TTTCT----ACAAATTTTGTCTCGCTTGAGACA
782652 ATTTTCTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
30 5 0.19
35 22 0.81
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (31 bp):
TTTCTACAAATTTTGTCTCGCTTGAGACAGC
Found at i:782644 original size:35 final size:36
Alignment explanation
Indices: 782594--782688 Score: 120
Period size: 37 Copynumber: 2.6 Consensus size: 36
782584 ATCGTTTTCT
*
782594 CAAATTTTGTTTCGCTTGAGACAGCTT-TCTAAAAA
1 CAAATTTTGTCTCGCTTGAGACAGCTTCTCTAAAAA
** *
782629 CAAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAA
1 CAAATTTTGTCTCGCTTGAGAC-AGCTTCTCTAAAAA
* *
782666 CAAACTTCGTCTCGCTTGAGACA
1 CAAATTTTGTCTCGCTTGAGACA
782689 TTTTTCCTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
35 21 0.40
36 4 0.08
37 27 0.52
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (36 bp):
CAAATTTTGTCTCGCTTGAGACAGCTTCTCTAAAAA
Found at i:782769 original size:102 final size:102
Alignment explanation
Indices: 782662--782897 Score: 302
Period size: 102 Copynumber: 2.3 Consensus size: 102
782652 ATTTTCTCTT
* *
782662 AAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTGATTCAC-
1 AAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
* *
782726 TTAAAACAAA-TT-ATCTCACCTT-AGATTGTTGTTCTTTC-
66 TT-AAACAAAGTTGATCTCA-CTTGAGATCG-T-TTC-CTCA
* * * *
782764 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
782829 TTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
66 TTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
* *
782866 AAAACAAACTTTGTCTCGCTTGAGACAATTTC
1 AAAACAAACTTCGTCTCGCTTGAGACATTTTC
782898 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
101 2 0.02
102 96 0.82
103 8 0.07
104 11 0.09
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTGATTCACA
TTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCA
Found at i:782853 original size:270 final size:273
Alignment explanation
Indices: 782353--782867 Score: 984
Period size: 270 Copynumber: 1.9 Consensus size: 273
782343 GTTTTTCTTG
782353 AAACAAAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAT
1 AAACAAAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAT
782418 TTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTAGATTG
66 TTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTAGATTG
782483 TTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAA
131 TTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAA
*
782548 TTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCAAATTTTGTTTCGCTTGA
196 TTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCAAATTTTGTTTCGCTTGA
782613 GACAGCTTTCTAA
261 GACAGCTTTCTAA
782626 AAAC-AAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAT
1 AAACAAAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAT
782690 TTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAAC-AAATT-ATCTCACCTTAGATT
66 TTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACC-TAGATT
782753 GTTG-TTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGA
130 GTTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGA
782817 ATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCAAA
195 ATTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCAAA
782868 AACAAACTTT
Statistics
Matches: 240, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
270 118 0.49
271 15 0.06
272 103 0.43
273 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.39
Consensus pattern (273 bp):
AAACAAAATTTTGTCTCGCTTGAGACAATTTTCTCTTAAAACAAACTTCGTCTCGCTTGAGACAT
TTTTCCTTTGAGATACAAATTTTGAATTTGATTCACTTAAAACAAAATTAATCTCACCTAGATTG
TTGTTTCTTTCAAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAA
TTTGTTTCACATTAAACAAAGTTGATCTCACTTGAGATCGTTTCCTCAAATTTTGTTTCGCTTGA
GACAGCTTTCTAA
Found at i:782871 original size:36 final size:35
Alignment explanation
Indices: 782831--782926 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
782821 GTTTCACATT
* *
782831 AAACAAAGTTGATCTCACTTGAGATC-GTTTC-CTCAA
1 AAACAAATTTG-TCTCACTTGAGA-CAATTTCTCT-AA
*
782867 AAACAAACTTTGTCTCGCTTGAGACAATTTCTCTAA
1 AAACAAA-TTTGTCTCACTTGAGACAATTTCTCTAA
*
782903 AAACAAATTTGTCTCATTTGAGAC
1 AAACAAATTTGTCTCACTTGAGAC
782927 TATATCTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 16 0.31
36 31 0.60
37 5 0.10
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (35 bp):
AAACAAATTTGTCTCACTTGAGACAATTTCTCTAA
Found at i:783249 original size:29 final size:28
Alignment explanation
Indices: 783215--783310 Score: 133
Period size: 29 Copynumber: 3.4 Consensus size: 28
783205 CTCTTGAGAT
783215 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGT-TGTTCCTTTTGAATAA
*
783244 AAATCTTGGAGTTAGTTCCTTTTGAATAA
1 AAATCTTTGAGTT-GTTCCTTTTGAATAA
