Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 172 of 210
Found at i:51482220 original size:22 final size:22
Alignment explanation
Indices: 51482195--51482236 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
51482185 TTTTAGAGAT
51482195 TTTTGGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
51482217 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
51482237 TTTGAGAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.31
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:51482244 original size:30 final size:30
Alignment explanation
Indices: 51482208--51482266 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
51482198 TGGAAGGAAA
* *
51482208 TTGAGAGGATTTTGGAAGGAATTTGAGAGT
1 TTGAGAGAATTTTGGAAGGAAATTGAGAGT
51482238 TTGAGAGAATTTTGGAAGGAAATTGAGAG
1 TTGAGAGAATTTTGGAAGGAAATTGAGAG
51482267 AATTTTGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.31
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAAATTGAGAGT
Found at i:51482263 original size:22 final size:22
Alignment explanation
Indices: 51482238--51482283 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
51482228 ATTTGAGAGT
51482238 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
51482260 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
51482282 TT
1 TT
51482284 TAGATAGGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.30
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:51483162 original size:10 final size:10
Alignment explanation
Indices: 51483112--51483168 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
51483102 AAGTCGTAAG
51483112 AAAATTATAA
1 AAAATTATAA
*
51483122 AAAA-TGTAA
1 AAAATTATAA
51483131 AAAA-TAT--
1 AAAATTATAA
51483138 AAAATTCATAAA
1 AAAATT-AT-AA
51483150 AAAATTTATAA
1 AAAA-TTATAA
51483161 AAAATTAT
1 AAAATTAT
51483169 CGTACCAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 4 0.10
8 1 0.03
9 12 0.31
10 8 0.21
11 6 0.15
12 6 0.15
13 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
AAAATTATAA
Found at i:51484059 original size:14 final size:15
Alignment explanation
Indices: 51484036--51484065 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51484026 TAATTGTAAT
51484036 AAATATTTAATATTA
1 AAATATTTAATATTA
51484051 AAATA-TTAATATTA
1 AAATATTTAATATTA
51484065 A
1 A
51484066 TATTTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAATATTTAATATTA
Found at i:51484149 original size:18 final size:18
Alignment explanation
Indices: 51484111--51484146 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51484101 TTATTATTTT
*
51484111 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
51484129 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
51484147 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:51487899 original size:18 final size:18
Alignment explanation
Indices: 51487861--51487896 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
51487851 TTATTATTTT
*
51487861 TAAAATTTACTATTAAAA
1 TAAAATTTAATATTAAAA
51487879 TAAAATTTAAATATTAAA
1 TAAAATTT-AATATTAAA
51487897 TAATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAAATTTAATATTAAAA
Found at i:51498064 original size:16 final size:16
Alignment explanation
Indices: 51498045--51498089 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
51498035 AAAAAAGGTA
51498045 TAAAATTATTAAATAT
1 TAAAATTATTAAATAT
*
51498061 TAAAA-TAATATAATAT
1 TAAAATTATTA-AATAT
*
51498077 AAAAATTATTAAA
1 TAAAATTATTAAA
51498090 AAATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 16 0.67
17 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATTATTAAATAT
Found at i:51498574 original size:8 final size:9
Alignment explanation
Indices: 51498506--51498578 Score: 51
Period size: 9 Copynumber: 7.8 Consensus size: 9
51498496 TTTAAAAAAA
51498506 TATATATTT
1 TATATATTT
*
51498515 ATATTTATTT
1 -TATATATTT
51498525 TAGTATAATATT
1 TA-TAT-AT-TT
* *
51498537 TAAAAATTT
1 TATATATTT
51498546 TATATATTT
1 TATATATTT
*
51498555 T-TATTTTGT
1 TATATATT-T
51498564 TATA-ATTT
1 TATATATTT
51498572 TATATAT
1 TATATAT
51498579 AGTCATATTA
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
8 10 0.20
9 18 0.37
10 14 0.29
11 3 0.06
12 4 0.08
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATATATTT
Found at i:51499310 original size:30 final size:32
Alignment explanation
Indices: 51499274--51499333 Score: 90
Period size: 30 Copynumber: 1.9 Consensus size: 32
51499264 TTTGAGAAAG
51499274 TTATTTTAAATATAAA-GAAA-A-TATTTATAT
1 TTATTTTAAAT-TAAATGAAATATTATTTATAT
51499304 TTATTTTAAATTAAATGAAATATTATTTAT
1 TTATTTTAAATTAAATGAAATATTATTTAT
51499334 TGATTAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 4 0.15
30 15 0.56
31 1 0.04
32 7 0.26
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
TTATTTTAAATTAAATGAAATATTATTTATAT
Found at i:51503535 original size:13 final size:13
Alignment explanation
Indices: 51503519--51503553 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
51503509 TTCAGAAGTG
51503519 CTTTTGAAAAACA
1 CTTTTGAAAAACA
51503532 CTTTTG-AAAACA
1 CTTTTGAAAAACA
*
51503544 CTTCTGAAAA
1 CTTTTGAAAA
51503554 TAAGAAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (13 bp):
CTTTTGAAAAACA
Found at i:51503814 original size:30 final size:30
Alignment explanation
Indices: 51503775--51503831 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
51503765 TTTTATAAAT
51503775 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
51503805 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
51503832 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:51511804 original size:20 final size:21
Alignment explanation
Indices: 51511767--51511810 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
51511757 TTGTATAATT
51511767 AATATAAAATAATCATTATTAA
1 AATATAAAATAATCATTA-TAA
*
51511789 AATATATAA-AAT-ATTATAA
1 AATATAAAATAATCATTATAA
51511808 AAT
1 AAT
51511811 GTTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.29
20 4 0.19
21 3 0.14
22 8 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AATATAAAATAATCATTATAA
Found at i:51513012 original size:20 final size:20
Alignment explanation
Indices: 51512972--51513012 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
51512962 TTATTAACAC
*
51512972 TTTTTATATTTTTAAACTTA
1 TTTTTATATTTTAAAACTTA
* *
51512992 TTTTTTTATTTTAAAATTTA
1 TTTTTATATTTTAAAACTTA
51513012 T
1 T
51513013 AAATTAGGGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTAAAACTTA
Found at i:51519284 original size:12 final size:12
Alignment explanation
Indices: 51519258--51519291 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
51519248 AAGATACATA
51519258 AATAAATATTAAT
1 AATAAATA-TAAT
51519271 AATAAATATAAT
1 AATAAATATAAT
51519283 AATAAATAT
1 AATAAATAT
51519292 GGTACAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:51520988 original size:44 final size:44
Alignment explanation
Indices: 51520938--51521047 Score: 148
Period size: 44 Copynumber: 2.5 Consensus size: 44
51520928 AATATGCTCT
* *
51520938 ACTGCAACTTCAGGGAAATAAGATTAGTAGCTACAATCTACTCC
1 ACTGCAACTTCAGGGAGATAAGATTAGTAGCTACAACCTACTCC
* * * * * *
51520982 ACTGCAACTTCAAGGAGATAAGATTGGTATCTTCAACCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATTAGTAGCTACAACCTACTCC
51521026 ACTGCAACTTCAGGGAGATAAG
1 ACTGCAACTTCAGGGAGATAAG
51521048 GTTTGCCATA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATTAGTAGCTACAACCTACTCC
Found at i:51521188 original size:143 final size:143
Alignment explanation
Indices: 51520948--51521774 Score: 957
Period size: 143 Copynumber: 5.8 Consensus size: 143
51520938 ACTGCAACTT
* * * * * * *
51520948 CAGGGAAATAAGATT-AGTAG-CTACAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGTA
1 CAGGGAAATAAGATTCACT-GTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTGGTG
* * * * * * * *
51521011 TCTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGCCATAATTTGTAGATTTAATCTA
65 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTG
*
51521076 TTTCACTGTAACGC
130 TTCCACTGTAACGC
* *
51521090 CAGGGAAATAAAATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAATGAGATAAGACTGGTGG
1 CAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTGGTGG
* *
51521155 CTTCAATCTACTCCACTGCAACTTTAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
66 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
* **
51521220 TCCGCTACAACGC
131 TCCACTGTAACGC
* ** * * * * * * * *
51521233 CATGGAAATAAGATTTGCTGTTTTTAATCTACTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGA
1 CAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTGGTGG
* * * * *
51521298 CTTCAATCTGTTCCACTGCAACTTCAAGAATATAAGATTCGCCATAATTTGTAGTTTTAATCTAT
66 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
*
51521363 TCCACTGCAACGC
131 TCCACTGTAACGC
* * * * *
51521376 TAGTGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGG
1 CAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTGGTGG
* * **
51521441 CTTCAATCTGCTTCACTGTAACTTCAAAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
66 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
* *
51521506 TCCACTGTAGCAC
131 TCCACTGTAACGC
* * * **
51521519 CAGGGAAATAA-ATTTCACTGTCTTCAGTCTACTCCGCTGCAACTT-TAGGAAGATAAGGCTAAT
1 CAGGGAAATAAGA-TTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGG-AGATAAGACTGGT
* *
51521582 GGCTTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGATTCACCATAATTTGTAGCTTTAATCT
64 GGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCT
*
51521647 GTTCCACT-TCAATGC
129 GTTCCACTGT-AACGC
* ** * *
51521662 TAGGGAAATAAGATTCACTGTCTTCAGTCTGCTTTGCTGCTACTTCAGGGAGATAA-AGCTGGTG
1 CAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGA-CTGGTG
* *
51521726 GCTTTAATCTGCTCCACTACAACTTCAGGAAGATAAGA-TCTGCCATAAT
65 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAAT
51521775 GACATCAATC
Statistics
Matches: 578, Mismatches: 98, Indels: 17
0.83 0.14 0.02
Matches are distributed among these distances:
142 21 0.04
143 554 0.96
144 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (143 bp):
CAGGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAAGGAGATAAGACTGGTGG
