Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 221 of 284
Found at i:73477738 original size:68 final size:70
Alignment explanation
Indices: 73477588--73477745 Score: 171
Period size: 68 Copynumber: 2.3 Consensus size: 70
73477578 CTAGCCAATT
* * *
73477588 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGCGACCTAGCTACA
**
73477653 TTTATC
65 CATATC
* * *
73477659 TCTCTCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TATCTCGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGCGACCTAGCTAC-
*
73477721 ACATA-G
64 ACATATC
*
73477727 TATCTCGTAGCTTTCTTGT
1 TATCTCGTAGCTCTCTTGT
73477746 ACACATGATG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
68 39 0.53
69 3 0.04
70 2 0.03
71 30 0.41
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (70 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGCGACCTAGCTACAC
ATATC
Found at i:73488319 original size:43 final size:44
Alignment explanation
Indices: 73488258--73488371 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 44
73488248 AACGCCAACA
* *
73488258 TCCTAGAT-GTGGTCTTACATGTAATCACATAT-CGATGCCACTG
1 TCCTAGATAG-GGTCTTACAAGTAATCACATATACGATGCCAATG
* *
73488301 TCCTAGATAGGGTCTTACACG-AA-CTCATATACGATGCCAATG
1 TCCTAGATAGGGTCTTACAAGTAATCACATATACGATGCCAATG
* *
73488343 TCCTAGACATGGTCTTACAAGTAAATCAC
1 TCCTAGATAGGGTCTTACAAGT-AATCAC
73488372 CAAGACGTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
41 6 0.10
42 30 0.51
43 18 0.31
44 3 0.05
45 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
TCCTAGATAGGGTCTTACAAGTAATCACATATACGATGCCAATG
Found at i:73504195 original size:28 final size:28
Alignment explanation
Indices: 73504155--73504248 Score: 161
Period size: 28 Copynumber: 3.4 Consensus size: 28
73504145 GGCTTGACGA
73504155 GCCATATGAATGTGATTGGGCCTGATGG
1 GCCATATGAATGTGATTGGGCCTGATGG
*
73504183 GCCATGTGAATGTGATTGGGCCTGATGG
1 GCCATATGAATGTGATTGGGCCTGATGG
*
73504211 GCCATATGAATGTGATTGGGCCTAATGG
1 GCCATATGAATGTGATTGGGCCTGATGG
*
73504239 GCCATGTGAA
1 GCCATATGAA
73504249 CAAGATTGGG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 62 1.00
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (28 bp):
GCCATATGAATGTGATTGGGCCTGATGG
Found at i:73504255 original size:28 final size:28
Alignment explanation
Indices: 73504155--73504263 Score: 155
Period size: 28 Copynumber: 3.9 Consensus size: 28
73504145 GGCTTGACGA
* *
73504155 GCCATATGAATGTGATTGGGCCTGATGG
1 GCCATGTGAATGTGATTGGGCCTAATGG
*
73504183 GCCATGTGAATGTGATTGGGCCTGATGG
1 GCCATGTGAATGTGATTGGGCCTAATGG
*
73504211 GCCATATGAATGTGATTGGGCCTAATGG
1 GCCATGTGAATGTGATTGGGCCTAATGG
***
73504239 GCCATGTGAACAAGATTGGGCCTAA
1 GCCATGTGAATGTGATTGGGCCTAA
73504264 AAGGGCCAAA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 74 1.00
ACGTcount: A:0.24, C:0.16, G:0.34, T:0.27
Consensus pattern (28 bp):
GCCATGTGAATGTGATTGGGCCTAATGG
Found at i:73504256 original size:56 final size:56
Alignment explanation
Indices: 73504155--73504261 Score: 178
Period size: 56 Copynumber: 1.9 Consensus size: 56
73504145 GGCTTGACGA
* ***
73504155 GCCATATGAATGTGATTGGGCCTGATGGGCCATGTGAATGTGATTGGGCCTGATGG
1 GCCATATGAATGTGATTGGGCCTAATGGGCCATGTGAACAAGATTGGGCCTGATGG
73504211 GCCATATGAATGTGATTGGGCCTAATGGGCCATGTGAACAAGATTGGGCCT
1 GCCATATGAATGTGATTGGGCCTAATGGGCCATGTGAACAAGATTGGGCCT
73504262 AAAAGGGCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.22, C:0.16, G:0.35, T:0.27
Consensus pattern (56 bp):
GCCATATGAATGTGATTGGGCCTAATGGGCCATGTGAACAAGATTGGGCCTGATGG
Found at i:73504286 original size:29 final size:28
Alignment explanation
Indices: 73504196--73504286 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
73504186 ATGTGAATGT
* * * ***
73504196 GATTGGGCCTGATGGGCCATATGAATGT
1 GATTGGGCCTAAAGGGCCAAATGAACAA
* **
73504224 GATTGGGCCTAATGGGCCATGTGAACAA
1 GATTGGGCCTAAAGGGCCAAATGAACAA
*
73504252 GATTGGGCCTAAAAGGGCCAAATGAATAA
1 GATTGGGCCT-AAAGGGCCAAATGAACAA
*
73504281 GTTTGG
1 GATTGG
73504287 ATCTGTTAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
28 33 0.63
29 19 0.37
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (28 bp):
GATTGGGCCTAAAGGGCCAAATGAACAA
Found at i:73504608 original size:27 final size:27
Alignment explanation
Indices: 73504587--73505050 Score: 503
Period size: 27 Copynumber: 17.3 Consensus size: 27
73504577 GAAATTATTA
* *
73504587 AAATACCCTCGATTTGTAAAATTATCA
1 AAATACCCTCGATTTGTAAAATTACCG
*
73504614 AAATACCGC-CGATTTGTAAAATTATCG
1 AAATACC-CTCGATTTGTAAAATTACCG
* **
73504641 AAATACCCTCGA-TTGTGAAATTATTG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504667 AAATACCCT-AATTTGTGAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504693 AAATACCCTCGA-TTGTGAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
*
73504719 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504746 AAATACCCTCGATTTGTGAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504773 AAACACCCTCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504800 AAATACCCCCGATTTGTAAAATTGCC-
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
73504826 AAACTAACCTCGA-TTGTGAAATTACCA
1 AAA-TACCCTCGATTTGTAAAATTACCG
* * *
73504853 AAATACCCTTGATTTGTAAAATAATCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504880 AAATATCCCT-GATTTATGAAATTACCG
1 AAATA-CCCTCGATTTGTAAAATTACCG
* * *
73504907 AAACACCCTTGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
* *
73504934 AAACACCCTCGATTTGTAAAATTACCA
1 AAATACCCTCGATTTGTAAAATTACCG
*
73504961 AAATACCCTCAATTTGTAAAATTACCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
73504988 AAACACCCCCGATTTGTAAAATTATCG
1 AAATACCCTCGATTTGTAAAATTACCG
* * *
73505015 AAATACCCTTG-TAGTGTAAAATTACTG
1 AAATACCCTCGAT-TTGTAAAATTACCG
73505042 AAATACCCT
1 AAATACCCT
73505051 TGTAGTGTAA
Statistics
Matches: 372, Mismatches: 54, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 94 0.25
27 272 0.73
28 5 0.01
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (27 bp):
AAATACCCTCGATTTGTAAAATTACCG
Found at i:73505051 original size:27 final size:27