* *
783273 ATATCTTTGAGTTGTTTCTTTTG-A-AA
1 AAATCTTTGAGTTGTTCCTTTTGAATAA
783299 AAATCTTTGAGT
1 AAATCTTTGAGT
783311 CTATTTATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.21
27 1 0.02
28 10 0.16
29 37 0.61
ACGTcount: A:0.28, C:0.10, G:0.16, T:0.46
Consensus pattern (28 bp):
AAATCTTTGAGTTGTTCCTTTTGAATAA
Found at i:783302 original size:28 final size:28
Alignment explanation
Indices: 783215--783335 Score: 124
Period size: 29 Copynumber: 4.3 Consensus size: 28
783205 CTCTTGAGAT
783215 AAATCTTTGAGTCTGTTCCTTTTGAATAA
1 AAATCTTTGAGTCTGTTCCTTTTGAA-AA
*
783244 AAATCTTGGAGT-TAGTTCCTTTTGAATAA
1 AAATCTTTGAGTCT-GTTCCTTTTGAA-AA
* *
783273 ATATCTTTGAGT-TGTTTCTTTTG-AAA
1 AAATCTTTGAGTCTGTTCCTTTTGAAAA
* **
783299 AAATCTTTGAGTCTATTTATTTTGAAACA
1 AAATCTTTGAGTCTGTTCCTTTTGAAA-A
783328 AAAT-TTTG
1 AAATCTTTG
783336 TCTCTCTTAA
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
26 13 0.16
27 10 0.12
28 16 0.20
29 42 0.52
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (28 bp):
AAATCTTTGAGTCTGTTCCTTTTGAAAA
Found at i:783322 original size:55 final size:58
Alignment explanation
Indices: 783217--783324 Score: 143
Period size: 55 Copynumber: 1.9 Consensus size: 58
783207 CTTGAGATAA
*
783217 ATCTTTGAGTCTGTTCCTTTTGAATAAAAATCTTGGAGTTAGTTCCTTTTGAATAAAT
1 ATCTTTGAGTCTGTTCCTTTTGAATAAAAATCTTGGAGTTAGTTCATTTTGAATAAAT
* * *
783275 ATCTTTGAGT-TGTTTCTTTTG-A-AAAAATCTTTGAGTCTA-TTTATTTTGAA
1 ATCTTTGAGTCTGTTCCTTTTGAATAAAAATCTTGGAGT-TAGTTCATTTTGAA
783325 ACAAAATTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
55 22 0.49
56 3 0.07
57 10 0.22
58 10 0.22
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.48
Consensus pattern (58 bp):
ATCTTTGAGTCTGTTCCTTTTGAATAAAAATCTTGGAGTTAGTTCATTTTGAATAAAT
Found at i:783919 original size:67 final size:65
Alignment explanation
Indices: 783791--783920 Score: 145
Period size: 67 Copynumber: 2.0 Consensus size: 65
783781 CCTTTCAATG
* * * * *
783791 TCATCTTTGAGTCGTTTCCCTTGAAACGAATTTTGTCTCTTGAAACATTTTCTCTTAAAACAAGA
1 TCATCTTTGAGTCGTTTCCCTGGAAACGAATTTTATCCCTTAAAACAGTTTCTCTTAAAACAAGA
* * * *
783856 TCATCTTTGAGTTTGTTTCTCTGGAAAC-AAGGTTTTATCCCTTAAAACAGTTTCTGTTGAAACA
1 TCATCTTTGAG-TCGTTTCCCTGGAAACGAA--TTTTATCCCTTAAAACAGTTTCTCTTAAAACA
783920 A
63 A
783921 AATTTTGTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 13 0.25
66 13 0.25
67 27 0.51
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (65 bp):
TCATCTTTGAGTCGTTTCCCTGGAAACGAATTTTATCCCTTAAAACAGTTTCTCTTAAAACAAGA
Found at i:784248 original size:36 final size:35
Alignment explanation
Indices: 784195--784308 Score: 102
Period size: 36 Copynumber: 3.4 Consensus size: 35
784185 GAAACACTGA
*
784195 TCTTTGAGATCA-ATTCCCTTTAAACGAATTTTGTC
1 TCTTTGAGA-CAGTTTCCCTTTAAACGAATTTTGTC
784230 TCATTTGAGACAGTTTCCCTTTAAAC-------GTC
1 TC-TTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
* *
784259 ATCTTTGAGTC-GTTTCCCTTAAAACGAATTTTGTC
1 -TCTTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
784294 TCTTTTGAGACAGTT
1 TC-TTTGAGACAGTT
784309 GCTTTTAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 23
0.70 0.04 0.26
Matches are distributed among these distances:
28 13 0.21
29 10 0.16
30 2 0.03
34 2 0.03
35 14 0.22
36 22 0.35
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (35 bp):
TCTTTGAGACAGTTTCCCTTTAAACGAATTTTGTC
Found at i:784395 original size:28 final size:28
Alignment explanation
Indices: 784324--784405 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
784314 TAAAAATATC
* * *
784324 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
784352 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
784380 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
784406 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:784485 original size:46 final size:45
Alignment explanation
Indices: 784434--784766 Score: 180
Period size: 46 Copynumber: 7.5 Consensus size: 45
784424 CCAGCCGTCC
* *
784434 TCATCACGTAGGAATCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGAACTCT
* * * *
784480 TCATCACGTATGAGCCGTGTCATTC-CC-CAGA---CCAGATCTCT
1 TCATCACGTAGGAACCGTGTCA-TCACCTTAGATGGCCAGAACTCT
* * * ** * *
784521 TCATCACGTATGAGCCGTGTCA--ACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC-TCT
*
784564 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCACC-TTAGATGGCCAGAACTCT
* * * *
784610 TCATCACGTATGAGCCGTGTCATTC-CC--CGA---CCAGATCTCT
1 TCATCACGTAGGAACCGTGTCA-TCACCTTAGATGGCCAGAACTCT
* * ** * *
784650 TCATCACGTATGAGCCGTGTCA-C-CC-TAGATAACCAG-TCGTCC
1 TCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAAC-TCT
*
784692 TCATCACGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCCAGAACTCT