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGT
TCCACTGTAACGC
Found at i:51521484 original size:286 final size:286
Alignment explanation
Indices: 51520971--51521774 Score: 1056
Period size: 286 Copynumber: 2.8 Consensus size: 286
51520961 TTAGTAGCTA
* * ** * *
51520971 CAATCTACTCCACTGCAACTTCAAGGAGATAAGATTGGT-ATCTTCAACCTGCTCTACTGCAACT
1 CAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGA-CTTCAATCTGCTCCACTGCAACT
* * * * * *
51521035 TCAGGGAGATAAGGTTTGCCATAATTTGTAGATTTAATCTATTTCACTGTAACGCCAGGGAAATA
65 TCAGGAAGATAAGATTCGCCATAATTTGTAGATTTAATCTATTCCACTGCAACGCTAGGGAAATA
* ** * *
51521100 AAATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAATGAGATAAGACTGGTGGCTTCAATCTA
130 AGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTG
* *
51521165 CTCCACTGCAACTTTAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCGCTACAA
195 CTCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAA
* * * *
51521230 CGCCATGGAAATAAGATTT-GCTGTTTT
260 CACCAGGGAAATAA-ATTTCACTGTCTT
* * *
51521257 TAATCTACTCCGCTGTAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGTTCCACTGCAACTT
1 CAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTT
* * * *
51521322 CAAGAATATAAGATTCGCCATAATTTGTAGTTTTAATCTATTCCACTGCAACGCTAGTGAAATAA
66 CAGGAAGATAAGATTCGCCATAATTTGTAGATTTAATCTATTCCACTGCAACGCTAGGGAAATAA
*
51521387 GATTCACTGTCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGC
131 GATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGC
* * ** ** *
51521452 TTCACTGTAACTTCAAAAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGTAGC
196 TCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAAC
51521517 ACCAGGGAAATAAATTTCACTGTCTT
261 ACCAGGGAAATAAATTTCACTGTCTT
* * * ** *
51521543 CAGTCTACTCCGCTGCAACTTTAGGAAGATAAGGCTAATGGCTTCAATCTGCTCCACTGCAACTT
1 CAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTT
* * * * * *
51521608 TAGGAAGATAAGATTCACCATAATTTGTAGCTTTAATCTGTTCCACTTCAATGCTAGGGAAATAA
66 CAGGAAGATAAGATTCGCCATAATTTGTAGATTTAATCTATTCCACTGCAACGCTAGGGAAATAA
** * * *
51521673 GATTCACTGTCTTCAGTCTGCTTTGCTGCTACTTCAGGGAGATAAAGCTGGTGGCTTTAATCTGC
131 GATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGC
*
51521738 TCCACTACAACTTCAGGAAGATAAGA-TCTGCCATAAT
196 TCCACTGCAACTTCAGGAAGATAAGATTC-GCCATAAT
51521775 GACATCAATC
Statistics
Matches: 448, Mismatches: 67, Indels: 6
0.86 0.13 0.01
Matches are distributed among these distances:
285 6 0.01
286 441 0.98
287 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (286 bp):
CAATCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGACTTCAATCTGCTCCACTGCAACTT
CAGGAAGATAAGATTCGCCATAATTTGTAGATTTAATCTATTCCACTGCAACGCTAGGGAAATAA
GATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGC
TCCACTGCAACTTCAGGAAGATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTACAAC
ACCAGGGAAATAAATTTCACTGTCTT
Found at i:51523095 original size:45 final size:45
Alignment explanation
Indices: 51523031--51523119 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
51523021 ACAAGACTCA
51523031 AAGAGAAGGAATCTCAACTTCGATGGGTAAAACTGCCTCCATTCG
1 AAGAGAAGGAATCTCAACTTCGATGGGTAAAACTGCCTCCATTCG
*
51523076 AAGAGAAGGAATCTCAACTTCGATGGGTAAAACTGCTTCCATTC
1 AAGAGAAGGAATCTCAACTTCGATGGGTAAAACTGCCTCCATTC
51523120 CATATACCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (45 bp):
AAGAGAAGGAATCTCAACTTCGATGGGTAAAACTGCCTCCATTCG
Found at i:51527363 original size:33 final size:33
Alignment explanation
Indices: 51527321--51527623 Score: 152
Period size: 33 Copynumber: 8.5 Consensus size: 33
51527311 TCCCCCGAGG
*
51527321 GGTTGCTAAGTGCTGATTCCCCTATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
*
51527354 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA--TT-AAT-T---GGT
*
51527396 GGTTGCTAAGTGCTGATTCCCC---CAA--GG-
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
* *
51527423 GGTTGCTAAGTGCTGATT-CCCTGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCT-ATTAATTGGT
*
51527456 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA---TT-AAT-TG---GT
* * *
51527499 GGTTGCTAAGTGCTGATTCCCCGAATGATTGGT
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
*
51527532 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CC-TA---TT-AAT-TG---GT
* * * * *
51527575 GGTTGCTAAGTGCTGATTCCCCGAATCACTGAT
1 GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
51527608 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
51527624 ATCCACCGAT
Statistics
Matches: 211, Mismatches: 22, Indels: 74
0.69 0.07 0.24
Matches are distributed among these distances:
26 3 0.01
27 18 0.09
28 2 0.01
30 1 0.00
32 2 0.01
33 75 0.36
34 7 0.03
35 6 0.03
36 5 0.02
37 5 0.02
38 6 0.03
39 5 0.02
40 4 0.02
41 4 0.02
42 26 0.12
43 42 0.20
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCTATTAATTGGT
Found at i:51527370 original size:103 final size:103
Alignment explanation
Indices: 51527251--51527520 Score: 429
Period size: 102 Copynumber: 2.6 Consensus size: 103
51527241 CATATAAAGG
**
51527251 GGTTGCTGTGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
* *
51527316 CGAGGGGTTGCTAAGTGCTGATTCCCCT-ATTCATTGGT
66 CAAGGGGTTGCTAAGTGCTGATT-CCCTGAATCATTGGT
*
51527354 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGGGGGTTGCTAAGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
*
51527418 CAAGGGGTTGCTAAGTGCTGATTCCCTGAATGATTGGT
66 CAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
* *
51527456 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAA-GGGGTTGCTAAGTGCTGATTCCC
1 GGTTGCTAAGTGCTGATTCCACCGTAT-TTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCC
51527520 C
65 C
51527521 GAATGATTGG
Statistics
Matches: 155, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
101 4 0.03
102 83 0.54
103 66 0.43
104 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.33
Consensus pattern (103 bp):
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
CAAGGGGTTGCTAAGTGCTGATTCCCTGAATCATTGGT
Found at i:51527504 original size:43 final size:43
Alignment explanation
Indices: 51527456--51527594 Score: 183
Period size: 43 Copynumber: 3.5 Consensus size: 43
51527446 AATGATTGGT
51527456 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
*
51527499 GGTTGCTAAGTGCTGATTCC-CCGA-A----TG-AT-TG---GT
1 GGTTGCTAAGTGCTGATTCCACC-ATATCTTTGAATGTGAAAGG
51527532 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
51527575 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
51527595 CCGAATCACT
Statistics
Matches: 82, Mismatches: 2, Indels: 24
0.76 0.02 0.22
Matches are distributed among these distances:
33 22 0.27
34 3 0.04
36 2 0.02
37 2 0.02
38 4 0.05
39 2 0.02
40 2 0.02
42 3 0.04
43 42 0.51
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.33
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCACCATATCTTTGAATGTGAAAGG
Found at i:51527545 original size:76 final size:76
Alignment explanation
Indices: 51527419--51527630 Score: 379
Period size: 76 Copynumber: 2.8 Consensus size: 76
51527409 TGATTCCCCC
*
51527419 AAGGGGTTGCTAAGTGCTGATTCCCTGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
51527484 TTTGAATGTGA
66 TTTGAATGTGA
51527495 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
51527560 TTTGAATGTGA
66 TTTGAATGTGA
* * * *
51527571 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGATGGTTGCTAAGTGCTGAATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACC
51527631 GATAACGGTT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 131 1.00
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (76 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATGATTGGTGGTTGCTAAGTGCTGATTCCACCATATC
TTTGAATGTGA
Found at i:51535368 original size:20 final size:20
Alignment explanation
Indices: 51535343--51535382 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
51535333 CGTAAAATGA
*
51535343 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
* *
51535363 TTTCTGTAAATTGATTTACT
1 TTTCTGGAAAATGATTTACT
51535383 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51535372 original size:34 final size:35
Alignment explanation
Indices: 51535328--51535394 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
51535318 TAGTAAAATA
*
51535328 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
51535362 TTTTCTGTAAATTGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
51535395 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.30, C:0.09, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:51537730 original size:16 final size:16
Alignment explanation
Indices: 51537697--51537731 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
51537687 TTACTATGTG
*
51537697 TATAAAATATTTGAAA
1 TATAAAATATTAGAAA
*
51537713 TATAAAATATTAGTAA
1 TATAAAATATTAGAAA
51537729 TAT
1 TAT
51537732 TTTCAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
TATAAAATATTAGAAA
Found at i:51542450 original size:22 final size:22
Alignment explanation
Indices: 51542425--51542494 Score: 52
Period size: 22 Copynumber: 3.0 Consensus size: 22
51542415 AATTTCTAAT
51542425 TTATATTTATATTTTACAAATA
1 TTATATTTATATTTTACAAATA
* * *
51542447 TTATCTATTGTTTGTATTT-CAATTA
1 TTA--TATT-TATAT-TTTACAAATA
* *
51542472 TTCTATTTATTTTTTACAAATA
1 TTATATTTATATTTTACAAATA
51542494 T
1 T
51542495 ATTTATGGCT
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
21 3 0.08
22 12 0.33
23 4 0.11
24 4 0.11
25 10 0.28
26 3 0.08
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (22 bp):
TTATATTTATATTTTACAAATA
Found at i:51543895 original size:29 final size:29
Alignment explanation
Indices: 51543830--51543895 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
51543820 GATTTCGCGG
*
51543830 AAAATGGCCCATTCCGGTAAATAATCAAA
1 AAAACGGCCCATTCCGGTAAATAATCAAA
* * ** *
51543859 AAATCGGCCCATTTCGGTAAATTTTGAAA
1 AAAACGGCCCATTCCGGTAAATAATCAAA
51543888 AAAACGGC
1 AAAACGGC
51543896 TTTTATTGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.23
Consensus pattern (29 bp):
AAAACGGCCCATTCCGGTAAATAATCAAA
Found at i:51547686 original size:22 final size:22
Alignment explanation
Indices: 51547624--51547695 Score: 117