Alignment explanation
Indices: 73505014--73505096 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
73505004 TAAAATTATC
*
73505014 GAAATACCCTTGTAGTGTAAAATTACT
1 GAAATACCCTTGTAGTGTAAAATGACT
73505041 GAAATACCCTTGTAGTGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
* * * *
73505068 GACATACCATTGTAGGGTACAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
73505095 GA
1 GA
73505097 CTTAGACTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACT
Found at i:73529443 original size:27 final size:27
Alignment explanation
Indices: 73529410--73529462 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
73529400 AATTTTAAAA
*
73529410 AAAATTCAAAATAATTT-TCAAATTTTC
1 AAAATTCAAAAT-ATTTATAAAATTTTC
73529437 AAAATTCAAAATATTTATAAAATTTT
1 AAAATTCAAAATATTTATAAAATTTT
73529463 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTCAAAATATTTATAAAATTTTC
Found at i:73531277 original size:13 final size:13
Alignment explanation
Indices: 73531259--73531291 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
73531249 AATGGCATAA
73531259 AAATAATATAAAC-
1 AAATAA-ATAAACG
73531272 AAATAAATAAACG
1 AAATAAATAAACG
73531285 AAATAAA
1 AAATAAA
73531292 AAGTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:73531713 original size:21 final size:21
Alignment explanation
Indices: 73531674--73531714 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
73531664 TTATACTACA
* *
73531674 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
73531695 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
73531715 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:73538337 original size:13 final size:13
Alignment explanation
Indices: 73538319--73538351 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
73538309 AATGGCATAA
73538319 AAATAATATAAAC-
1 AAATAA-ATAAACG
73538332 AAATAAATAAACG
1 AAATAAATAAACG
73538345 AAATAAA
1 AAATAAA
73538352 AAGTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:73538772 original size:21 final size:21
Alignment explanation
Indices: 73538733--73538773 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
73538723 TTATACTACA
* *
73538733 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
73538754 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
73538774 TTTTTTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:73539384 original size:21 final size:21
Alignment explanation
Indices: 73539358--73539433 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
73539348 AATCATATCT
73539358 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
73539379 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
73539400 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
73539419 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
73539434 CCTCGAAAAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 18 0.36
21 32 0.64
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:73539393 original size:19 final size:19
Alignment explanation
Indices: 73539371--73539434 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
73539361 AAGATTGTAT
73539371 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
73539390 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
73539411 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
73539430 ATATC
1 ATATC
73539435 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:73539690 original size:44 final size:44
Alignment explanation
Indices: 73539637--73539722 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
73539627 AGGAATTCGT
* *
73539637 GCTTCAATCTACTCCACTGCAACTTC-AGGGAGATAAGACTTGTA
1 GCTTCAATCTACTCCACTACAACTTCAAGAG-GATAAGACTTGTA
* * *
73539681 GCTTTAATCTGCTCCACTACCACTTCAAGAGGATAAGACTTG
1 GCTTCAATCTACTCCACTACAACTTCAAGAGGATAAGACTTG
73539723 CTGGCTTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 33 0.92
45 3 0.08
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
GCTTCAATCTACTCCACTACAACTTCAAGAGGATAAGACTTGTA
Found at i:73539900 original size:132 final size:132
Alignment explanation
Indices: 73539719--73540116 Score: 656
Period size: 132 Copynumber: 3.0 Consensus size: 132
73539709 GAGGATAAGA
* *
73539719 CTTGCTGGCTTAAATCTGCTTCCCACTATCTAGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
73539784 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCTGCTGCTGCTCATGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
73539849 GG
131 GG
* *
73539851 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATCTTTC-TTCTGCT
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTC-TTCGATCTGCT
*
73539915 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTACTCAGGGAGACA
65 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACA
73539980 AGG
130 AGG
* * * *
73539983 CTTGGTGGCTTAAATTTGCTTCCCACTATCTTGGAAAGATAAGATTTACCGTCCTCGATCTACTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
* *
73540048 CACTACTGCTTAGGGAGATAAGATCTACGATC-TCAACCTACTCCGCTGTTGCTCAGGGAGACAA
66 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
73540112 GG
131 GG
73540114 CTT
1 CTT
73540117 AGTGTTTCAC
Statistics
Matches: 248, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
131 37 0.15
132 208 0.84
133 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAA
GG
Found at i:73541372 original size:6 final size:6
Alignment explanation
Indices: 73541349--73541382 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
73541339 GGCCTCTCCA
73541349 TTTTCT TTCTTC- TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TT-TTCT TTTTCT TTTTCT TTTTCT TTTT
73541383 AAAATGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 3 0.12
6 20 0.77
7 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTCT
Found at i:73543200 original size:34 final size:33
Alignment explanation
Indices: 73543152--73543219 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 33
73543142 CGATGTACCA
*
73543152 GTCAAATATTGTCGGGATCTTATAGGAAAGAGT
1 GTCAAATATTGTCGGGATCTGATAGGAAAGAGT
*
73543185 NGTCAGATATTGTCGGGATCTGATAGGAAAGAGT