1 TCATCACGTAGGAACCGTGTCATCA-CC-T--T--AGATGGCCAGAACTCT
* * *
784743 TCATCACGTATGAGCCATGTCATC
1 TCATCACGTAGGAACCGTGTCATC
784767 CACCAACCAG
Statistics
Matches: 225, Mismatches: 35, Indels: 49
0.73 0.11 0.16
Matches are distributed among these distances:
38 3 0.01
39 4 0.02
40 34 0.15
41 33 0.15
42 26 0.12
43 28 0.12
44 3 0.01
45 5 0.02
46 52 0.23
47 5 0.02
49 1 0.00
51 30 0.13
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
TCATCACGTAGGAACCGTGTCATCACCTTAGATGGCCAGAACTCT
Found at i:784776 original size:133 final size:129
Alignment explanation
Indices: 784424--784792 Score: 591
Period size: 130 Copynumber: 2.8 Consensus size: 129
784414 CTAAAGATGG
*
784424 CCAGCCGTCCTCATCACGTAGGAATCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
784489 ATGAGCCGTGTCATTCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
66 ATGAGCCGTGTCATTCCCCA-ACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
784554 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
* *
784619 ATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACCCTAGATAA
66 ATGAGCCGTGTCATTCCCCAACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
*
784682 CCAGTCGTCCTCATCACGTAGGAACCGTGTTATCACCCTTCCTAAAGATGGCCAGAACTCTTCAT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA-CCTT--T--AGATGGCCAGAACTCTTCAT
* *
784747 CACGTATGAGCCATGTCA-TCCACCAACCAG-TCGTCCTCATCACGTA
61 CACGTATGAGCCGTGTCATTCC-CCAACCAGATC-TCTTCATCACGTA
784793 GGAACCGAGT
Statistics
Matches: 225, Mismatches: 7, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
128 44 0.20
129 36 0.16
130 83 0.37
131 1 0.00
132 5 0.02
133 56 0.25
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (129 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
ATGAGCCGTGTCATTCCCCAACCAGATCTCTTCATCACGTATGAGCCGTGTCAACCATAGATAA
Found at i:784805 original size:91 final size:92
Alignment explanation
Indices: 784637--784847 Score: 282
Period size: 91 Copynumber: 2.3 Consensus size: 92
784627 TGTCATTCCC
* * *
784637 CGACCAGATCTCTTCATCACGTATGAGCCGTGTCACCCTAGATAACCAGTCGTCCTCATCACGTA
1 CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGTCGTCCTCATCACGTA
* **
784702 GGAACCGTGTTATCACCCTTCCTAAAGA
66 GGAACCGAGTTATCACCCACCCT-AAGA
* * * *
784730 TGGCCAGAACTCTTCATCACGTATGAGCCATGTCATCC-A-CCAACCAGTCGTCCTCATCACGTA
1 CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGTCGTCCTCATCACGTA
* *
784793 GGAACCGAGTTATCATCCACCCTTAGA
66 GGAACCGAGTTATCACCCACCCTAAGA
*
784820 CGACCAGACCTCTTCATCACGTATGAGC
1 CGACCAGAACTCTTCATCACGTATGAGC
784848 AGTGTCGTCC
Statistics
Matches: 103, Mismatches: 15, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
90 28 0.27
91 41 0.40
92 1 0.01
93 33 0.32
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (92 bp):
CGACCAGAACTCTTCATCACGTATGAGCCATGTCACCCTAGACAACCAGTCGTCCTCATCACGTA
GGAACCGAGTTATCACCCACCCTAAGA
Found at i:785012 original size:3 final size:3
Alignment explanation
Indices: 785004--785078 Score: 89
Period size: 3 Copynumber: 23.3 Consensus size: 3
784994 CGGGTCTTTT
785004 TTA TTA TTA TTTA TT- TATA TATA TTTA TTA TTA TTTA TTA TTA TTTA
1 TTA TTA TTA -TTA TTA T-TA T-TA -TTA TTA TTA -TTA TTA TTA -TTA
785051 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
785079 GTTTATTAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 12
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.02
3 49 0.74
4 15 0.23
5 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:785018 original size:10 final size:10
Alignment explanation
Indices: 785007--785076 Score: 101
Period size: 10 Copynumber: 7.1 Consensus size: 10
784997 GTCTTTTTTA
785007 TTATTATTTAT
1 TTATTA-TTAT
785018 TTA-TATATAT
1 TTATTAT-TAT
785028 TTATTATTAT
1 TTATTATTAT
785038 TTATTATTAT
1 TTATTATTAT
785048 TTATTATTA-
1 TTATTATTAT
785057 TTATTATTA-
1 TTATTATTAT
785066 TTATTATTAT
1 TTATTATTAT
785076 T
1 T
785077 ATGTTTATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
9 19 0.34
10 31 0.55
11 6 0.11
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTATTAT
Found at i:792608 original size:530 final size:530
Alignment explanation
Indices: 791550--792608 Score: 1585
Period size: 531 Copynumber: 2.0 Consensus size: 530
791540 AATAAAATCT
** *
791550 TCAAAATTACAAGAACATGACATGTGTCACTTAACGGGATTTCTTAGCAACATAATGGTCGGGCA
1 TCAAAATTACAAGAACATGACATGTGTCACTTAACGAAATTTCTTAACAACATAATGGTCGGGCA
* * * * *
791615 CTTAGATTGTTAACGTTTGTAATGTTAGGCACCTAGATTGACCGGAAAATAATTTAGGCACCTAA
66 CTTAGATTGGTAACATTTGTAATATTAGGCACATAGATTGACCGAAAAATAATTTAGGCACCTAA
*
791680 ATGAAAAAAAGAGTATTGTTTGGGCACTTATTTTTATATAATTTGACCAAAAATAGTATTTTTTT
131 ATGAAAAAAAGAGTATTGTTTGAGCACTTATTTTTATATAATTTGACCAAAAATAGTATTTTTTT
* *