Period size: 22 Copynumber: 3.3 Consensus size: 22
51547614 ATTGTTCAAA
* **
51547624 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
51547646 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
51547668 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
51547690 CATGAG
1 CATGAG
51547696 GGTTTCTGTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:51549613 original size:2 final size:2
Alignment explanation
Indices: 51549606--51549652 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
51549596 GTAGTAAGTA
51549606 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
51549648 AT AT A
1 AT AT A
51549653 AGTTATACTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:51550421 original size:5 final size:5
Alignment explanation
Indices: 51550411--51550441 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
51550401 AAGAGGAAAG
51550411 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
51550442 CTGAAATCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:51556738 original size:19 final size:17
Alignment explanation
Indices: 51556716--51556753 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
51556706 TTTTACTAAA
51556716 TATATATTTTCTAAATTTT
1 TATATATTTT-T-AATTTT
51556735 TATATATTTTTAATTTT
1 TATATATTTTTAATTTT
51556752 TA
1 TA
51556754 ATTAATTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 1 0.05
19 10 0.53
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TATATATTTTTAATTTT
Found at i:51556797 original size:23 final size:23
Alignment explanation
Indices: 51556760--51556806 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
51556750 TTTAATTAAT
* *
51556760 TGCTGATGTGGCATACATGTAGA
1 TGCTGATATGACATACATGTAGA
51556783 TGCTGATATGACATACATGTAGA
1 TGCTGATATGACATACATGTAGA
51556806 T
1 T
51556807 TATGATGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (23 bp):
TGCTGATATGACATACATGTAGA
Found at i:51557693 original size:36 final size:36
Alignment explanation
Indices: 51557649--51557719 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
51557639 ATTGAATCCC
51557649 ATGATTAATTTACATTTGAAGCTTTAAAAACAGATG
1 ATGATTAATTTACATTTGAAGCTTTAAAAACAGATG
*
51557685 ATGATTAATTTACATTTGAAGCTTTAAGAACAGAT
1 ATGATTAATTTACATTTGAAGCTTTAAAAACAGAT
51557720 TTGGAGGACC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (36 bp):
ATGATTAATTTACATTTGAAGCTTTAAAAACAGATG
Found at i:51557972 original size:21 final size:21
Alignment explanation
Indices: 51557948--51557993 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
51557938 TTGAACCTTT
*
51557948 GCTTCTCTCGCTGCAGCCTCC
1 GCTTCCCTCGCTGCAGCCTCC
* *
51557969 GCTTCCCTCGCTGCCGCCTCT
1 GCTTCCCTCGCTGCAGCCTCC
51557990 GCTT
1 GCTT
51557994 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.48, G:0.20, T:0.30
Consensus pattern (21 bp):
GCTTCCCTCGCTGCAGCCTCC
Found at i:51560601 original size:14 final size:13
Alignment explanation
Indices: 51560584--51560655 Score: 60
Period size: 14 Copynumber: 5.5 Consensus size: 13
51560574 CCTTAGACAT
51560584 TAAACCTTAAACCC
1 TAAACCTT-AACCC
51560598 TAAACCCTTAACCC
1 TAAA-CCTTAACCC
* *
51560612 TTAACACTAAACCC
1 TAAAC-CTTAACCC
*
51560626 TTAACCCTTAACCC
1 -TAAACCTTAACCC
51560640 TAAA--TTAA-CC
1 TAAACCTTAACCC
51560650 TAAACC
1 TAAACC
51560656 CTTTTATCCC
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
10 6 0.13
11 4 0.09
13 4 0.09
14 26 0.55
15 7 0.15
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAACCTTAACCC
Found at i:51560610 original size:21 final size:21
Alignment explanation
Indices: 51560588--51560643 Score: 94
Period size: 21 Copynumber: 2.6 Consensus size: 21
51560578 AGACATTAAA
51560588 CCTTAAACCCTAAACCCTTAAC
1 CCTT-AACCCTAAACCCTTAAC
*
51560610 CCTTAACACTAAACCCTTAAC
1 CCTTAACCCTAAACCCTTAAC
51560631 CCTTAACCCTAAA
1 CCTTAACCCTAAA
51560644 TTAACCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.38, C:0.39, G:0.00, T:0.23
Consensus pattern (21 bp):
CCTTAACCCTAAACCCTTAAC
Found at i:51560637 original size:7 final size:7
Alignment explanation
Indices: 51560583--51560640 Score: 71
Period size: 7 Copynumber: 8.1 Consensus size: 7
51560573 TCCTTAGACA
*
51560583 TTAAACC
1 TTAACCC
51560590 TTAAACCC
1 TT-AACCC
*
51560598 TAAACCC
1 TTAACCC
51560605 TTAACCC
1 TTAACCC
*
51560612 TTAACAC
1 TTAACCC
*
51560619 TAAACCC
1 TTAACCC
51560626 TTAACCC
1 TTAACCC
51560633 TTAACCC
1 TTAACCC
51560640 T
1 T
51560641 AAATTAACCT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 38 0.88
8 5 0.12
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (7 bp):
TTAACCC
Found at i:51560840 original size:7 final size:7
Alignment explanation
Indices: 51560825--51560877 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
51560815 AACTATAAAC
*
51560825 CCCTAAA
1 CCCTTAA
51560832 CCCTTAA
1 CCCTTAA
51560839 CCCTTAA
1 CCCTTAA
51560846 CCCTTAA
1 CCCTTAA
*
51560853 CCCTAAA
1 CCCTTAA
*
51560860 CACTTAA
1 CCCTTAA
*
51560867 ACCTTAGA
1 CCCTTA-A
51560875 CCC
1 CCC
51560878 CAACCATTGC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
7 35 0.92
8 3 0.08
ACGTcount: A:0.34, C:0.42, G:0.02, T:0.23
Consensus pattern (7 bp):
CCCTTAA
Found at i:51560968 original size:14 final size:14
Alignment explanation
Indices: 51560948--51560980 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
51560938 TAGAACATAT
51560948 ATAAACCCTAAATC
1 ATAAACCCTAAATC
*
51560962 CTAAACCCTAAATC
1 ATAAACCCTAAATC
51560976 ATAAA
1 ATAAA
51560981 ACATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.27, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAACCCTAAATC
Found at i:51561006 original size:39 final size:40
Alignment explanation
Indices: 51560920--51561012 Score: 127
Period size: 39 Copynumber: 2.4 Consensus size: 40
51560910 CTCAGCATAT
* * *
51560920 TCCTTAAACCTTGAATCATAGAACATATATAAACCCTAAA
1 TCCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
* *
51560960 TCC-TAAACCCTAAATCATAAAACATATATAAACTATAAA
1 TCCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
51560999 -CCTTAAACCTTAAA
1 TCCTTAAACCTTAAA
51561013 CCTCAACCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.04
39 41 0.89
40 3 0.07
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (40 bp):
TCCTTAAACCTTAAATCATAAAACATATATAAACCATAAA
Found at i:51563403 original size:13 final size:14
Alignment explanation
Indices: 51563374--51563403 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
51563364 CTTTTCTATT
51563374 TTTATTTTTTTCTC
1 TTTATTTTTTTCTC
51563388 TTTATTTTTTTC-C
1 TTTATTTTTTTCTC
51563401 TTT
1 TTT
51563404 CGAACTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTTTCTC
Found at i:51563487 original size:10 final size:10
Alignment explanation
Indices: 51563472--51563496 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51563462 TAAACGTAAA
51563472 AAAAAAAAGC
1 AAAAAAAAGC
51563482 AAAAAAAAGC
1 AAAAAAAAGC
51563492 AAAAA
1 AAAAA
51563497 GCAAATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGC
Found at i:51564564 original size:31 final size:29
Alignment explanation
Indices: 51564500--51564568 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
51564490 ATGATAACGT
* *
51564500 AAGTGACTAAAACGTAACATTTCAAACAT
1 AAGTGACTAAAACGTAACATGTCAAACAA
* *
51564529 AAGTGACTAAAATGTAACCTGAGTCAAACAA
1 AAGTGACTAAAACGTAACAT--GTCAAACAA
51564560 AAGTGACTA
1 AAGTGACTA
51564569 TTTTGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.53
31 16 0.47
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (29 bp):
AAGTGACTAAAACGTAACATGTCAAACAA
Found at i:51566666 original size:28 final size:28
Alignment explanation
Indices: 51566630--51566701 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
51566620 GTATAATAAT
51566630 AATA-AATAATAAT-GTACAACAATAGAAAC
1 AATATAATAATAATAG--CAACAATA-AAAC
*
51566659 AATGATAATAATAATAGTAACAATAAAAC
1 AAT-ATAATAATAATAGCAACAATAAAAC
51566688 AATATAAT-ATAATA
1 AATATAATAATAATA
51566702 TAGCATAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
27 6 0.15
28 5 0.13
29 10 0.26
30 8 0.21
31 9 0.23
32 1 0.03
ACGTcount: A:0.62, C:0.07, G:0.06, T:0.25
Consensus pattern (28 bp):
AATATAATAATAATAGCAACAATAAAAC
Found at i:51578896 original size:2 final size:2
Alignment explanation
Indices: 51578889--51578925 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
51578879 ACCTACTTAC
51578889 TA TA TA 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
51578926 TACAAAGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:51589677 original size:28 final size:25
Alignment explanation
Indices: 51589634--51589695 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 25
51589624 GGCCAATGAA
* *
51589634 TAAAAAAATATTATTTTTTTCTTTTTT
1 TAAAAAAATATCA-TTTTTT-ATTTTT
51589661 TAAATAAAATATCATTTTTTATTTTT
1 TAAA-AAAATATCATTTTTTATTTTT
51589687 TAAAAAAAT
1 TAAAAAAAT
51589696 TAAATAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 5 0.16
26 9 0.28
27 10 0.31
28 8 0.25
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (25 bp):
TAAAAAAATATCATTTTTTATTTTT
Found at i:51589856 original size:19 final size:19
Alignment explanation
Indices: 51589807--51590315 Score: 207
Period size: 19 Copynumber: 25.3 Consensus size: 19
51589797 GCGCCAATGG
*
51589807 GTAATTTTGTATGTATATT
1 GTAATTTTGTATGAATATT
*
51589826 GTAACTTTTTGTATGAACATT
1 GTAA--TTTTGTATGAATATT
51589847 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
51589866 GTAATTATTTTAT-AACTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* *
51589889 GT-ATTTATAGTTTTTG-AT-TA
1 GTAATTT-T-G--TATGAATATT
51589909 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
51589927 GTAATTTTATATGAATATT
1 GTAATTTTGTATGAATATT
*
51589946 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
51589969 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
51589989 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
51590007 GTAATTTTTTGTATGAATATT
1 GTAA--TTTTGTATGAATATT
51590028 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
*
51590047 GTAATTATTTTAT-AATTAATTTT
1 GTAATT-TTGTATGAA-T-A--TT
***
51590070 GT-A-TTTGTAGTTTTTGATT
1 GTAATTTTGTA-TGAAT-ATT