1 -GTCAAATATTGTCGGGATCTGATAGGAAAGAGT
73543219 G
1 G
73543220 CCTCTTGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 1 0.03
34 31 0.97
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (33 bp):
GTCAAATATTGTCGGGATCTGATAGGAAAGAGT
Found at i:73547188 original size:13 final size:13
Alignment explanation
Indices: 73547170--73547202 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
73547160 AATGGCATAA
73547170 AAATAATATAAAC-
1 AAATAA-ATAAACG
73547183 AAATAAATAAACG
1 AAATAAATAAACG
73547196 AAATAAA
1 AAATAAA
73547203 AAGTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACG
Found at i:73547289 original size:21 final size:21
Alignment explanation
Indices: 73547263--73548002 Score: 1457
Period size: 21 Copynumber: 35.3 Consensus size: 21
73547253 ATGAATAAGN
73547263 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547284 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547305 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547326 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547347 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547368 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547389 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547410 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547431 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547452 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547473 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547494 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547515 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547536 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547557 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547578 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547599 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547620 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547641 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547662 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547683 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547704 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547725 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547746 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547767 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547788 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547809 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547830 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547851 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547872 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547893 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547914 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547935 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547956 TGCATATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
73547977 TGC--ATATCATATCTAAGAT
1 TGCATATATCATATCTAAGAT
*
73547996 TGTATAT
1 TGCATAT
73548003 CCTCGAAAAT
Statistics
Matches: 716, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
19 18 0.03
21 698 0.97
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (21 bp):
TGCATATATCATATCTAAGAT
Found at i:73550208 original size:14 final size:14
Alignment explanation
Indices: 73550170--73550217 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
73550160 TCCTGATTGG
73550170 TTTATTTATTTA-T
1 TTTATTTATTTATT
* *
73550183 TTTGTTTGTTTATT
1 TTTATTTATTTATT
73550197 TTTATTTATTTATT
1 TTTATTTATTTATT
73550211 TTTATTT
1 TTTATTT
73550218 CCTGAATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTATTTATTTATT
Found at i:73551152 original size:25 final size:25
Alignment explanation
Indices: 73551122--73551191 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
73551112 TAGGCCCATT
73551122 TCACAGCTCGTGTGAGCATTTACAA
1 TCACAGCTCGTGTGAGCATTTACAA
* **
73551147 TCACAGCTCATGTGAGCATTTACCT
1 TCACAGCTCGTGTGAGCATTTACAA
* *
73551172 TCACAACTTGTGTGAGCATT
1 TCACAGCTCGTGTGAGCATT
73551192 GTTCCCGCGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
TCACAGCTCGTGTGAGCATTTACAA
Found at i:73551290 original size:13 final size:13
Alignment explanation
Indices: 73551237--73551319 Score: 69
Period size: 13 Copynumber: 6.4 Consensus size: 13
73551227 ATCAAGTGAA
73551237 AAATGAATATATG
1 AAATGAATATATG
** *
73551250 AAATGGTTATACG
1 AAATGAATATATG
*
73551263 AAATGATTATATG
1 AAATGAATATATG
*
73551276 AAATGAATATTTG
1 AAATGAATATATG
* *
73551289 AATTGGATACT-TG
1 AAATGAATA-TATG
* *
73551302 AAATGAAAATGTG
1 AAATGAATATATG
73551315 AAATG
1 AAATG
73551320 TTAACTTGAT
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
12 1 0.02
13 54 0.96
14 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.19, T:0.33
Consensus pattern (13 bp):
AAATGAATATATG
Found at i:73558192 original size:14 final size:15
Alignment explanation
Indices: 73558173--73558207 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
73558163 TACATACGAA
73558173 TTATTATATTG-ATG
1 TTATTATATTGTATG
73558187 TTATTA-ATTGTATG
1 TTATTATATTGTATG
73558201 TTATTAT
1 TTATTAT
73558208 GTATTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (15 bp):
TTATTATATTGTATG
Found at i:73566855 original size:20 final size:20
Alignment explanation
Indices: 73566829--73566873 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
73566819 AAATAGTTAA
* *
73566829 AAAAAATCAAAACTTTGTTTT
1 AAAAATTCAAAA-TTTGCTTT
*
73566850 AAAAATTTAAAATTTGCTTT
1 AAAAATTCAAAATTTGCTTT
73566870 AAAA
1 AAAA
73566874 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAATTTGCTTT
Found at i:73567134 original size:24 final size:24
Alignment explanation
Indices: 73567106--73567157 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
73567096 AAAAAAAAAG
73567106 GGATTTTCGAGCTCCTAGGGGGGA
1 GGATTTTCGAGCTCCTAGGGGGGA
*
73567130 GGATTTTCGGGCTCCTAGGGGGGA
1 GGATTTTCGAGCTCCTAGGGGGGA
73567154 GGAT
1 GGAT
73567158 CGATGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.15, C:0.15, G:0.44, T:0.25