791745 CATTTTGTTGATGTTTCTTTTAGAGTTAGATTTGACGTTATTCCTTCGATTAATATTTATTTAAT
196 CATTTTGTTGATGTTTCTTTTAGAGTCAAATTTGACGTTATTCCTTCGATTAATATTTATTTAAT
* * * * *
791810 TATCTTACTGATATATTCTTATTTTGAATAATCAAATTAGTTATTTCATGTTGATATGTGTTGCA
261 TATCTTACTGATATATCCTTATTTTAAATAATCAAATTAATTATTTCATGTTGATAGGTGTCGCA
* * * * * *
791875 ATTACCTTAAAAATATCGCAATTGAGTTGTGGTCAAATTAATTGTGAACATGTCATCATTGTTAT
326 ACTACCTTAAAAATATCACAATTAAGTTGTGATAAAATTAATTGTGAACATGTAATCATTGTTAT
*
791940 ATACATTTTTGTGTAAGTGATTATAGTCTTATCCTTCACCATCAATTATAATATTTATTTATATT
391 ATACATTTTTGGGTAAGTGATTATAGTCTTATCCTTCACCATCAATTATAATATTTATTTATATT
792005 TTTTATTTGTCTTAAGAGTTTAATTGAGTTTTTTTAATTATTTTTTATAATTAACTTTTTATTAT
456 TTTTATTTGTCTTAAGAGTTTAATTGAGTTTTTTTAATTATTTTTTATAATTAACTTTTTATTAT
792070 TAATGATTAA
521 TAATGATTAA
* * * * * *
792080 TCAAAATTACTAGAACGTGACATGTGTCGCTTAACGAAATTTTTTAACAACCGTTATGG-CAGGG
1 TCAAAATTACAAGAACATGACATGTGTCACTTAACGAAATTTCTTAACAA-CATAATGGTC--GG
* *
792144 GCACTTAGATTGGTAACATTTGTAATATTAGGCATATGGATTGACCGAAAAATAATTTAGGCACC
63 GCACTTAGATTGGTAACATTTGTAATATTAGGCACATAGATTGACCGAAAAATAATTTAGGCACC
* **
792209 TAAATG-GAAAAATTGTATTGTTTGAGCACTTATTTTTATATAATTTGACCGAAAAATAGTATTT
128 TAAATGAAAAAAAGAGTATTGTTTGAGCACTTATTTTTATATAATTTGACC-AAAAATAGTATTT
*
792273 TTTTCATTCTTGTTGATG-TT-TTTTAGGGTCAAATTTGACGTTATT-CTTCGATTAATATTTAT
192 TTTTCATT-TTGTTGATGTTTCTTTTAGAGTCAAATTTGACGTTATTCCTTCGATTAATATTTAT
* *
792335 TTAATTATCTTACTGATATATCCTTATTTTAAATACTCAAATTAATTCTTTCATGTTGATAGGTG
256 TTAATTATCTTACTGATATATCCTTATTTTAAATAATCAAATTAATTATTTCATGTTGATAGGTG
* * * * *
792400 CTCGCAGCTACCTTAAAAATATCACACTTAAGTTGTGATAAAATTATTTGTTAACATGTAATCTT
321 -TCGCAACTACCTTAAAAATATCACAATTAAGTTGTGATAAAATTAATTGTGAACATGTAATCAT
* * *
792465 TGTTATATATATTTTTGGGTTAGTG-TTGATAGTCTTATCCTTCACCATCAATTATGATATTTAT
385 TGTTATATACATTTTTGGGTAAGTGATT-ATAGTCTTATCCTTCACCATCAATTATAATATTTAT
792529 TTATA-TTTTTATTTGTCTTAAGAGTTTAATTGAG-TTTTTTAATTATTTTTTATAATTAACTTT
449 TTATATTTTTTATTTGTCTTAAGAGTTTAATTGAGTTTTTTTAATTATTTTTTATAATTAACTTT
792592 TTATTATTTAATGATTA
514 TTATTA-TTAATGATTA
792609 TTTGCGCTCT
Statistics
Matches: 476, Mismatches: 45, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
529 35 0.07
530 161 0.34
531 182 0.38
532 89 0.19
533 9 0.02
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (530 bp):
TCAAAATTACAAGAACATGACATGTGTCACTTAACGAAATTTCTTAACAACATAATGGTCGGGCA
CTTAGATTGGTAACATTTGTAATATTAGGCACATAGATTGACCGAAAAATAATTTAGGCACCTAA
ATGAAAAAAAGAGTATTGTTTGAGCACTTATTTTTATATAATTTGACCAAAAATAGTATTTTTTT
CATTTTGTTGATGTTTCTTTTAGAGTCAAATTTGACGTTATTCCTTCGATTAATATTTATTTAAT
TATCTTACTGATATATCCTTATTTTAAATAATCAAATTAATTATTTCATGTTGATAGGTGTCGCA
ACTACCTTAAAAATATCACAATTAAGTTGTGATAAAATTAATTGTGAACATGTAATCATTGTTAT
ATACATTTTTGGGTAAGTGATTATAGTCTTATCCTTCACCATCAATTATAATATTTATTTATATT
TTTTATTTGTCTTAAGAGTTTAATTGAGTTTTTTTAATTATTTTTTATAATTAACTTTTTATTAT
TAATGATTAA
Found at i:792969 original size:60 final size:60
Alignment explanation
Indices: 792864--792992 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
792854 AGTATTTCTG
* * **
792864 TTTCATCCCCAAACTATGACTTTCATTATAAATTAATTCTTAAACTTTTGAA-CATTCCAA
1 TTTCATCCCCAAACTATGACTCTCATTATAAATTAATCCCCAAACTTTTGAATC-TTCCAA
* * ** *
792924 TTTCATCCCTAAACTATGACTCTCATTCTAAATTGGTCCCCAAACTTTTGAATCTTTCAA
1 TTTCATCCCCAAACTATGACTCTCATTATAAATTAATCCCCAAACTTTTGAATCTTCCAA
*
792984 TTTTATCCC
1 TTTCATCCC
792993 AAAGTCATCC
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (60 bp):
TTTCATCCCCAAACTATGACTCTCATTATAAATTAATCCCCAAACTTTTGAATCTTCCAA
Found at i:798287 original size:2 final size:2
Alignment explanation
Indices: 798275--798311 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
798265 TATGTATTCG
*
798275 TA TA AA TA TA TA TA TA TA TA 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 TA T
798312 TCCAACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:800707 original size:26 final size:26
Alignment explanation
Indices: 800678--800735 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
800668 CCGCTTAATT
* *
800678 TAAAATTTATAAAATTT-TAGAGAAAA
1 TAAAATTAAAAAAATTTATAGA-AAAA
*
800704 TAAACTTAAAAAAATTTATAGAAAAA
1 TAAAATTAAAAAAATTTATAGAAAAA
*
800730 GAAAAT
1 TAAAAT
800736 AAATTACCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (26 bp):
TAAAATTAAAAAAATTTATAGAAAAA
Found at i:801394 original size:21 final size:21
Alignment explanation
Indices: 801368--801476 Score: 118
Period size: 21 Copynumber: 5.2 Consensus size: 21
801358 GATTTACAAC
801368 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
801389 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
801410 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
801431 GCGAA-TAT-GTA-AATCGCAAT