51590089 AGT-ATTTTGTATGAATATT
1 -GTAATTTTGTATGAATATT
*
51590108 GTAATTTTATATGAATATT
1 GTAATTTTGTATGAATATT
*
51590127 GTAATTATT-T-T--ATAAT
1 GTAATT-TTGTATGAATATT
* *
51590143 -TAATTTTGTATTTATATTTTTT
1 GTAATTTTGTA-TGA-A--TATT
51590165 GATTAGTATTTTGTATGAATATT
1 G--TA--ATTTTGTATGAATATT
* *
51590188 GAAATTATTTTAT-AATTAACCTT
1 GTAATT-TTGTATGAA-T-A--TT
* * *
51590211 GT-ATTTATAGTTTTGGAT-TA
1 GTAATTT-T-G-TATGAATATT
51590231 GT-ATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
51590249 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
51590268 GTAATATTGTTTGTATGAATATT
1 GT-A-A-T-TTTGTATGAATATT
51590291 GTAATTTTGTATGAATATT
1 GTAATTTTGTATGAATATT
51590310 GTAATT
1 GTAATT
51590316 ATTTTATAAT
Statistics
Matches: 381, Mismatches: 42, Indels: 134
0.68 0.08 0.24
Matches are distributed among these distances:
14 2 0.01
15 6 0.02
16 7 0.02
17 13 0.03
18 15 0.04
19 146 0.38
20 59 0.15
21 56 0.15
22 17 0.04
23 35 0.09
24 7 0.02
25 8 0.02
26 2 0.01
27 8 0.02
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (19 bp):
GTAATTTTGTATGAATATT
Found at i:51589940 original size:80 final size:80
Alignment explanation
Indices: 51589832--51590272 Score: 382
Period size: 80 Copynumber: 5.5 Consensus size: 80
51589822 TATTGTAACT
*
51589832 TTTTGTATGAACATTGTAATTTTGTATGAATATTGTAATTATTTTATAACTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAACTAATTTTGTATTTAT
*
51589897 AGTTTTTGATTAGTA
66 AGTTTTGGATTAGTA
* *
51589912 TTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAACTAATTTTGTATTTAT
51589977 AGTTTTGGATTAGTA
66 AGTTTTGGATTAGTA
* *
51589992 TTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATT-TTGTATGAA-T-A--TTGTAAT
1 TTTTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATTATTTTAT-AACTAATTTTGTATT
*
51590052 TAT--TTTAT-AATTA--A
63 TATAGTTT-TGGATTAGTA
* * *
51590066 TTTTGTATTTGTAGTTTTTGATTAGTATTTTGTATGAATATTGT-A--ATTTTAT-A-TGAATAT
1 TTTTGTA--TG-A-ATATTG--TA--ATTTTGTATGAATATTGTAATTATTTTATAACT-AATTT
* *
51590126 TGTAATTAT--TTTAT-AATTA--A
57 TGTATTTATAGTTT-TGGATTAGTA
* * * * **
51590146 TTTTGTATTTATATTTTTTGATTAGTATTTTGTATGAATATTGAAATTATTTTATAATTAACCTT
1 TTTTGTA-TGA-A--TATTG--TA--ATTTTGTATGAATATTGTAATTATTTTATAACTAATTTT
51590211 GTATTTATAGTTTTGGATTAGTA
58 GTATTTATAGTTTTGGATTAGTA
51590234 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
51590273 ATTGTTTGTA
Statistics
Matches: 310, Mismatches: 22, Indels: 58
0.79 0.06 0.15
Matches are distributed among these distances:
74 8 0.03
76 11 0.04
77 2 0.01
78 20 0.06
79 3 0.01
80 191 0.62
81 7 0.02
82 25 0.08
83 7 0.02
84 16 0.05
85 2 0.01
86 8 0.03
87 2 0.01
88 8 0.03
ACGTcount: A:0.30, C:0.01, G:0.13, T:0.56
Consensus pattern (80 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAACTAATTTTGTATTTAT
AGTTTTGGATTAGTA
Found at i:51590018 original size:101 final size:99
Alignment explanation
Indices: 51589911--51590132 Score: 390
Period size: 101 Copynumber: 2.2 Consensus size: 99
51589901 TTTGATTAGT
51589911 ATTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
1 ATTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
51589976 TAGTTTTGGATTAGTATTTTGTATGAATATTGTA
66 TAGTTTTGGATTAGTATTTTGTATGAATATTGTA
*
51590010 ATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATT
1 A--TTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATT
* *
51590075 TGTAGTTTTTGATTAGTATTTTGTATGAATATTGTA
64 TATAGTTTTGGATTAGTATTTTGTATGAATATTGTA
*
51590111 ATTTTATATGAATATTGTAATT
1 ATTTTGTATGAATATTGTAATT
51590133 ATTTTATAAT
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
99 21 0.18
101 96 0.82
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.56
Consensus pattern (99 bp):
ATTTTGTATGAATATTGTAATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTA
TAGTTTTGGATTAGTATTTTGTATGAATATTGTA
Found at i:51590114 original size:181 final size:181
Alignment explanation
Indices: 51589810--51590198 Score: 697
Period size: 181 Copynumber: 2.1 Consensus size: 181
51589800 CCAATGGGTA
* *
51589810 ATTTTGTATGTATATTGTAACTTTTTGTATGAACATTGTAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAACATTGTAATTTTGTATGAATATTGTAATTATT
51589875 TTATAACTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATATG
66 TTATAACTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATATG
51589940 AATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
131 AATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
*
51589991 ATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGTATGAATATTGTAATTATT
1 ATTTTGTATGAATATTGTAATTTTTTGTATGAACATTGTAATTTTGTATGAATATTGTAATTATT
* *
51590056 TTATAATTAATTTTGTATTTGTAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATATG
66 TTATAACTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATATG
* *
51590121 AATATTGTAATTATTTTATAATTAATTTTGTATTTATATTTTTTGATTAGT
131 AATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
*
51590172 ATTTTGTATGAATATTGAAATTATTTT
1 ATTTTGTATGAATATTGTAATT-TTTT
51590199 ATAATTAACC
Statistics
Matches: 199, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
181 195 0.98
182 4 0.02
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.57
Consensus pattern (181 bp):
ATTTTGTATGAATATTGTAATTTTTTGTATGAACATTGTAATTTTGTATGAATATTGTAATTATT
TTATAACTAATTTTGTATTTATAGTTTTTGATTAGTATTTTGTATGAATATTGTAATTTTATATG
AATATTGTAATTATTTTATAATTAATTTTGTATTTATAGTTTTGGATTAGT
Found at i:51590117 original size:141 final size:141
Alignment explanation
Indices: 51589972--51590315 Score: 389
Period size: 141 Copynumber: 2.4 Consensus size: 141
51589962 TAATTTTGTA
*
51589972 TTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTG
1 TTTATAGTATTGGATTA-TATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTG
* ** * *
51590037 TATGAATATTGTAATTATTTTATAATTAATTTTGTATTTGTAGTTTTTGATTAGTATTTTGTATG
65 TATGAATATTGAAATTATTTTATAATTAACCTTGTATTTATAGTTTTGGATTAGTATTTTGTATG
51590102 AATATTGTAATT
130 AATATTGTAATT
* * * * * * * * *
51590114 TTATATGAATATTGTAAT-TATTTTATAATTAATTTTGT-ATTTATATTTTTTG-AT-TAGT-AT
1 TT-TAT-AGTATTGGATTATATTTTGT-ATGAATATTGTAATTT-T-TTGTATGAATATTGTAAT
51590174 TTTGTATGAATATTGAAATTATTTTATAATTAACCTTGTATTTATAGTTTTGGATTAGTATTTTG
61 TTTGTATGAATATTGAAATTATTTTATAATTAACCTTGTATTTATAGTTTTGGATTAGTATTTTG
51590239 TATGAATATTGTAATT
126 TATGAATATTGTAATT
* * *
51590255 TTGTATGAATATTGTAATAT-TGTTTGTATGAATATTGTAA--TTTTGTATGAATATTGTAATT
1 TT-TAT-AGTATTGGATTATAT-TTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATT
51590316 ATTTTATAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
138 5 0.03
139 3 0.02
140 4 0.02
141 108 0.64
142 22 0.13
143 15 0.09
144 12 0.07
ACGTcount: A:0.30, C:0.01, G:0.14, T:0.56
Consensus pattern (141 bp):
TTTATAGTATTGGATTATATTTTGTATGAATATTGTAATTTTTTGTATGAATATTGTAATTTTGT
ATGAATATTGAAATTATTTTATAATTAACCTTGTATTTATAGTTTTGGATTAGTATTTTGTATGA
ATATTGTAATT
Found at i:51590176 original size:61 final size:61
Alignment explanation
Indices: 51590111--51590331 Score: 249
Period size: 61 Copynumber: 3.6 Consensus size: 61
51590101 GAATATTGTA
*
51590111 ATTTTATATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATATTTTTTGATTAGT
1 ATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATATTTTTTGATTAGT
* ** * *
51590172 ATTTTGTATGAATATTGAAATTATTTTATAATTAACCTTGTATTTATAGTTTTGGATTAGT
1 ATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATATTTTTTGATTAGT
* * *
51590233 ATTTTGTATGAATATTGTAATT-TTGTATGAA-T-A--TTGTA-ATAT-TGTTTGTATGAATATT
1 ATTTTGTATGAATATTGTAATTATTTTAT-AATTAATTTTGTATTTATAT-TTT-T-TG-AT-TA
51590291 GT
60 GT
51590293 AATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
1 -ATTTTGTATGAATATTGTAATTATTTTATAATTAATTT
51590332 GTTAGTAATT
Statistics
Matches: 135, Mismatches: 13, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
56 6 0.04
57 6 0.04
58 1 0.01
59 3 0.02
60 9 0.07
61 102 0.76
62 6 0.04
63 1 0.01
65 1 0.01
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.56
Consensus pattern (61 bp):
ATTTTGTATGAATATTGTAATTATTTTATAATTAATTTTGTATTTATATTTTTTGATTAGT
Found at i:51590282 original size:42 final size:42
Alignment explanation
Indices: 51590235--51590314 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
51590225 GGATTAGTAT
51590235 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
1 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
51590277 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
1 TTTGTATGAATATTGTAATTTTGTATGAATATTGTAAT
51590315 TATTTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (42 bp):
TTTGTATGAATATTGTAATTTTGTATGAATATTGTAATATTG
Found at i:51590399 original size:56 final size:59
Alignment explanation
Indices: 51590308--51590425 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 59
51590298 TGTATGAATA
* * * * * *
51590308 TTGTAATTATTTTATAATTAATTTGTTAGTAATTTAGGATTATGTTATAAATTTTTGTGT
1 TTGTAATTATTTTATAA-TAATTTATTAATAATTTAGAATTAAGCTATAAATTGTTGTGT
51590368 TTGTAATTA-TTTA-AA-AATTTATTAATAATTTAGAATTAAGCTATAAATTGTTGTGT
1 TTGTAATTATTTTATAATAATTTATTAATAATTTAGAATTAAGCTATAAATTGTTGTGT
51590424 TT
1 TT
51590426 AGTTTAGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
56 37 0.71
58 2 0.04
59 4 0.08
60 9 0.17
ACGTcount: A:0.34, C:0.01, G:0.12, T:0.53
Consensus pattern (59 bp):
TTGTAATTATTTTATAATAATTTATTAATAATTTAGAATTAAGCTATAAATTGTTGTGT
Found at i:51590578 original size:15 final size:16
Alignment explanation
Indices: 51590542--51590578 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
51590532 CTCATTTAAT
51590542 TTTTATATAATGTAAC
1 TTTTATATAATGTAAC
*
51590558 TTTTATATTATGTAA-
1 TTTTATATAATGTAAC
51590573 TTTTAT
1 TTTTAT
51590579 TTGATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTTATATAATGTAAC
Found at i:51590696 original size:27 final size:27
Alignment explanation
Indices: 51590666--51590724 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
51590656 CTCAACATGA
* ** *
51590666 CACCACTAATGGTGCCTCTCAGATAGG
1 CACCACCAATGGCACCTCTAAGATAGG
*
51590693 CACCACCATTGGCACCTCTAAGATAGG
1 CACCACCAATGGCACCTCTAAGATAGG
51590720 CACCA
1 CACCA
51590725 ATACTATGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (27 bp):