Consensus pattern (24 bp):
GGATTTTCGAGCTCCTAGGGGGGA
Found at i:73575150 original size:15 final size:15
Alignment explanation
Indices: 73575132--73575179 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
73575122 TTCTAGATTG
73575132 TGAAACTATAGACTA
1 TGAAACTATAGACTA
* * *
73575147 TGAAACAATAAACTG
1 TGAAACTATAGACTA
* *
73575162 TGAAACTTTAGATTA
1 TGAAACTATAGACTA
73575177 TGA
1 TGA
73575180 CGAAACTTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (15 bp):
TGAAACTATAGACTA
Found at i:73576568 original size:96 final size:96
Alignment explanation
Indices: 73576335--73576587 Score: 264
Period size: 96 Copynumber: 2.6 Consensus size: 96
73576325 CATAAGTATA
* * * *
73576335 GTAATATGATTGACACAAAGCCATCAGTAGCAGTGATATGATTGACACACAACCATCAGTAACGG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
* * *
73576400 TAATATGTTCGACACAAAGCCATCAGTAGCG
66 TAATATGATCGACACAAAGCCATCAATAACG
* * * * * *
73576431 GTAATATGTTCGGTACAAAGCCATCAGTAACAGTGAAATGATCGGTACACAGCCATC-GATAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAG-TAACG
*
73576495 GTAATATGATCAGTATA-AAA-CCATCAATAACG
65 GTAATATGATC-G-ACACAAAGCCATCAATAACG
* ** *
73576527 GTATTATGATCGGCACAAAGCCATCAGTAGTGGT-ACTATGATCGGCATA-AAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGA-TATGATCGGCACACAA-CCATCAGTA
73576588 GCATTGCAGC
Statistics
Matches: 127, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
95 3 0.02
96 117 0.92
97 5 0.04
98 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (96 bp):
GTAATATGATCGGCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGG
TAATATGATCGACACAAAGCCATCAATAACG
Found at i:73576588 original size:32 final size:32
Alignment explanation
Indices: 73576335--73576587 Score: 233
Period size: 32 Copynumber: 7.9 Consensus size: 32
73576325 CATAAGTATA
* * * *
73576335 GTAATATGATTGACACAAAGCCATCAGTAGCA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * *
73576367 GTGATATGATTGACACACAA-CCATCAGTAACG
1 GTAATATGATCGGCACA-AAGCCATCAGTAACG
* * *
73576399 GTAATATGTTCGACACAAAGCCATCAGTAGCG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* * *
73576431 GTAATATGTTCGGTACAAAGCCATCAGTAACA
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
73576463 GTGAA-ATGATCGGTACACAGCCATC-GATAACG
1 GT-AATATGATCGGCACAAAGCCATCAG-TAACG
* * * * *
73576495 GTAATATGATCAGTATAAAACCATCAATAACG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* **
73576527 GTATTATGATCGGCACAAAGCCATCAGTAGTG
1 GTAATATGATCGGCACAAAGCCATCAGTAACG
* *
73576559 GTACTATGATCGGCATAAAGCCATCAGTA
1 GTAATATGATCGGCACAAAGCCATCAGTA
73576588 GCATTGCAGC
Statistics
Matches: 186, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
31 5 0.03
32 177 0.95
33 4 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
GTAATATGATCGGCACAAAGCCATCAGTAACG
Found at i:73576786 original size:24 final size:23
Alignment explanation
Indices: 73576759--73576831 Score: 92
Period size: 24 Copynumber: 3.1 Consensus size: 23
73576749 CCATGCTCAG
73576759 AATCAGTCATTCAAATCACAGACA
1 AATCAGTCATTCAAA-CACAGACA
*
73576783 AATCAGTCATACCAAACACAGACA
1 AATCAGTCAT-TCAAACACAGACA
* * *
73576807 AATCATTCATTTAACCACAGACA
1 AATCAGTCATTCAAACACAGACA
73576830 AA
1 AA
73576832 ACAATTATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 12 0.28
24 27 0.63
25 4 0.09
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (23 bp):
AATCAGTCATTCAAACACAGACA
Found at i:73576918 original size:27 final size:27
Alignment explanation
Indices: 73576860--73577260 Score: 447
Period size: 27 Copynumber: 14.9 Consensus size: 27
73576850 GGGAAAAATA
* *
73576860 GTCA-TTTACCC-ATAAGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
73576885 GTTATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
73576912 GTCATTTTACCCTAT-GAAGATATTACA
1 GTCATTTTACCCTATAG-GGGTATTACG
* * *
73576939 GTCATTTTACCTTATGGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
*
73576966 GTCATTTTACCCTAT-GAGGGTATTATG
1 GTCATTTTACCCTATAG-GGGTATTACG
73576993 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
73577020 ATCATTTTACCCTAT-GAGAGTATTACG
1 GTCATTTTACCCTATAG-GGGTATTACG
* * * *
73577047 ATTATTTTACCTTAT-GAGGGTACTACG
1 GTCATTTTACCCTATAG-GGGTATTACG
* *
73577074 GTCATTTTACCCTATAAGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
73577101 GTCATTTTACCCTATAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
73577128 ATCATTTTACCCTATAGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
*
73577155 GTCATTTTACCCTACAGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
73577182 ATCATTTTACCCTATGGGGGTATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* * *
73577209 GTCGTTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
* *
73577236 ATCATTTTGCCCT-TCAGGGGTATTA
1 GTCATTTTACCCTAT-AGGGGTATTA
73577261 TTGTTATTAG
Statistics
Matches: 319, Mismatches: 48, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
25 3 0.01
26 10 0.03
27 304 0.95
28 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:73586618 original size:21 final size:21
Alignment explanation
Indices: 73586594--73586639 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
73586584 CTAATGGTTT
** *
73586594 ATTTGAGTGTGTAGGGCATCA
1 ATTTGAGCATGTAGGACATCA
*
73586615 ATTTGGGCATGTAGGACATCA
1 ATTTGAGCATGTAGGACATCA
73586636 ATTT
1 ATTT
73586640 AGGCTTAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (21 bp):
ATTTGAGCATGTAGGACATCA
Found at i:73588238 original size:35 final size:33
Alignment explanation
Indices: 73588116--73588245 Score: 127
Period size: 35 Copynumber: 3.7 Consensus size: 33
73588106 GTTGCCGATT
* *
73588116 GGTCCTTCGAGGTGACACCATGACGATGGTATATA
1 GGTCCTTCG-GGTGACACCATGA-AATGATATATA
*
73588151 GGT-CTCTCGGAGTGACACCATGTAAACGATATATA
1 GGTCCT-TCGG-GTGACACCATG-AAATGATATATA
* *
73588186 GGTCCTTCAGGGCGACACCGTGCAAATGATATATA
1 GGTCCTTC-GGGTGACACCATG-AAATGATATATA
*
73588221 GGTCCTTCGCGGTGACACCTTGAAA
1 GGTCCTTCG-GGTGACACCATGAAA
73588246 GGGGTTTATC
Statistics
Matches: 80, Mismatches: 9, Indels: 13
0.78 0.09 0.13