1 GCGAACT-TCG-ACTATCGCAAT
* *
801451 GCGATA-GTCGGCTATCGCAAT
1 GCGA-ACTTCGACTATCGCAAT
801472 GCGAA
1 GCGAA
801477 TATGTAAATC
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
20 16 0.21
21 62 0.79
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:801448 original size:20 final size:20
Alignment explanation
Indices: 801423--801495 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
801413 AACTTGGACT
801423 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
***
801443 ATCGCAATGCG-ATAGTCGGCT
1 ATCGCAATGCGAATA-T-GTAA
801464 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
801484 ATCGCAATGCGA
1 ATCGCAATGCGA
801496 TAGTCCAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 25 0.57
21 13 0.30
22 3 0.07
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:801466 original size:41 final size:42
Alignment explanation
Indices: 801377--801500 Score: 173
Period size: 41 Copynumber: 3.0 Consensus size: 42
801367 CGCGAACTTC
* * * *
801377 GACTATCGCAATGCGAACT-TGGACTATCGCAATGCGA-ACTTG
1 GACTATCGCAATGCGAA-TATGTA-AATCGCAATGCGATAGTCG
801419 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
801461 G-CTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
1 GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTC
801501 CAAAATCGCA
Statistics
Matches: 76, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
41 52 0.68
42 24 0.32
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (42 bp):
GACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCG
Found at i:801508 original size:21 final size:19
Alignment explanation
Indices: 801423--801511 Score: 74
Period size: 20 Copynumber: 4.4 Consensus size: 19
801413 AACTTGGACT
801423 ATCGCAATGCGAATATGT-AA
1 ATCGCAATGCG-ATA-GTCAA
**
801443 ATCGCAATGCGATAGTCGGCT
1 ATCGCAATGCGATAGTC--AA
801464 ATCGCAATGCGAATATGT-AA
1 ATCGCAATGCG-ATA-GTCAA
801484 ATCGCAATGCGATAGTCCAAA
1 ATCGCAATGCGATAGT-C-AA
801505 ATCGCAA
1 ATCGCAA
801512 CGACTGGTGG
Statistics
Matches: 57, Mismatches: 4, Indels: 15
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.07
19 6 0.11
20 22 0.39
21 20 0.35
22 3 0.05
23 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (19 bp):
ATCGCAATGCGATAGTCAA
Found at i:801509 original size:41 final size:41
Alignment explanation
Indices: 801423--801511 Score: 142
Period size: 41 Copynumber: 2.2 Consensus size: 41
801413 AACTTGGACT
****
801423 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGGCT
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAA
801464 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAA
1 ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAA
801505 ATCGCAA
1 ATCGCAA
801512 CGACTGGTGG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (41 bp):
ATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCCAAA
Found at i:801660 original size:23 final size:23
Alignment explanation
Indices: 801626--801747 Score: 130
Period size: 23 Copynumber: 5.6 Consensus size: 23
801616 ACCCGATTCG
*
801626 ACGCGAATTTGGAATAAATCGCA
1 ACGCGAACTTGGAATAAATCGCA
801649 ACGCGAACTTGGAATAAATCGCA
1 ACGCGAACTTGGAATAAATCGCA
* * *
801672 A--CGAATTTGGAATCAATCGAA
1 ACGCGAACTTGGAATAAATCGCA
* *
801693 ACGCGAACTTCGACT--ATCGCA
1 ACGCGAACTTGGAATAAATCGCA
*
801714 A--CGAACTTGAAATAAATCGCA
1 ACGCGAACTTGGAATAAATCGCA
*
801735 ATGCGAACTTGGA
1 ACGCGAACTTGGA
801748 CTATCGCAAT
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.11
21 31 0.38
23 41 0.51
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (23 bp):
ACGCGAACTTGGAATAAATCGCA
Found at i:801732 original size:42 final size:42
Alignment explanation
Indices: 801629--801756 Score: 175
Period size: 42 Copynumber: 3.0 Consensus size: 42
801619 CGATTCGACG
*
801629 CGAATTTGGAATAAATCGCAACGCGAACTTGGAATAAATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTGGACT--ATCGCAA
* * *
801673 CGAATTTGGAATCAATCGAAACGCGAACTTCGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
* * *
801715 CGAACTTGAAATAAATCGCAATGCGAACTTGGACTATCGCAA
1 CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
801757 TGCGAATATG
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 43 0.58
44 31 0.42
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (42 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAA
Found at i:801753 original size:21 final size:20
Alignment explanation
Indices: 801643--801762 Score: 73
Period size: 21 Copynumber: 5.6 Consensus size: 20
801633 TTTGGAATAA
*
801643 ATCGCAACGCGAACTTGGAAT
1 ATCGCAA-GCGAACTTGGACT
* *
801664 AAATCGCAA-CGAATTTGGAATCA
1 --ATCGCAAGCGAACTTGG-A-CT
* *
801687 ATCGAAACGCGAACTTCGACT
1 ATCGCAA-GCGAACTTGGACT
* *
801708 ATCGCAA-CGAACTTGAAAT