CACCACCAATGGCACCTCTAAGATAGG
Found at i:51593797 original size:110 final size:109
Alignment explanation
Indices: 51593603--51593910 Score: 442
Period size: 110 Copynumber: 2.8 Consensus size: 109
51593593 GAAATTCAAG
* * * * * *
51593603 AGGATATTTGGCAATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTT
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
51593665 GAATTTCCCAAACGCAAAACATTGCCTTATTTTGAAATTTTTGAA
66 GAATTT-CCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAA
* *
51593710 AGGCTATTTAGCTATTTGGTTGAACGAGAAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCT
1 AGGATATTTAGCTATTTGGTTGAACGAG-AAAAATCGACACCCAGCACCTTAGGGCACGTTTTCT
*
51593775 CGAATTTCTAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAA
65 CGAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAA
* *
51593820 AGGATATTTAGCTATTTGGTTGGACGAGAAAAATCGACACCCAGCACCTTAAGGCACGTTTTCTC
1 AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
51593885 GAATTTCCAAACGCTAAATATTGCCT
66 GAATTTCCAAACGCAAAACATTGCCT
51593911 CAATTAGAAA
Statistics
Matches: 179, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
107 24 0.13
109 58 0.32
110 87 0.49
111 10 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (109 bp):
AGGATATTTAGCTATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAA
Found at i:51594300 original size:36 final size:36
Alignment explanation
Indices: 51594260--51594332 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
51594250 GAAGAAAAAA
51594260 AGGTATATAGATATACGTACATAAATATGCATATAT
1 AGGTATATAGATATACGTACATAAATATGCATATAT
51594296 AGGTATATAGATATACGTACATAAATATGCATATAT
1 AGGTATATAGATATACGTACATAAATATGCATATAT
51594332 A
1 A
51594333 AATTATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.45, C:0.08, G:0.14, T:0.33
Consensus pattern (36 bp):
AGGTATATAGATATACGTACATAAATATGCATATAT
Found at i:51594586 original size:3 final size:3
Alignment explanation
Indices: 51594431--51594567 Score: 211
Period size: 3 Copynumber: 45.7 Consensus size: 3
51594421 AAATGGAAAT
* * *
51594431 ATA ATG ATA ATA ATA ATA ATA ATA TTG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
51594479 ATA ATA ATA ATA ATA ATG ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
51594527 ATA ATA ATG ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
51594568 GGTAACATTA
Statistics
Matches: 120, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 120 1.00
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:51596168 original size:13 final size:13
Alignment explanation
Indices: 51596152--51596176 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51596142 CTAAATTAGT
51596152 TTTACTAACCACC
1 TTTACTAACCACC
51596165 TTTACTAACCAC
1 TTTACTAACCAC
51596177 TTGTGTAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (13 bp):
TTTACTAACCACC
Found at i:51597166 original size:2 final size:2
Alignment explanation
Indices: 51597159--51597187 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
51597149 TTCACATCTC
51597159 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51597188 CAATAACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:51597477 original size:44 final size:46
Alignment explanation
Indices: 51597409--51597499 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
51597399 CCGGGCCTAA
51597409 TAAATATATATTTTTTATTTTTA-TTTTTTAATTTTAAAATACTTT
1 TAAATATATATTTTTTATTTTTATTTTTTTAATTTTAAAATACTTT
* * *
51597454 TAAA-ATATTTTTTTTATTTTTATTTTTTTATTTTTAAAATATTTT
1 TAAATATATATTTTTTATTTTTATTTTTTTAATTTTAAAATACTTT
51597499 T
1 T
51597500 TTGTATTTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 17 0.40
45 25 0.60
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (46 bp):
TAAATATATATTTTTTATTTTTATTTTTTTAATTTTAAAATACTTT
Found at i:51597479 original size:15 final size:14
Alignment explanation
Indices: 51597462--51597489 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51597452 TTTAAAATAT
51597462 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
51597476 TTTTTTTATTTTTA
1 TTTTTTTATTTTTA
51597490 AAATATTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTTTATTTTTA
Found at i:51598789 original size:14 final size:15
Alignment explanation
Indices: 51598758--51598789 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
51598748 AATTTAAATC
*
51598758 AAAACGAAATTTTAA
1 AAAACGAAACTTTAA
51598773 AAAACGAAACTTTAA
1 AAAACGAAACTTTAA
51598788 AA
1 AA
51598790 GAATGAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.06, T:0.22
Consensus pattern (15 bp):
AAAACGAAACTTTAA
Found at i:51601444 original size:9 final size:9
Alignment explanation
Indices: 51601432--51601493 Score: 52
Period size: 9 Copynumber: 6.7 Consensus size: 9
51601422 TTCACACCAT
51601432 TCTCTCAAC
1 TCTCTCAAC
*
51601441 TCTCTCAAT
1 TCTCTCAAC
*
51601450 TTTCTCAAAC
1 TCTCTC-AAC
*
51601460 CCTCTCAAAC
1 TCTCTC-AAC
* *
51601470 CCTCTCAAG
1 TCTCTCAAC
*
51601479 TCTCTCAGC
1 TCTCTCAAC
51601488 TCTCTC
1 TCTCTC
51601494 GTTTTTTAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
9 27 0.63
10 16 0.37
ACGTcount: A:0.21, C:0.42, G:0.03, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:51601467 original size:10 final size:10
Alignment explanation
Indices: 51601452--51601477 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
51601442 CTCTCAATTT
51601452 TCTCAAACCC
1 TCTCAAACCC
51601462 TCTCAAACCC
1 TCTCAAACCC
51601472 TCTCAA
1 TCTCAA
51601478 GTCTCTCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (10 bp):
TCTCAAACCC
Found at i:51613402 original size:12 final size:12
Alignment explanation
Indices: 51613385--51613409 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51613375 GGTGTTCATT
51613385 CGGTTAACCGAC
1 CGGTTAACCGAC
51613397 CGGTTAACCGAC
1 CGGTTAACCGAC
51613409 C
1 C
51613410 CGAAATAACA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:51613584 original size:9 final size:9
Alignment explanation
Indices: 51613570--51613645 Score: 107
Period size: 9 Copynumber: 8.4 Consensus size: 9
51613560 TTTGGTTAAA
51613570 AATTAACCG
1 AATTAACCG
51613579 AATTAACCG
1 AATTAACCG
*
51613588 AATTAACCA
1 AATTAACCG
*
51613597 AATTACCCG
1 AATTAACCG
51613606 AATTAACCG
1 AATTAACCG
* *
51613615 ACTTATCCG
1 AATTAACCG
51613624 AATTAACCG
1 AATTAACCG
*
51613633 AATTAACCA
1 AATTAACCG
51613642 AATT
1 AATT
51613646 GAATCACTAC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:51613776 original size:13 final size:13
Alignment explanation
Indices: 51613758--51613794 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
51613748 TATGATTGGG
51613758 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
51613771 TTGGGTTGGGTAA
1 TTGGGTTGGGTAA
51613784 TTGGGTTGGGT
1 TTGGGTTGGGT
51613795 TAAATACTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.11, C:0.00, G:0.49, T:0.41
Consensus pattern (13 bp):
TTGGGTTGGGTAA
Found at i:51614695 original size:27 final size:27
Alignment explanation
Indices: 51614659--51614718 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
51614649 AAAAATAAAA
*
51614659 ATTTACCAAAATATTATAAATTTTTTT
1 ATTTATCAAAATATTATAAATTTTTTT
*
51614686 ATTTATCAAAATATTATAACTTTTTTT
1 ATTTATCAAAATATTATAAATTTTTTT
51614713 ATTTAT
1 ATTTAT
51614719 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTATCAAAATATTATAAATTTTTTT
Found at i:51614809 original size:19 final size:19
Alignment explanation
Indices: 51614785--51614835 Score: 68
Period size: 18 Copynumber: 2.7 Consensus size: 19
51614775 TCTAATTAAG
51614785 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
51614804 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
51614822 TAATAACTCTATTT
1 TAATAACTCTATTT
51614836 CTTTTGGTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:51614895 original size:26 final size:26
Alignment explanation
Indices: 51614844--51614930 Score: 138
Period size: 27 Copynumber: 3.3 Consensus size: 26
51614834 TTCTTTTGGT
*
51614844 ATATTTTAATAAATAAAAAAATTTATA
1 ATATTTTAGTAAATAAAAAAA-TTATA
51614871 ATATTTTAGTAAATAAAAAAATTATA
1 ATATTTTAGTAAATAAAAAAATTATA
*
51614897 ATATTTTGGTAAATAAAAAAAATTATA
1 ATATTTTAGTAAAT-AAAAAAATTATA
51614924 ATATTTT
1 ATATTTT
51614931 GATAAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 18 0.32
27 39 0.68
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
ATATTTTAGTAAATAAAAAAATTATA
Found at i:51619276 original size:5 final size:5
Alignment explanation
Indices: 51619266--51619295 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
51619256 ATGTTAAAAC
*
51619266 TAAAT TAAAT TAAGT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
51619296 CAACCTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:51625094 original size:13 final size:14
Alignment explanation
Indices: 51625060--51625087 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51625050 ATTGAGATAT
51625060 AAAATTTATATTAG
1 AAAATTTATATTAG
51625074 AAAATTTATATTAG
1 AAAATTTATATTAG
51625088 CAATTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AAAATTTATATTAG
Found at i:51626709 original size:25 final size:25
Alignment explanation
Indices: 51626680--51626731 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
51626670 TAATTCAAGT
*
51626680 TTCAACACTTTTTATATATTT-GAAA
1 TTCAA-ACTTTGTATATATTTGGAAA
* *
51626705 TTCAATCTTTGTATATTTTTGGAAA
1 TTCAAACTTTGTATATATTTGGAAA
51626730 TT
1 TT
51626732 TTTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.31, C:0.10, G:0.08, T:0.52
Consensus pattern (25 bp):
TTCAAACTTTGTATATATTTGGAAA
Found at i:51637916 original size:10 final size:10
Alignment explanation
Indices: 51637901--51637925 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51637891 CATTTTTCTC
51637901 TCTTCATTGT
1 TCTTCATTGT
51637911 TCTTCATTGT
1 TCTTCATTGT
51637921 TCTTC
1 TCTTC
51637926 CCCATTCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.24, G:0.08, T:0.60
Consensus pattern (10 bp):
TCTTCATTGT
Found at i:51640048 original size:8 final size:8
Alignment explanation
Indices: 51640035--51640060 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
51640025 CCCGTGTGGG
51640035 ATCCCTAA
1 ATCCCTAA