Matches are distributed among these distances:
34 7 0.09
35 68 0.85
36 5 0.06
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (33 bp):
GGTCCTTCGGGTGACACCATGAAATGATATATA
Found at i:73589721 original size:19 final size:21
Alignment explanation
Indices: 73589679--73589721 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
73589669 ATGGTTTTCT
*
73589679 GAAGGTGAATCTATTTTTGTA
1 GAAGGTGAATCTATTTTTGAA
*
73589700 GAAGGTGATTCT-TTTTT-AA
1 GAAGGTGAATCTATTTTTGAA
73589719 GAA
1 GAA
73589722 AACCAAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 11 0.55
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (21 bp):
GAAGGTGAATCTATTTTTGAA
Found at i:73596374 original size:20 final size:20
Alignment explanation
Indices: 73596346--73596385 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
73596336 TACATTTTAT
*
73596346 ATATTTATAGCTATT-ATTAC
1 ATATCTATAGC-ATTAATTAC
73596366 ATATCTATAGCATTAATTAC
1 ATATCTATAGCATTAATTAC
73596386 CTAAAAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.17
20 15 0.83
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATCTATAGCATTAATTAC
Found at i:73597679 original size:44 final size:44
Alignment explanation
Indices: 73597578--73597684 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
73597568 AACCCTGATA
** * *
73597578 TGCAAACCCTATATGTTGTTTAGTGCGAACACTAGGTGAATATG
1 TGCAAACCCTATATGTTGTGCAATGCAAACACTAGGTGAATATG
** ** * *
73597622 TGTGAACATTATATATTGTGCAATGCAAAGC-CTATGTGAATATG
1 TGCAAACCCTATATGTTGTGCAATGCAAA-CACTAGGTGAATATG
73597666 TGCAAACCCTATATGTTGT
1 TGCAAACCCTATATGTTGT
73597685 ATTGTATGAA
Statistics
Matches: 47, Mismatches: 15, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
44 46 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (44 bp):
TGCAAACCCTATATGTTGTGCAATGCAAACACTAGGTGAATATG
Found at i:73598654 original size:50 final size:50
Alignment explanation
Indices: 73598592--73598877 Score: 333
Period size: 50 Copynumber: 5.7 Consensus size: 50
73598582 GGGAATGAGA
* *
73598592 TCCCATGAAAGACCATGTCTGGGACATGGCATTGACACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
73598642 TCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
73598692 TCCCATGTAAGACCATGTTTGGGACATGGCAATGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * * **
73598742 TCCCCCGTAAGAGCATGTCTGGGACATTGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * ** * **
73598792 TCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAAAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAGG
*
73598841 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
73598878 TGTTATTATC
Statistics
Matches: 199, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 161 0.81
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:73616900 original size:49 final size:50
Alignment explanation
Indices: 73616772--73616957 Score: 239
Period size: 50 Copynumber: 3.7 Consensus size: 50
73616762 GGGAATGGGA
* * * *
73616772 TCCCATGTAAGATCATGTTTGGGACATGGCATTGACACCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
*
73616822 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * * * **
73616872 TCCC-CGTAAGAGCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* * *
73616921 TCCCATGTAAGACCATATCTGGGACATGACTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
73616958 TGTTATTATC
Statistics
Matches: 117, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 42 0.36
50 75 0.64
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:73616956 original size:99 final size:99
Alignment explanation
Indices: 73616778--73616957 Score: 261
Period size: 99 Copynumber: 1.8 Consensus size: 99
73616768 GGGATCCCAT
* * * ** *
73616778 GTAAGATCATGTTTGGGACATGGCATTGACACCGAGATAAGAGGTCCCATGTAAGACCATGTCTG
1 GTAAGAGCATGTCTGGGACATGGCATGGACACCGAGATAAGAACTCCCATGTAAGACCATATCTG
*
73616843 GGACATGGCGTTGGCACCGAGATGAGAGGTCCCC
66 GGACATGACGTTGGCACCGAGATGAGAGGTCCCC
* * *
73616877 GTAAGAGCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTG
1 GTAAGAGCATGTCTGGGACATGGCATGGACACCGAGATAAGAACTCCCATGTAAGACCATATCTG
*
73616942 GGACATGACTTTGGCA
66 GGACATGACGTTGGCA
73616958 TGTTATTATC
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
99 70 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (99 bp):
GTAAGAGCATGTCTGGGACATGGCATGGACACCGAGATAAGAACTCCCATGTAAGACCATATCTG
GGACATGACGTTGGCACCGAGATGAGAGGTCCCC
Found at i:73626623 original size:155 final size:155
Alignment explanation
Indices: 73626341--73626650 Score: 620
Period size: 155 Copynumber: 2.0 Consensus size: 155
73626331 GGGGTTCTTC
73626341 TACAATTGTGAGCTTTTTGGACTTCATGATTTTGATCAATATTTTCATAATCAAATCGATTGTCG
1 TACAATTGTGAGCTTTTTGGACTTCATGATTTTGATCAATATTTTCATAATCAAATCGATTGTCG
73626406 AACTGGTTAAATTTCCAACTCTTGATTTGATCGATTCGTTCAATTTGATCAGATAGATGTCTAGG
66 AACTGGTTAAATTTCCAACTCTTGATTTGATCGATTCGTTCAATTTGATCAGATAGATGTCTAGG
73626471 AAAAATTCATAACAATAACAAACAA
131 AAAAATTCATAACAATAACAAACAA
73626496 TACAATTGTGAGCTTTTTGGACTTCATGATTTTGATCAATATTTTCATAATCAAATCGATTGTCG
1 TACAATTGTGAGCTTTTTGGACTTCATGATTTTGATCAATATTTTCATAATCAAATCGATTGTCG
73626561 AACTGGTTAAATTTCCAACTCTTGATTTGATCGATTCGTTCAATTTGATCAGATAGATGTCTAGG
66 AACTGGTTAAATTTCCAACTCTTGATTTGATCGATTCGTTCAATTTGATCAGATAGATGTCTAGG
73626626 AAAAATTCATAACAATAACAAACAA
131 AAAAATTCATAACAATAACAAACAA
73626651 AATCATTTTT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 155 1.00
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (155 bp):
TACAATTGTGAGCTTTTTGGACTTCATGATTTTGATCAATATTTTCATAATCAAATCGATTGTCG
AACTGGTTAAATTTCCAACTCTTGATTTGATCGATTCGTTCAATTTGATCAGATAGATGTCTAGG
AAAAATTCATAACAATAACAAACAA
Found at i:73633791 original size:20 final size:20
Alignment explanation
Indices: 73633739--73633792 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
73633729 TTAATTAAAC
*
73633739 ATTAAAATAAATAATTAAAAT
1 ATTAAAATTAA-AATTAAAAT
* *
73633760 ATTTAAAGTAAAATTAAGAA-
1 ATTAAAATTAAAATTAA-AAT
73633780 ATTAAAATTAAAA
1 ATTAAAATTAAAA
73633793 GAATTTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
ATTAAAATTAAAATTAAAAT