1 ATCGCAAGCGAACTTGGACT
801727 AAATCGCAATGCGAACTTGGACT
1 --ATCGCAA-GCGAACTTGGACT
801750 ATCGCAATGCGAA
1 ATCGCAA-GCGAA
801763 TATGTAAATC
Statistics
Matches: 76, Mismatches: 13, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
19 9 0.12
21 41 0.54
22 2 0.03
23 24 0.32
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAAGCGAACTTGGACT
Found at i:801775 original size:20 final size:20
Alignment explanation
Indices: 801726--801781 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
801716 GAACTTGAAA
801726 TAAATCGCAATGCGAACTTG
1 TAAATCGCAATGCGAACTTG
* *
801746 GACTATCGCAATGCGAA-TATG
1 TA-AATCGCAATGCGAACT-TG
801767 TAAATCGCAATGCGA
1 TAAATCGCAATGCGA
801782 TAGTCGAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
TAAATCGCAATGCGAACTTG
Found at i:803485 original size:29 final size:30
Alignment explanation
Indices: 803452--803509 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
803442 CCCATTTTTT
**
803452 CAGTTCAGTGGTTAACG-TTTATTTCGTTC
1 CAGTTCAGTGCCTAACGTTTTATTTCGTTC
* *
803481 CAGTTTAGTGCCTAATGTTTTATTTCGTT
1 CAGTTCAGTGCCTAACGTTTTATTTCGTT
803510 ACTCAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.17, C:0.16, G:0.19, T:0.48
Consensus pattern (30 bp):
CAGTTCAGTGCCTAACGTTTTATTTCGTTC
Found at i:804060 original size:25 final size:25
Alignment explanation
Indices: 803998--804060 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 25
803988 TTTTGAGGTT
*
803998 TTTTTAAT-TTAAAATAAATAAGGA
1 TTTTTAATATTTAAATAAATAAGGA
* * *
804022 TTTTT-TTATATAAATATAATAA-TA
1 TTTTTAATATTTAAATA-AATAAGGA
804046 TTTTTAATATTTAAA
1 TTTTTAATATTTAAA
804061 AAAAATTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (25 bp):
TTTTTAATATTTAAATAAATAAGGA
Found at i:804797 original size:27 final size:27
Alignment explanation
Indices: 804758--804810 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
804748 ACCATCTCTA
* *
804758 ATTATATCATCGAGTTAATGCTTGAAC
1 ATTATATCATCGAGTCAATACTTGAAC
**
804785 ATTATATTGTCGAGTCAATACTTGAA
1 ATTATATCATCGAGTCAATACTTGAA
804811 AGCAACGATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTATATCATCGAGTCAATACTTGAAC
Found at i:819631 original size:20 final size:19
Alignment explanation
Indices: 819593--819631 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
819583 AACACTCTCA
*
819593 ATGCGTCGTGCCAAGGTTT
1 ATGCGTCATGCCAAGGTTT
*
819612 ATGCGTCATGTCCAATGTTT
1 ATGCGTCATG-CCAAGGTTT
819632 TATCCACGGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (19 bp):
ATGCGTCATGCCAAGGTTT
Found at i:819658 original size:37 final size:37
Alignment explanation
Indices: 819617--819743 Score: 116
Period size: 37 Copynumber: 3.5 Consensus size: 37
819607 GGTTTATGCG
* *
819617 TCATGTCCAATGTTTTATCCACGGCACTCTTATTGTA
1 TCATGTCCAATGTTTTATCCACGACACTCTAATTGTA
* * * *
819654 TCATGTCTAATGTTTCATCCAAGACACACTCAA-TGTA
1 TCATGTCCAATGTTTTATCCACGACACTCT-AATTGTA
** * *
819691 TTGTGTCCAAAGTTCTATCCACGACACTC-AATT-TA
1 TCATGTCCAATGTTTTATCCACGACACTCTAATTGTA
* *
819726 TCGTGTCCAATATTTTAT
1 TCATGTCCAATGTTTTAT
819744 TTATAATATC
Statistics
Matches: 70, Mismatches: 18, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
35 18 0.26
36 1 0.01
37 50 0.71
38 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.38
Consensus pattern (37 bp):
TCATGTCCAATGTTTTATCCACGACACTCTAATTGTA
Found at i:825034 original size:20 final size:20
Alignment explanation
Indices: 825009--825060 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
824999 ACCATTTTTT
*
825009 TCTTCCATAAACTCATCGCA
1 TCTTCCATAAACTAATCGCA
825029 TCTTCCATAAACTAATCGCA
1 TCTTCCATAAACTAATCGCA
825049 TCTTCCATAAAC
1 TCTTCCATAAAC
825061 CCCTTTATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.31
Consensus pattern (20 bp):
TCTTCCATAAACTAATCGCA
Found at i:825138 original size:48 final size:48
Alignment explanation
Indices: 825086--825182 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 48
825076 CCAAAAAACC
* * *
825086 ATTTC-TCATTCTTCAATTTGTTTGAGAGAAAAAGTAGAGAGAAAAATG
1 ATTTCTTC-TTCTTCAATTCGTCTAAGAGAAAAAGTAGAGAGAAAAATG
** *
825134 ATTTCTTCTTCTTCCCTTCGTCTAAGAGAAAAAGTAGTGAGAAAAATG
1 ATTTCTTCTTCTTCAATTCGTCTAAGAGAAAAAGTAGAGAGAAAAATG
825182 A
1 A
825183 GCAAAAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 40 0.95
49 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (48 bp):
ATTTCTTCTTCTTCAATTCGTCTAAGAGAAAAAGTAGAGAGAAAAATG
Found at i:826580 original size:6 final size:6
Alignment explanation
Indices: 826569--826623 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
826559 TTCAAATATA
* * * * *
826569 ACTCCT ACTCCT ACTCCT GCTCCT GCTCCT GCTCCT GCTCCT GCTCCT
1 ACTCCT ACTCCT ACTCCT ACTCCT ACTCCT ACTCCT ACTCCT ACTCCT
*