51640043 ATCCCTAA
1 ATCCCTAA
51640051 ATCCCTAA
1 ATCCCTAA
51640059 AT
1 AT
51640061 TAGCCATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.27
Consensus pattern (8 bp):
ATCCCTAA
Found at i:51645474 original size:15 final size:15
Alignment explanation
Indices: 51645454--51645507 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
51645444 AAATGCAATG
51645454 AATAAATATAACTAA
1 AATAAATATAACTAA
** *
51645469 AATAAATGCAA-T-G
1 AATAAATATAACTAA
51645482 AATAAATATAACTAA
1 AATAAATATAACTAA
51645497 AATAAAGTATA
1 AATAAA-TATA
51645508 GGGATTAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 9 0.30
14 2 0.07
15 15 0.50
16 4 0.13
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.26
Consensus pattern (15 bp):
AATAAATATAACTAA
Found at i:51645478 original size:28 final size:28
Alignment explanation
Indices: 51645444--51645502 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
51645434 TTTCCTTTGA
51645444 AAATGCAATGAATAAATATAACTAAAAT
1 AAATGCAATGAATAAATATAACTAAAAT
51645472 AAATGCAATGAATAAATATAACTAAAAT
1 AAATGCAATGAATAAATATAACTAAAAT
51645500 AAA
1 AAA
51645503 GTATAGGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.24
Consensus pattern (28 bp):
AAATGCAATGAATAAATATAACTAAAAT
Found at i:51650198 original size:17 final size:16
Alignment explanation
Indices: 51650165--51650220 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 16
51650155 CATAATATAG
*
51650165 TATAAATAATTATGAT
1 TATAAATAATAATGAT
51650181 TATAAATAATGAATGAT
1 TATAAATAAT-AATGAT
**
51650198 TATATGTAATATTATGAT
1 TATAAATAATA--ATGAT
51650216 TATAA
1 TATAA
51650221 TATGTACAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 11 0.33
17 13 0.39
18 9 0.27
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (16 bp):
TATAAATAATAATGAT
Found at i:51651514 original size:48 final size:48
Alignment explanation
Indices: 51651443--51651540 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
51651433 GGATCTGAGG
51651443 ACCGGATTGGTAATGATATATTTGTAATTTGAAAGCTTAAATTTGAAA
1 ACCGGATTGGTAATGATATATTTGTAATTTGAAAGCTTAAATTTGAAA
*
51651491 ACCGGATTGGTAATGATATATTTGTAATTTGAAAGCTTAAGTTTGAAA
1 ACCGGATTGGTAATGATATATTTGTAATTTGAAAGCTTAAATTTGAAA
51651539 AC
1 AC
51651541 TTAATTTGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (48 bp):
ACCGGATTGGTAATGATATATTTGTAATTTGAAAGCTTAAATTTGAAA
Found at i:51651550 original size:13 final size:13
Alignment explanation
Indices: 51651515--51651551 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
51651505 GATATATTTG
*
51651515 TAATTTGAAAGCT
1 TAATTTGAAAACT
51651528 TAAGTTTGAAAACT
1 TAA-TTTGAAAACT
51651542 TAATTTGAAA
1 TAATTTGAAA
51651552 TTTTGGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (13 bp):
TAATTTGAAAACT
Found at i:51651916 original size:67 final size:68
Alignment explanation
Indices: 51651807--51652048 Score: 294
Period size: 67 Copynumber: 3.6 Consensus size: 68
51651797 TTCACTTGTC
* * * * *
51651807 TTTTCTTGCAGGGAATATTTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
*
51651872 TCA
66 TTA
*
51651875 -TTTCTTGCAGGGAATCTCTCTTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CA
51651939 CATTA
64 CATTA
* * * *
51651944 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CA-TAATTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA--
51652006 CATTA
64 CATTA
* * *
51652011 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
51652049 CTTTTTGGAC
Statistics
Matches: 151, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
65 2 0.01
67 112 0.74
68 2 0.01
69 7 0.05
70 28 0.19
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (68 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
TTA
Found at i:51652046 original size:35 final size:35
Alignment explanation
Indices: 51651807--51652048 Score: 307
Period size: 35 Copynumber: 7.1 Consensus size: 35
51651797 TTCACTTGTC
* * * *
51651807 TTTTCTTGCAGGGAATATTTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* * *
51651842 TTCTGTTGCAGGGAATCTTTCCTGTTCA--CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
51651875 -TTTCTTGCAGGGAATCTCTCTTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
51651909 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
51651944 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CA-TA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
51651976 ATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
51652011 TTTTGTTGCAGGGAATCTCTCCTGTTCATGTATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
51652046 TTT
1 TTT
51652049 CTTTTTGGAC
Statistics
Matches: 181, Mismatches: 20, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
32 50 0.28
33 6 0.03
34 6 0.03
35 119 0.66
ACGTcount: A:0.19, C:0.21, G:0.17, T:0.42
Consensus pattern (35 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:51652048 original size:102 final size:102
Alignment explanation
Indices: 51651807--51652038 Score: 410
Period size: 102 Copynumber: 2.3 Consensus size: 102
51651797 TTCACTTGTC
* * * *
51651807 TTTTCTTGCAGGGAATATTTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
* *
51651872 TCATTTCTTGCAGGGAATCTCTCTTGTTCACGCATTA
66 TAATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
51651909 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
51651974 TAATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TAATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
51652011 TTTTGTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
51652039 TGTATTATTT
Statistics
Matches: 124, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 124 1.00
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
TAATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:51664039 original size:13 final size:13
Alignment explanation
Indices: 51664021--51664047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51664011 AACTTTTGAT
51664021 TAATATAATATAA
1 TAATATAATATAA
51664034 TAATATAATATAA
1 TAATATAATATAA
51664047 T
1 T
51664048 TACTAAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAATATAATATAA
Found at i:51665495 original size:32 final size:34
Alignment explanation
Indices: 51665459--51665530 Score: 89
Period size: 32 Copynumber: 2.2 Consensus size: 34
51665449 TTATTTCTAT
*
51665459 TAATGAAAATT-TTAAAATAATAATA-TAAA-AAA
1 TAATGAAAATTATTAAAA-AATAAAACTAAACAAA
51665491 TAATG-AAATTGATTAAAAAATAAAACTAAACAAA
1 TAATGAAAATT-ATTAAAAAATAAAACTAAACAAA
51665525 TAATGA
1 TAATGA
51665531 TGAGAGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
31 5 0.15
32 11 0.32
33 10 0.29
34 8 0.24
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (34 bp):
TAATGAAAATTATTAAAAAATAAAACTAAACAAA
Found at i:51666039 original size:82 final size:82
Alignment explanation
Indices: 51665879--51666032 Score: 186
Period size: 82 Copynumber: 1.9 Consensus size: 82
51665869 GAGAATTAAT
* * * * * * * * *
51665879 TTAATTTAATTTTCTTATAAATAGAAAATTTATAAATTGATATATAGTGAAATTATATTTGGACT
1 TTAATTCAATCTTCTTAAAAATAGAAAAATTATAAATTAATATACAGTAAAATTATATTTGAACC
51665944 CCTAAAATGAAAAAAAA
66 CCTAAAATGAAAAAAAA
*
51665961 TTAATTCAATCTTCTTAAAAATA-AAGAAATTATAAATTAATATACAGTAAAATTGTACTTT-AA
1 TTAATTCAATCTTCTTAAAAATAGAA-AAATTATAAATTAATATACAGTAAAATTATA-TTTGAA
51666024 CCCCTAAAA
64 CCCCTAAAA
51666033 ATAAAAATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
81 2 0.03
82 55 0.92
83 3 0.05
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.37
Consensus pattern (82 bp):
TTAATTCAATCTTCTTAAAAATAGAAAAATTATAAATTAATATACAGTAAAATTATATTTGAACC
CCTAAAATGAAAAAAAA
Found at i:51666892 original size:2 final size:2
Alignment explanation
Indices: 51666885--51666909 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
51666875 CTTTTAAATT
51666885 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 T
51666910 TCAGGAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51670019 original size:39 final size:38
Alignment explanation
Indices: 51669958--51670031 Score: 105
Period size: 38 Copynumber: 1.9 Consensus size: 38
51669948 GAACTTGAGG
*
51669958 TCTTAAACTTTCCAAATTTCTAGGGCCTTAAGCTTAAGA
1 TCTTAAACTTTCCAAATCTCTA-GGCCTTAAGCTTAAGA
*
51669997 TCTTAAAC-TTCCTAAATCTCTAGTCCTTAAGCTTA
1 TCTTAAACTTTCC-AAATCTCTAGGCCTTAAGCTTA
51670032 CCTTTAAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 16 0.50
39 16 0.50
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.38
Consensus pattern (38 bp):
TCTTAAACTTTCCAAATCTCTAGGCCTTAAGCTTAAGA
Found at i:51674360 original size:48 final size:48
Alignment explanation
Indices: 51674303--51674424 Score: 120
Period size: 48 Copynumber: 2.5 Consensus size: 48
51674293 GCGGATGGAC
* * **
51674303 CACTGGTCGTGCAAATAAACTG-CTAACTAAAATACGTTGTGGATAAAA
1 CACTAGTCGTGCAGATAAACTGTC-AACTAAAATACGTTGTCAATAAAA
* * * * * *
51674351 TACTAGTCGTGTAGACAAATTGTCGACTAAAATACGTTGTCAATAAAC
1 CACTAGTCGTGCAGATAAACTGTCAACTAAAATACGTTGTCAATAAAA
* *
51674399 CACTAGTCGTACAGATAAACTTTCAA
1 CACTAGTCGTGCAGATAAACTGTCAA
51674425 TTTCTTCCTT
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
48 55 0.98
49 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (48 bp):
CACTAGTCGTGCAGATAAACTGTCAACTAAAATACGTTGTCAATAAAA
Found at i:51675080 original size:29 final size:29
Alignment explanation
Indices: 51675036--51675096 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
51675026 GGCACATGGT
51675036 CGTGTGGTCCACACGCCCGTGTAGGAGAC
1 CGTGTGGTCCACACGCCCGTGTAGGAGAC
*
51675065 CGTGTGGTCCAGACGCCCGTGTAGGAGAC
1 CGTGTGGTCCACACGCCCGTGTAGGAGAC
51675094 CGT
1 CGT
51675097 TCCCTAAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.16, C:0.30, G:0.36, T:0.18
Consensus pattern (29 bp):
CGTGTGGTCCACACGCCCGTGTAGGAGAC
Found at i:51679886 original size:27 final size:27
Alignment explanation
Indices: 51679834--51679886 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
51679824 GATTTGACAA
*
51679834 ATGATTCTTGATATATGACATTCTAAT
1 ATGATTCTTGATATATGACATACTAAT
* *
51679861 ATGATTTTTGCATATGTGA-ATACTAA
1 ATGATTCTTG-ATATATGACATACTAA
51679887 AAGTAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (27 bp):
ATGATTCTTGATATATGACATACTAAT