Found at i:73637264 original size:15 final size:16
Alignment explanation
Indices: 73637244--73637275 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
73637234 TAATATTTAG
73637244 ATGTG-AAACTATAGA
1 ATGTGAAAACTATAGA
73637259 ATGTGAAAACTATAGA
1 ATGTGAAAACTATAGA
73637275 A
1 A
73637276 AACTATAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
ATGTGAAAACTATAGA
Found at i:73640716 original size:120 final size:120
Alignment explanation
Indices: 73640504--73640723 Score: 305
Period size: 120 Copynumber: 1.8 Consensus size: 120
73640494 TGTTATAATG
* * *
73640504 GGAGACTCTGTGTACCTTCTAATTTTGAGTTGAGGAAGTCTATACTTCGGGAGGCGCATAGCAAC
1 GGAGACTCTGTCTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
*** * * * * *
73640569 CCCTACGTTATGCATTTTGATGGTAGTAAGATGTAAGGAGTTCTGTGTTATCGTC
66 CCCTACACCATACATCTTAAAGATAGTAAGATGTAAGGAGTTCTGTGTTATCGTC
* * * *
73640624 GGAGACTCTGTCTACCTTCTAATTTTAAGTTGAGGTAGTCTATACTTCGGGAAGTGCGTAGCAGC
1 GGAGACTCTGTCTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
73640689 CCCTACACCATACATCTTAAAGATAGTAAGATGTA
66 CCCTACACCATACATCTTAAAGATAGTAAGATGTA
73640724 TCGCAATCTC
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
120 85 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (120 bp):
GGAGACTCTGTCTACCTTCTAATTTTAAGTTGAGGAAGTCTATACTTCGGGAAGCGCATAGCAAC
CCCTACACCATACATCTTAAAGATAGTAAGATGTAAGGAGTTCTGTGTTATCGTC
Found at i:73645383 original size:16 final size:16
Alignment explanation
Indices: 73645359--73645426 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
73645349 TGGTTCACTG
73645359 TAATGGAATA-AGGCTA
1 TAATGGAATAGA-GCTA
*
73645375 TAATTGAATAGAG-TA
1 TAATGGAATAGAGCTA
* * *
73645390 TTAATTGAATAAAGCTG
1 -TAATGGAATAGAGCTA
73645407 TAATGGAATAGAGCTA
1 TAATGGAATAGAGCTA
73645423 TAAT
1 TAAT
73645427 CAGTAATTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 2 0.05
16 39 0.91
17 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTA
Found at i:73645400 original size:32 final size:32
Alignment explanation
Indices: 73645359--73645419 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
73645349 TGGTTCACTG
* *
73645359 TAATGGAATAAGGCTATAATTGAATAGAGTAT
1 TAATGGAATAAAGCTATAATGGAATAGAGTAT
* *
73645391 TAATTGAATAAAGCTGTAATGGAATAGAG
1 TAATGGAATAAAGCTATAATGGAATAGAG
73645420 CTATAATCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (32 bp):
TAATGGAATAAAGCTATAATGGAATAGAGTAT
Found at i:73645466 original size:51 final size:49
Alignment explanation
Indices: 73645408--73645505 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
73645398 ATAAAGCTGT
*
73645408 AATGGAATAGAGCTATAATCAGTAATTCAAT-TGTCTGGTTGAATGGAATGG
1 AATGGAATAGAACTATAAT-AGT-ATT-AATGTGTCTGGTTGAATGGAATGG
* *
73645459 AATGGAATAGAACTATAATAGTATTATTGTGTTTGGTTGAATGGAAT
1 AATGGAATAGAACTATAATAGTATTAATGTGTCTGGTTGAATGGAAT
73645506 AGATTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 2 0.05
49 20 0.47
50 3 0.07
51 18 0.42
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (49 bp):
AATGGAATAGAACTATAATAGTATTAATGTGTCTGGTTGAATGGAATGG
Found at i:73649067 original size:14 final size:14
Alignment explanation
Indices: 73649048--73649077 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
73649038 ATCACCCAAA
73649048 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
73649062 AAAGAAAAGAAAAG
1 AAAGAAAAAAAAAG
73649076 AA
1 AA
73649078 TGTGTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:73649392 original size:35 final size:35
Alignment explanation
Indices: 73649353--73649419 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
73649343 ATTAGTAAAA
* *
73649353 AGAAAA-ATAATAATATGAATTTAATA-ATTTTTAAG
1 AGAAAACAAAATAA-AT-AATTGAATATATTTTTAAG
73649388 AGAAAACAAAATAAATAATTGAATATATTTTT
1 AGAAAACAAAATAAATAATTGAATATATTTTT
73649420 TATAAAGTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 8 0.29
35 14 0.50
36 6 0.21
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (35 bp):
AGAAAACAAAATAAATAATTGAATATATTTTTAAG
Found at i:73674582 original size:79 final size:81
Alignment explanation
Indices: 73674471--73674655 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
73674461 GCTACTCGTT
* * *
73674471 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTC-GGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
73674534 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
73674551 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
73674615 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
73674631 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
73674656 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 57 0.63
80 31 0.34
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:73674655 original size:40 final size:40
Alignment explanation
Indices: 73674452--73674655 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
73674442 CGGAATTTAA
** * *
73674452 CCGGATATAGCT-ACTCGTTCAAATGCCTTCAGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73674492 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
73674532 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73674571 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
73674611 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
73674651 CCGGA
1 CCGGA
73674656 CATCATTCAA
Statistics
Matches: 140, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 93 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:73679910 original size:21 final size:22
Alignment explanation
Indices: 73679880--73679923 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
73679870 GGGTAAAATT
*
73679880 ATTAATAATTTATT-GGGGTAA
1 ATTAAAAATTTATTGGGGGTAA
73679901 ATTAAAAATTTATTGGGGGTAA
1 ATTAAAAATTTATTGGGGGTAA
73679923 A
1 A
73679924 ATAAGGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (22 bp):
ATTAAAAATTTATTGGGGGTAA
Found at i:73687146 original size:15 final size:15
Alignment explanation
Indices: 73687126--73687154 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
73687116 GTCTAAGAAA