826617 ACCCCT A
1 ACTCCT A
826624 TCATTGCTGC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 46 1.00
ACGTcount: A:0.09, C:0.51, G:0.09, T:0.31
Consensus pattern (6 bp):
ACTCCT
Found at i:826586 original size:12 final size:12
Alignment explanation
Indices: 826569--826618 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
826559 TTCAAATATA
*
826569 ACTCCTACTCCT
1 ACTCCTGCTCCT
826581 ACTCCTGCTCCT
1 ACTCCTGCTCCT
*
826593 GCTCCTGCTCCT
1 ACTCCTGCTCCT
*
826605 GCTCCTGCTCCT
1 ACTCCTGCTCCT
826617 AC
1 AC
826619 CCCTATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.08, C:0.50, G:0.10, T:0.32
Consensus pattern (12 bp):
ACTCCTGCTCCT
Found at i:826597 original size:18 final size:18
Alignment explanation
Indices: 826570--826618 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
826560 TCAAATATAA
*
826570 CTCCTACTCCTACTCCTG
1 CTCCTGCTCCTACTCCTG
*
826588 CTCCTGCTCCTGCTCCTG
1 CTCCTGCTCCTACTCCTG
826606 CTCCTGCTCCTAC
1 CTCCTGCTCCTAC
826619 CCCTATCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.06, C:0.51, G:0.10, T:0.33
Consensus pattern (18 bp):
CTCCTGCTCCTACTCCTG
Found at i:831057 original size:66 final size:66
Alignment explanation
Indices: 830962--831094 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
830952 CTTTGCGGAC
830962 CTCCACTTTCAAACAAATGCAATGACAGTGCAGAAACACCACCGGTTTACGCTGGTGCGGACAAG
1 CTCCACTTTCAAACAAATGCAATGACAGTGCAGAAACACCACCGGTTTACGCTGGTGCGGACAAG
831027 T
66 T
831028 CTCCACTTTCAAACAAATGCAATGACAGTGCAGAAACACCACCGGTTTACGCTGGTGCGGACAAG
1 CTCCACTTTCAAACAAATGCAATGACAGTGCAGAAACACCACCGGTTTACGCTGGTGCGGACAAG
831093 T
66 T
831094 C
1 C
831095 AATTCTCAGT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.20
Consensus pattern (66 bp):
CTCCACTTTCAAACAAATGCAATGACAGTGCAGAAACACCACCGGTTTACGCTGGTGCGGACAAG
T
Found at i:836910 original size:19 final size:20
Alignment explanation
Indices: 836886--836927 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
836876 CGTTGAAATT
836886 ATTATTTAA-TTATTAAAAA
1 ATTATTTAATTTATTAAAAA
836905 ATTATTTAAGTTTTATTAAAAA
1 ATTATTTAA--TTTATTAAAAA
836927 A
1 A
836928 ATATGTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.45
22 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (20 bp):
ATTATTTAATTTATTAAAAA
Found at i:837440 original size:29 final size:31
Alignment explanation
Indices: 837408--837484 Score: 86
Period size: 32 Copynumber: 2.5 Consensus size: 31
837398 TTTGTTTGTG
837408 ATTTT-TTAA-AATTGAATAACCTAATTATA
1 ATTTTATTAATAATTGAATAACCTAATTATA
* *
837437 ATTTTACTTAATGATTGAATAACCTATTTATA
1 ATTTTA-TTAATAATTGAATAACCTAATTATA
* **
837469 ATCTTACAAATAATTG
1 ATTTTATTAATAATTG
837485 TATGACTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.13
31 11 0.28
32 23 0.59
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (31 bp):
ATTTTATTAATAATTGAATAACCTAATTATA
Found at i:837859 original size:20 final size:20
Alignment explanation
Indices: 837765--838133 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
837755 GATTTTCCAT
* ** *
837765 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
837785 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
837805 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
837825 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
837845 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
* *
837865 AATCGCAATGCATATCCGTA
1 AATCGCAACGCGTATCCGTA
*
837885 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
837905 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
837925 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
837945 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
837965 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
837985 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
838005 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
838025 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
838045 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
838065 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
838085 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
838105 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
838125 AATCACAAC
1 AATCGCAAC
838134 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:838855 original size:24 final size:24
Alignment explanation
Indices: 838816--838862 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
838806 AAATTTGGTC
838816 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
838840 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
838863 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:839054 original size:12 final size:12
Alignment explanation