Found at i:51683040 original size:25 final size:25
Alignment explanation
Indices: 51683011--51683058 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
51683001 TCTTAAAATA
*
51683011 GGAATAATATTATTATAAAACATTC
1 GGAATAAGATTATTATAAAACATTC
*
51683036 GGAATAGGATTATTATAAAACAT
1 GGAATAAGATTATTATAAAACAT
51683059 CTAATAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.12, T:0.33
Consensus pattern (25 bp):
GGAATAAGATTATTATAAAACATTC
Found at i:51684359 original size:21 final size:21
Alignment explanation
Indices: 51684319--51684357 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
51684309 TTTCGATTCG
51684319 CTTTTTATCTTCTTTATTTTC
1 CTTTTTATCTTCTTTATTTTC
51684340 CTTTTTAT-TT-TTTATTTT
1 CTTTTTATCTTCTTTATTTT
51684358 TTACTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (21 bp):
CTTTTTATCTTCTTTATTTTC
Found at i:51685524 original size:26 final size:25
Alignment explanation
Indices: 51685465--51685524 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
51685455 CTTTTTATAC
*
51685465 ATACATAT-TTTTATTTTAGTAAAT
1 ATACATATATTTTAATTTAGTAAAT
* * **
51685489 ACACACATATTTTAATTTATGTTTAT
1 ATACATATATTTTAATTTA-GTAAAT
51685515 ATACATATAT
1 ATACATATAT
51685525 ATCTCTTTGC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 6 0.22
25 9 0.33
26 12 0.44
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.50
Consensus pattern (25 bp):
ATACATATATTTTAATTTAGTAAAT
Found at i:51688645 original size:26 final size:27
Alignment explanation
Indices: 51688616--51688674 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
51688606 GTGTATAACA
*
51688616 GTCATTTTACC-TATGGGGGTATTTCG
1 GTCATTTTACCTTATGGGGGCATTTCG
51688642 GTCATTTTACCTTATGGGGGCATTTCG
1 GTCATTTTACCTTATGGGGGCATTTCG
*
51688669 ATCATT
1 GTCATT
51688675 CTAGCCATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 11 0.37
27 19 0.63
ACGTcount: A:0.17, C:0.17, G:0.24, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCTTATGGGGGCATTTCG
Found at i:51688745 original size:27 final size:27
Alignment explanation
Indices: 51688715--51688866 Score: 119
Period size: 27 Copynumber: 5.4 Consensus size: 27
51688705 GGTATAATAG
*
51688715 TCATTTTACCTTATGAGGGTATTTCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
*
51688742 TCATTTTACCCTATAGAGGTATTTTGATATTTCGG
1 TCATTTTACCCTAT-GAGG------G-TATTTCGA
* *
51688777 TCACTTTACCCTATG-GGGTATATCGA
1 TCATTTTACCCTATGAGGGTATTTCGA
* * *
51688803 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCGA
* *
51688830 TCATTCTATCCTAT-AGGGGTATTTCGA
1 TCATTTTACCCTATGA-GGGTATTTCGA
*
51688857 TTATTTTACC
1 TCATTTTACC
51688867 TATTTTGGGG
Statistics
Matches: 98, Mismatches: 17, Indels: 20
0.73 0.13 0.15
Matches are distributed among these distances:
26 20 0.20
27 50 0.51
28 4 0.04
33 2 0.02
34 2 0.02
35 20 0.20
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCGA
Found at i:51697137 original size:53 final size:53
Alignment explanation
Indices: 51697058--51697212 Score: 202
Period size: 53 Copynumber: 2.9 Consensus size: 53
51697048 CCATGGCGCT
* *
51697058 GAAGAACTATATCGTGTAAGATCATAACTGGTGGGTTACGACATCATATAGAAA
1 GAAGAAC-ATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGAAA
* * * ** * *
51697112 GAAGACCATATCATGTAAGACCATAACTAGTATGTTATGACATTATATGGAAA
1 GAAGAACATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGAAA
* *
51697165 TAAGAACATATCGTGTAAGACCATAACTGGTGGGTTATGGCATCATAT
1 GAAGAACATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATAT
51697213 TGGAAAATTT
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
53 78 0.93
54 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (53 bp):
GAAGAACATATCGTGTAAGACCATAACTGGTGGGTTATGACATCATATAGAAA
Found at i:51697373 original size:29 final size:27
Alignment explanation
Indices: 51697341--51697544 Score: 96
Period size: 28 Copynumber: 7.3 Consensus size: 27
51697331 AAGTACAGCA
51697341 TTTGTGGAAAAACTTTAGAAAGGTAAGCC
1 TTTGTGG-AAAACTTT-GAAAGGTAAGCC
* * *
51697370 TTTGTGGAGAACTTGTTAAAGG-ACA-CA
1 TTTGTGGAAAACTT-TGAAAGGTA-AGCC
**
51697397 TTTGTGGCAAAACTTTAGAAAGGTAAGTG
1 TTTGTGG-AAAACTTT-GAAAGGTAAGCC
* * *
51697426 TTTGTGGTAAACTTTTTAAAGGGCAA-CC
1 TTTGTGGAAAAC-TTTGAAA-GGTAAGCC
*
51697454 TTTGTGGCAAAACTCTTGAAGGGTAAGCC
1 TTTGTGG-AAAACT-TTGAAAGGTAAGCC
* *
51697483 TTCGTGTCG-AAACTCTT-AAAGG-ACGCC
1 TT--TGTGGAAAACT-TTGAAAGGTAAGCC
* * * * *
51697510 CTTGTGGCAAGACTCTAAAAGGAAAGCC
1 TTTGTGG-AAAACTTTGAAAGGTAAGCC
51697538 TTTGTGG
1 TTTGTGG
51697545 CGAGTACTTA
Statistics
Matches: 133, Mismatches: 25, Indels: 35
0.69 0.13 0.18
Matches are distributed among these distances:
25 4 0.03
26 1 0.01
27 24 0.18
28 57 0.43
29 43 0.32
31 4 0.03
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (27 bp):
TTTGTGGAAAACTTTGAAAGGTAAGCC
Found at i:51697409 original size:56 final size:55
Alignment explanation
Indices: 51697330--51697544 Score: 202
Period size: 56 Copynumber: 3.8 Consensus size: 55
51697320 AACATCAGTA
* * *
51697330 AAAGTACAGCATTTGTGGAAAAACTTTAGAAAGGTAAGCCTTTGTGGAGAACTTGTT
1 AAAGGACA-CATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGGA-AACTTCTT
** *
51697387 AAAGGACACATTTGTGGCAAAACTTTAGAAAGGTAAGTGTTTGTGGTAAACTTTTT
1 AAAGGACACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGG-AAACTTCTT
* * * *
51697443 AAAGGGCAACCTTTGTGGCAAAACTCTT-GAAGGGTAAGCCTTCGTGTCGAAAC-TCTT
1 AAAGGAC-ACATTTGTGGCAAAACT-TTAGAAAGGTAAGCCTT--TGTGGAAACTTCTT
* ** * * *
51697500 AAAGGACGCCCTTGTGGCAAGACTCTA-AAAGGAAAGCCTTTGTGG
1 AAAGGACACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGG
51697545 CGAGTACTTA
Statistics
Matches: 132, Mismatches: 20, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
53 4 0.03
55 12 0.09
56 62 0.47
57 44 0.33
58 6 0.05
59 4 0.03
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (55 bp):
AAAGGACACATTTGTGGCAAAACTTTAGAAAGGTAAGCCTTTGTGGAAACTTCTT
Found at i:51697418 original size:28 final size:28
Alignment explanation
Indices: 51697330--51697419 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
51697320 AACATCAGTA
*
51697330 AAAGTACAGCATTTGTGGAAAAACTTTAG
1 AAAGGACAGCATTTGTGG-AAAACTTTAG
* * *
51697359 AAAGGTA-AGCCTTTGTGGAGAACTTGT-T
1 AAAGG-ACAGCATTTGTGGAAAACTT-TAG
51697387 AAAGGACA-CATTTGTGGCAAAACTTTAG
1 AAAGGACAGCATTTGTGG-AAAACTTTAG
51697415 AAAGG
1 AAAGG
51697420 TAAGTGTTTG
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
27 10 0.20
28 23 0.47
29 15 0.31
30 1 0.02
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (28 bp):
AAAGGACAGCATTTGTGGAAAACTTTAG
Found at i:51697530 original size:27 final size:28
Alignment explanation
Indices: 51697494--51697578 Score: 82
Period size: 31 Copynumber: 2.9 Consensus size: 28
51697484 TCGTGTCGAA
* *
51697494 ACTCTTAAAGGACGCCCTTGTGGCAAG-
1 ACTCTAAAAGGACGCCTTTGTGGCAAGT
* *
51697521 ACTCTAAAAGGAAAGCCTTTGTGGCGAGT
1 ACTCTAAAAGG-ACGCCTTTGTGGCAAGT
*
51697550 ACTTAATGAAAAGGACGCCTTTGTGGCAA
1 AC-T-CT-AAAAGGACGCCTTTGTGGCAA
51697579 TATCTAGATA
Statistics
Matches: 46, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 10 0.22
28 13 0.28
29 2 0.04
30 1 0.02
31 14 0.30
32 6 0.13
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
ACTCTAAAAGGACGCCTTTGTGGCAAGT
Found at i:51698279 original size:5 final size:5
Alignment explanation
Indices: 51698269--51698360 Score: 170
Period size: 5 Copynumber: 18.8 Consensus size: 5
51698259 TTTGTTCTAT
51698269 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
51698319 TATAA TATAA TATAA TATAA TATAA TAT-A TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
51698361 CTTAATAATA
Statistics
Matches: 85, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.09
5 77 0.91
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:51706738 original size:22 final size:22
Alignment explanation
Indices: 51706711--51706760 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
51706701 TCTCTAATCT
51706711 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATTC
51706733 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCCAAAATTC
51706755 TCTCAA
1 TCTCAA
51706761 ACTCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.28, C:0.32, G:0.00, T:0.40
Consensus pattern (22 bp):
TCTCAATTTCCTTCCAAAATTC
Found at i:51706839 original size:11 final size:11
Alignment explanation
Indices: 51706819--51706869 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
51706809 TTTAAAATAA
51706819 TTATAATTTTT
1 TTATAATTTTT
51706830 TTAT-ATTTTT
1 TTATAATTTTT
* **
51706840 TTAAAATAATT
1 TTATAATTTTT
51706851 TTA-AATTTTT
1 TTATAATTTTT
51706861 TTAT-ATTTT
1 TTATAATTTT
51706870 CATCAATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 22 0.67
11 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:51706842 original size:30 final size:31
Alignment explanation
Indices: 51706806--51706869 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
51706796 CTCAAATCCA
51706806 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
51706836 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
51706867 TTT
1 TTT
51706870 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:51707961 original size:7 final size:7
Alignment explanation
Indices: 51707949--51707973 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
51707939 AGTCGATTGA
51707949 TATTTAG
1 TATTTAG
51707956 TATTTAG
1 TATTTAG
51707963 TATTTAG
1 TATTTAG
51707970 TATT
1 TATT
51707974 ATGTATATAA
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:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:51708646 original size:18 final size:18
Alignment explanation
Indices: 51708625--51708659 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
51708615 AGGTATGTTT
* *
51708625 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
51708643 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
51708660 TCCATAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:51711495 original size:126 final size:124
Alignment explanation
Indices: 51711196--51711534 Score: 534
Period size: 126 Copynumber: 2.7 Consensus size: 124
51711186 CCCAAACTTA
* * *