73687126 TAAAAATAAAAAAAC
1 TAAAAATAAAAAAAC
73687141 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
73687155 AACTAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (15 bp):
TAAAAATAAAAAAAC
Found at i:73687173 original size:26 final size:25
Alignment explanation
Indices: 73687127--73687177 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
73687117 TCTAAGAAAT
*
73687127 AAAAATAAAAAAACTAAAAATAAAA
1 AAAAATAAAAAAACGAAAAATAAAA
73687152 AAAAACTAAAAAAA-GAATAAATAAAA
1 AAAAA-TAAAAAAACGAA-AAATAAAA
73687178 CAAATTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.82, C:0.04, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAAATAAAAAAACGAAAAATAAAA
Found at i:73691573 original size:17 final size:18
Alignment explanation
Indices: 73691526--73691579 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
73691516 AAAAATAATG
* *
73691526 ATTATATTATGAAAAATA
1 ATTACATTATTAAAAATA
*
73691544 ATTACATTATTAAAATTA
1 ATTACATTATTAAAAATA
* *
73691562 ATTA-ATTCTTAAAGATA
1 ATTACATTATTAAAAATA
73691579 A
1 A
73691580 CAAAGAAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 11 0.37
18 19 0.63
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (18 bp):
ATTACATTATTAAAAATA
Found at i:73691730 original size:58 final size:58
Alignment explanation
Indices: 73691661--73691776 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
73691651 ACCCTATTGA
*
73691661 ACACGCCAATAATTCAGAGGGGATGGAAAGCAAATTACCCCTTCTGGTCCAAACAGCG
1 ACACGCCAATAATTCAGAGGGGATGGAAAGCAAATTACCCCTTCTGCTCCAAACAGCG
73691719 ACACGCCAATAATTCAGAGGGGATGGAAAGCAAATTACCCCTTCTGCTCCAAACAGCG
1 ACACGCCAATAATTCAGAGGGGATGGAAAGCAAATTACCCCTTCTGCTCCAAACAGCG
73691777 TCGTTCAAAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.27, G:0.22, T:0.17
Consensus pattern (58 bp):
ACACGCCAATAATTCAGAGGGGATGGAAAGCAAATTACCCCTTCTGCTCCAAACAGCG
Found at i:73695752 original size:20 final size:20
Alignment explanation
Indices: 73695727--73695766 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
73695717 CGAAAAATGA
73695727 TTTCTGGAAAATAATTTACT
1 TTTCTGGAAAATAATTTACT
*
73695747 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATAATTTACT
73695767 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:73700054 original size:27 final size:27
Alignment explanation
Indices: 73700024--73700341 Score: 297
Period size: 27 Copynumber: 11.9 Consensus size: 27
73700014 GTAAATGACC
* *
73700024 GAAATACCCTTGAAGGGTAAAATGACT
1 GAAATACCCTCGAAGGGTAAAATTACT
*
73700051 GAAATATCCTCGAAGGGTAAATATTATCT
1 GAAATACCCTCGAAGGGTAAA-ATTA-CT
* * * *
73700080 -AGATACCCTCAAAGGGTAAATTTACC
1 GAAATACCCTCGAAGGGTAAAATTACT
*
73700106 GAAATACCCTCGAA-GGTGAAATTA-T
1 GAAATACCCTCGAAGGGTAAAATTACT
* * *
73700131 CAAAATACCCTCAAAGGGTATAATTACT
1 -GAAATACCCTCGAAGGGTAAAATTACT
* * * *
73700159 AAAATACCATCGAAAGGTAAAACTACT
1 GAAATACCCTCGAAGGGTAAAATTACT
* *
73700186 GAAGTACCCTCGAAGGGTAAAATTATT
1 GAAATACCCTCGAAGGGTAAAATTACT
*
73700213 GAAATACCCTCGAAAGGTAAAATTACT
1 GAAATACCCTCGAAGGGTAAAATTACT
**
73700240 GAAATACCCTAAAAGGGTAAAATTA-T
1 GAAATACCCTCGAAGGGTAAAATTACT
*
73700266 CGAAATACCCT-TAAGGGTAAAATTACT
1 -GAAATACCCTCGAAGGGTAAAATTACT
* ** *
73700293 GTAATA-CCTTTAAGGGTAAAATTACC
1 GAAATACCCTCGAAGGGTAAAATTACT
* * * *
73700319 GTACTACCCCCTAAGGGTAAAAT
1 GAAATACCCTCGAAGGGTAAAAT
73700342 GATCTTTATA
Statistics
Matches: 241, Mismatches: 40, Indels: 20
0.80 0.13 0.07
Matches are distributed among these distances:
25 3 0.01
26 60 0.25
27 155 0.64
28 21 0.09
29 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
GAAATACCCTCGAAGGGTAAAATTACT
Found at i:73700759 original size:28 final size:27
Alignment explanation
Indices: 73700715--73700774 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
73700705 ATTGTAATGA
* * *
73700715 TACTGTATTGGGTTAAGGCCCACACTG
1 TACTGAATTGGGCTAAGGCACACACTG
*
73700742 CTACTGAATTGGGCTAAGGCACTCACTG
1 -TACTGAATTGGGCTAAGGCACACACTG
73700770 TACTG
1 TACTG
73700775 TCACTGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.28
Consensus pattern (27 bp):
TACTGAATTGGGCTAAGGCACACACTG
Found at i:73701643 original size:45 final size:45
Alignment explanation
Indices: 73701592--73701680 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
73701582 GCCGGCATCA
* * *
73701592 ATCTTTCTGCCCCTGACAATTGATTGTATTAGCCACATTCTATCG
1 ATCTTTCTGCCCCTGACAATAGAATGTATCAGCCACATTCTATCG
*
73701637 ATCTTTCTGCCCTTGACAATAGAATGTATCAGCCACATTCTATC
1 ATCTTTCTGCCCCTGACAATAGAATGTATCAGCCACATTCTATC
73701681 AAGGTTGACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.36
Consensus pattern (45 bp):
ATCTTTCTGCCCCTGACAATAGAATGTATCAGCCACATTCTATCG
Found at i:73709752 original size:25 final size:24
Alignment explanation
Indices: 73709724--73709776 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 24
73709714 AAAAATAATT
73709724 AAAATGTAAAAATTAAAATAAAAACA
1 AAAATGTAAAAA-TAAAATAAAAA-A
* *
73709750 AAAATATAAAAATAAAATAAATAA
1 AAAATGTAAAAATAAAATAAAAAA
73709774 AAA
1 AAA
73709777 TGGCTAAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 4 0.16
25 10 0.40
26 11 0.44
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAATGTAAAAATAAAATAAAAAA
Found at i:73709773 original size:15 final size:14
Alignment explanation
Indices: 73709700--73709777 Score: 54
Period size: 14 Copynumber: 5.5 Consensus size: 14
73709690 AAGAACCTGC
73709700 TAAAAAT-AAAAAA
1 TAAAAATAAAAAAA
* *
73709713 CAAAAATAATTAAAATG
1 TAAAAATAA--AAAA-A
*
73709730 TAAAAAT--TAAAA
1 TAAAAATAAAAAAA
* *
73709742 TAAAAACAAAAATA
1 TAAAAATAAAAAAA
73709756 TAAAAATAAAATAAA
1 TAAAAATAAAA-AAA
73709771 TAAAAAT
1 TAAAAAT
73709778 GGCTAAATGA
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
12 6 0.12
13 9 0.19
14 14 0.29
15 9 0.19
16 4 0.08
17 6 0.12
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.21
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:73709777 original size:35 final size:36
Alignment explanation
Indices: 73709700--73709777 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
73709690 AAGAACCTGC
* **