Indices: 839037--839061 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
839027 ATATAATCCT
839037 GAAGAAGAAAAA
1 GAAGAAGAAAAA
839049 GAAGAAGAAAAA
1 GAAGAAGAAAAA
839061 G
1 G
839062 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:841430 original size:33 final size:34
Alignment explanation
Indices: 841343--841666 Score: 254
Period size: 33 Copynumber: 9.5 Consensus size: 34
841333 CGGAAAATAC
* *
841343 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
841376 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
841410 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
841448 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
841481 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
841514 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
841552 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
841585 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
841618 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
841651 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
841667 TATAAACGCA
Statistics
Matches: 256, Mismatches: 13, Indels: 44
0.82 0.04 0.14
Matches are distributed among these distances:
33 160 0.62
34 32 0.12
35 12 0.05
36 12 0.05
37 3 0.01
38 37 0.14
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:841458 original size:52 final size:52
Alignment explanation
Indices: 841371--841644 Score: 423
Period size: 52 Copynumber: 5.2 Consensus size: 52
841361 AAATCCCAAC
841371 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
841424 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
841476 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
841528 ATTAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
841580 ATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
841632 ATGAAAATCGCAA
1 ATGAAAATCGCAA
841645 CGAGATAATC
Statistics
Matches: 210, Mismatches: 6, Indels: 11
0.93 0.03 0.05
Matches are distributed among these distances:
47 8 0.04
49 3 0.01
50 5 0.02
51 1 0.00
52 177 0.84
53 16 0.08
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:841626 original size:85 final size:85
Alignment explanation
Indices: 841429--841666 Score: 351
Period size: 85 Copynumber: 2.8 Consensus size: 85
841419 GCGAAATGAA
*
841429 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAA
*
841489 TGCGAAATGAAAATCGCAACGACAG
61 TGCGAAATGAAAATCGCAACGAAAG
*
841514 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
841579 AATGAAAATCGCAACGAAAG
66 AATGAAAATCGCAACGAAAG
* *
841599 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
841664 AAT
66 AAT
841667 TATAAACGCA
Statistics
Matches: 142, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
85 123 0.87
87 3 0.02
88 5 0.04
89 1 0.01
90 10 0.07
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (85 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGA
AATGAAAATCGCAACGAAAG
Found at i:841782 original size:19 final size:19
Alignment explanation
Indices: 841673--841774 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
841663 AAATTATAAA
841673 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
841692 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
841712 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
841728 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
841745 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
841764 CGCATTGCGAT
1 CGCATTGCGAT
841775 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:841900 original size:14 final size:14
Alignment explanation
Indices: 841881--841917 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
841871 CATCAATTAC
841881 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
841895 ACAAATCATCTTTT
1 ACAAATCAACTTTT
841909 ACAAATCAA
1 ACAAATCAA
841918 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:843917 original size:14 final size:14
Alignment explanation
Indices: 843898--843954 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
843888 GCGAAATGAA
*
843898 AATCGCAACGACAG
1 AATCGCAACGAAAG
843912 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
843929 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
843945 AATCGCAACG
1 AATCGCAACG
843955 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:843925 original size:33 final size:33
Alignment explanation
Indices: 843879--843971 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
843869 GCGAAACCAA
*
843879 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
843912 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
843945 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
843972 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Done.