51711196 CTACTGTAGAAAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTTCTTAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
51711261 TAGAAACGATTTTATACCATTTGCTCAGAAACATCAGAAAAAAATTATTTCTTACATAAC
66 TAG-AACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAATTATTTCTTACATAAC
* *
51711321 CTACTGTAGCAAAATCGCGTCTAATAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
51711386 TACAGACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAAATTATTTCTTACATGAC
66 TAGA-ACGATTTTATACTATTTGCTCAGAAAAATCAG-AAAAAAATTATTTCTTACATAAC
* * *
51711447 GTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
51711512 TAGAAGCGATTTTATACTATTTG
66 TAGAA-CGATTTTATACTATTTG
51711535 ACCAGAGACG
Statistics
Matches: 196, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
124 1 0.01
125 93 0.47
126 102 0.52
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAATCGCGTCCAAGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAACGATTTTATACTATTTGCTCAGAAAAATCAGAAAAAAATTATTTCTTACATAAC
Found at i:51711980 original size:45 final size:45
Alignment explanation
Indices: 51711916--51712002 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
51711906 AACAGATACT
* *
51711916 CGGTGGATTCAGCACATAGCAACCACCTTATTAACCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGATGTC
*
51711961 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGAT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGAT
51712003 ATTCGGTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAACCAATGATGTC
Found at i:51712073 original size:51 final size:50
Alignment explanation
Indices: 51712006--51712198 Score: 217
Period size: 51 Copynumber: 3.8 Consensus size: 50
51711996 CAATGATATT
* *
51712006 CGGTTCACATAGTAGCCTGCACATAGTACTACACAGGTGACCATTACCATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * * *
51712057 CGGTACACGTAGTAGCCTACACATAGTACTATACACGTGATCGAAACTATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * *
51712108 CGGTACGCATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* *
51712158 TGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGAC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGAC
51712199 TATCACTTTC
Statistics
Matches: 115, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
49 2 0.02
50 38 0.33
51 73 0.63
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:51712194 original size:101 final size:101
Alignment explanation
Indices: 51712013--51712197 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
51712003 ATTCGGTTCA
*
51712013 CATAGTAGCCTGCACATAGTACTACACAGGTGACCATTACCATCCGGTACACGTAGTAGCCTACA
1 CATAGTAGCCTGCACATAGTACTACACAGGCGACCA-TACCATCCGGTACACGTAGTAGCCTACA
*
51712078 CATAGTACTATACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * * * *
51712115 CATAGTAGCTTGCACATAGTACTACACATGCGACC-TATCATTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACAGGCGACCATACCA-TCCGGTACACGTAGTAGCCTACA
51712179 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
51712198 CTATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.52
102 32 0.43
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACAGGCGACCATACCATCCGGTACACGTAGTAGCCTACAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:51722334 original size:42 final size:41
Alignment explanation
Indices: 51722157--51722468 Score: 333
Period size: 42 Copynumber: 7.4 Consensus size: 41
51722147 ACGTCGCTAA
* * * *
51722157 CTTTTGCGGCGCTTACAGAAAAAAATGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGGAAAAAACGCCGCTAAAG-TAATGTT
*
51722201 CTTTAGCGGCG-TTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT-AGGAAA-AAACGCCGCTAAAG-TAATGTT
* * * *
51722244 CTTTAGCGGCGCTTATG-TAAAACGCCGCTAAAGAACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGTA-ATGTT
*
51722285 CTTTAGCGGCGCTTAGGAAAAAACGTCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCT-AAAGTAATGTT
* * *
51722327 CTATAGCGGCGCTTGGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAG-TAATGTT
*
51722369 ATTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAA-AAAACGCCGCT-AAAGTAATGTT
* *
51722412 CTATAGCGGCGCTT-GGTCAAAAACGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGG-AAAAAACGCCGCT-AAAGTAATGTT
*
51722454 CTTTAGCGGTGCTTA
1 CTTTAGCGGCGCTTA
51722469 TTTCACAAAC
Statistics
Matches: 231, Mismatches: 27, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
41 38 0.16
42 106 0.46
43 71 0.31
44 16 0.07
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (41 bp):
CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGTAATGTT
Found at i:51722423 original size:85 final size:84
Alignment explanation
Indices: 51722176--51722468 Score: 387
Period size: 84 Copynumber: 3.5 Consensus size: 84
51722166 CGCTTACAGA
* *
51722176 AAAAAATGCCGCTAAAGATCATGTTCTTTAGCGGCG-TTAAGGAAATAAACGCCGCT-AAAGATC
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGGAAA-AAACGCCGCTAAAAG-TA
* **
51722239 ATGTTCTTTAGCGGCGCTTATG
63 ATGTTCTATAGCGGCGCTTGGG
* * * *
51722261 -TAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTAGGAAAAAACGTCGCTAAAAGTAATG
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATG
51722325 TTCTATAGCGGCGCTTGGG
66 TTCTATAGCGGCGCTTGGG
*
51722344 AAAAAACGCCGCTAAAGATCATGTTATTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAAAGTAAT
1 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAAGTAAT
*
51722409 GTTCTATAGCGGCGCTTGGT
65 GTTCTATAGCGGCGCTTGGG
* * *
51722429 CAAAAACGCCGCTAAA-AGTAATGTTCTTTAGCGGTGCTTA
1 AAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTA
51722469 TTTCACAAAC
Statistics
Matches: 184, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
83 29 0.16
84 81 0.44
85 74 0.40
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAAGTAATG
TTCTATAGCGGCGCTTGGG
Found at i:51722925 original size:12 final size:12
Alignment explanation
Indices: 51722904--51722940 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
51722894 TCAACCTCTA
*
51722904 CTTCTATCGCTG
1 CTTCTCTCGCTG
51722916 CTTCTCTCGCTG
1 CTTCTCTCGCTG
51722928 CTTCTCTCGCTG
1 CTTCTCTCGCTG
51722940 C
1 C
51722941 GGCCTCTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.03, C:0.41, G:0.16, T:0.41
Consensus pattern (12 bp):
CTTCTCTCGCTG
Found at i:51722955 original size:21 final size:21
Alignment explanation
Indices: 51722925--51722993 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
51722915 GCTTCTCTCG
*
51722925 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
51722946 CTGTTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
51722967 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
51722988 CTGCTT
1 CTGCTT
51722994 TAAGTTGTTG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.01, C:0.42, G:0.20, T:0.36
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:51726385 original size:9 final size:9
Alignment explanation
Indices: 51726352--51726758 Score: 481
Period size: 9 Copynumber: 45.7 Consensus size: 9
51726342 TTAAAACGCC
51726352 AGTTATGT-
1 AGTTATGTA
51726360 A-TTATGT-
1 AGTTATGTA
51726367 A-TTATGTA
1 AGTTATGTA
51726375 AG-TACTGTA
1 AGTTA-TGTA
51726384 AGTTATGTA
1 AGTTATGTA
51726393 AGTTATGTA
1 AGTTATGTA
*
51726402 AGTTATTTA
1 AGTTATGTA
*
51726411 ATTTATGTA
1 AGTTATGTA
51726420 AGTTATGTA
1 AGTTATGTA
51726429 AGTTATGTA
1 AGTTATGTA
51726438 AGTTATGTA
1 AGTTATGTA
51726447 AGTTATGTA
1 AGTTATGTA
*
51726456 AGTTA-CTA
1 AGTTATGTA
*
51726464 CATTTATGTA
1 -AGTTATGTA
51726474 AGTTATGTA
1 AGTTATGTA
* *
51726483 AGATATTTA
1 AGTTATGTA
*
51726492 ATTTATGTA
1 AGTTATGTA
51726501 AGTTATGTA
1 AGTTATGTA
*
51726510 AGTTATTTA
1 AGTTATGTA
*
51726519 ATTTATGTA
1 AGTTATGTA
51726528 AGTTATGTA
1 AGTTATGTA
*
51726537 AGTTA-CTA
1 AGTTATGTA
*
51726545 CATTTATGTA
1 -AGTTATGTA
51726555 AGTTATGTA
1 AGTTATGTA
* *
51726564 AGATATTTA
1 AGTTATGTA
*
51726573 ATTTATGTA
1 AGTTATGTA
51726582 AGTTATGTA
1 AGTTATGTA
51726591 AGTTATGTA
1 AGTTATGTA
51726600 AGTTATGTA
1 AGTTATGTA
*
51726609 AGTTATTTA
1 AGTTATGTA
*
51726618 ATTTATGTA
1 AGTTATGTA
51726627 AGTTATGTA
1 AGTTATGTA
51726636 AGTTACT-TA
1 AGTTA-TGTA
*
51726645 ATTTATGTA
1 AGTTATGTA
51726654 AGTTATGTA
1 AGTTATGTA
* *
51726663 AGATATTTA
1 AGTTATGTA
*
51726672 ATTTATGTA
1 AGTTATGTA
51726681 AGTTATGTA
1 AGTTATGTA
*
51726690 AGTTATTTA
1 AGTTATGTA
*
51726699 ATTTATGTA
1 AGTTATGTA
51726708 AGTTATGTA
1 AGTTATGTA
*
51726717 AGTTATTTA
1 AGTTATGTA
* *
51726726 ATTTTTGTA
1 AGTTATGTA
51726735 AGTTATGTA
1 AGTTATGTA
51726744 A-TTAATGTA
1 AGTT-ATGTA
51726753 AGTTAT
1 AGTTAT
51726759 TTAATTTGTG
Statistics
Matches: 337, Mismatches: 50, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
7 13 0.04
8 11 0.03
9 304 0.90
10 9 0.03
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (9 bp):
AGTTATGTA
Found at i:51726429 original size:54 final size:54
Alignment explanation
Indices: 51726361--51726758 Score: 531
Period size: 54 Copynumber: 7.6 Consensus size: 54
51726351 CAGTTATGTA
51726361 TTATGT-A-TTATGTAAG-TACTGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
*
51726413 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTA-CTACAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTA-AT
* * *
51726467 TTATGTAAGTTATGTAAGATATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
* *
51726521 TTATGTAAGTTATGTAAGTTA-CTACATTTATGTAAGTTATGTAAG--A--T-A-
1 TTATGTAAGTTATGTAAGTTATGTA-AGTTATGTAAGTTATGTAAGTTATTTAAT
*
51726569 -T-T-TAATTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
* *
51726620 TTATGTAAGTTATGTAAGTTACT-TAATTTATGTAAGTTATGTAAGATATTTAAT
1 TTATGTAAGTTATGTAAGTTA-TGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
* *
51726674 TTATGTAAGTTATGTAAGTTATTTAATTTATGTAAGTTATGTAAGTTATTTAAT
1 TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
*
51726728 TTTTGTAAGTTATGTAA-TTAATGTAAGTTAT
1 TTATGTAAGTTATGTAAGTT-ATGTAAGTTAT
51726759 TTAATTTGTG
Statistics
Matches: 310, Mismatches: 17, Indels: 36
0.85 0.05 0.10
Matches are distributed among these distances:
45 34 0.11
46 3 0.01
47 2 0.01
49 2 0.01
50 2 0.01
52 8 0.03
53 9 0.03
54 245 0.79
55 5 0.02
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (54 bp):
TTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATTTAAT
Done.