73709700 TAAAAATAAAAAACAAAAATAATTAAAATGTAAAAA
1 TAAAAATAAAAAACAAAAATAATAAAAATAAAAAAA
*
73709736 TTAAAAT-AAAAACAAAAAT-ATAAAAATAAAATAAA
1 TAAAAATAAAAAACAAAAATAATAAAAATAAAA-AAA
73709771 TAAAAAT
1 TAAAAAT
73709778 GGCTAAATGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 9 0.25
35 21 0.58
36 6 0.17
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.21
Consensus pattern (36 bp):
TAAAAATAAAAAACAAAAATAATAAAAATAAAAAAA
Found at i:73711334 original size:28 final size:29
Alignment explanation
Indices: 73711294--73711352 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
73711284 ATTCTTGTTG
*
73711294 TAATTATTCTAATTT-TTTTAAGTAAGAC
1 TAATTATTCTAATTTATGTTAAGTAAGAC
73711322 TAATTATTCTAATTTATGTTAAGTAAGAC
1 TAATTATTCTAATTTATGTTAAGTAAGAC
73711351 TA
1 TA
73711353 CTTCACAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.47
Consensus pattern (29 bp):
TAATTATTCTAATTTATGTTAAGTAAGAC
Found at i:73712096 original size:22 final size:22
Alignment explanation
Indices: 73712071--73712127 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
73712061 CCAAATCACC
*
73712071 ATACCACCACTCTAGCACCATT
1 ATACCACCACCCTAGCACCATT
**
73712093 ATACCACCACCCTAGCACCACC
1 ATACCACCACCCTAGCACCATT
*
73712115 ATATCACCACCCT
1 ATACCACCACCCT
73712128 TGTACCACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.32, C:0.47, G:0.04, T:0.18
Consensus pattern (22 bp):
ATACCACCACCCTAGCACCATT
Found at i:73718478 original size:50 final size:50
Alignment explanation
Indices: 73718340--73718478 Score: 170
Period size: 50 Copynumber: 2.8 Consensus size: 50
73718330 TCATTGATGT
* * *
73718340 TATGAGAGGTCCCATGTAAGACCATGTCCAGGACATGGCGTTGGCACCAA
1 TATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAA
* ** *
73718390 GATGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAA
** * * *
73718440 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGC
1 TATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGC
73718479 GCAGTAAAAG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.20
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATGGGCACCAA
Found at i:73718883 original size:14 final size:15
Alignment explanation
Indices: 73718856--73718889 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
73718846 CTTACTAAGC
73718856 TTTATGCTTACTTCT
1 TTTATGCTTACTTCT
*
73718871 TTTATG-TTCCTTCT
1 TTTATGCTTACTTCT
73718885 TTTAT
1 TTTAT
73718890 AGTATTGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.12, C:0.18, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTATGCTTACTTCT
Found at i:73724687 original size:28 final size:28
Alignment explanation
Indices: 73724628--73724711 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
73724618 ATATGAGCAT
* * *
73724628 ATATGAAAAAGGATGGTTACGACCATAGA
1 ATATGAAAAGGGATGGTTTCGACCAT-CA
73724657 ATATGAAAAGGGATGGTTTCGACCATCA
1 ATATGAAAAGGGATGGTTTCGACCATCA
73724685 ATATGAAAAGGGATGGTTTCGACCATC
1 ATATGAAAAGGGATGGTTTCGACCATC
73724712 GTTTAGCACA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 28 0.54
29 24 0.46
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.24
Consensus pattern (28 bp):
ATATGAAAAGGGATGGTTTCGACCATCA
Found at i:73727865 original size:29 final size:28
Alignment explanation
Indices: 73727829--73727900 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
73727819 TCATGAGATT
*
73727829 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
*
73727859 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
73727886 TGGCACTAAGTGTGC
1 -GGCACTAAGTGTGC
73727901 AGCACTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.14
29 32 0.86
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:73728087 original size:161 final size:160
Alignment explanation
Indices: 73727859--73728159 Score: 575
Period size: 161 Copynumber: 1.9 Consensus size: 160
73727849 AAATTGTACA
73727859 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCAGCACTATGTGTGCGAACCCAAT
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCAGCACTATGTGTGCGAACCCAAT
* *
73727924 ATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATTTTGGACAGCGGA
66 ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGG-
73727989 AAAAGGTAAGTGTGCGAACTTGAAATGCATG
130 AAAAGGTAAGTGTGCGAACTTGAAATGCATG
73728020 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCAGCACTATGTGTGCGAACCCAAT
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCAGCACTATGTGTGCGAACCCAAT
73728085 ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGA
66 ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGA
73728150 AAAGGTAAGT
131 AAAGGTAAGT
73728160 ACCTTGAGTT
Statistics
Matches: 138, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 11 0.08
161 127 0.92
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (160 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCAGCACTATGTGTGCGAACCCAAT
ATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATTTTGGACAGCGGA
AAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:73742266 original size:29 final size:30
Alignment explanation
Indices: 73742191--73742272 Score: 116
Period size: 29 Copynumber: 2.8 Consensus size: 30
73742181 TATGAGCATC
*
73742191 TATGAAAAGGGATGGTTACGAA-C-ATAGAA
1 TATGAAAAGGGATGGTTTC-AACCAATAGAA
73742220 TATGAAAAGGGATGGTTTCAACCAAT-GAA
1 TATGAAAAGGGATGGTTTCAACCAATAGAA
*
73742249 TATGAAAAGGGATGGTTTCGACCA
1 TATGAAAAGGGATGGTTTCAACCA
73742273 TCGTTTAGCA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
28 2 0.04
29 45 0.92
30 2 0.04
ACGTcount: A:0.40, C:0.10, G:0.27, T:0.23
Consensus pattern (30 bp):
TATGAAAAGGGATGGTTTCAACCAATAGAA
Found at i:73746105 original size:50 final size:50
Alignment explanation
Indices: 73746001--73746179 Score: 171
Period size: 50 Copynumber: 3.5 Consensus size: 50
73745991 GGTAAAGATA
* * * *
73746001 TCCCATGTAAGACCATGTATGGGACATGACATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGG
73746057 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* ** * * **
73746107 TCCTC-CGTAAGACCATGTCCAGGACATGGCGTTGGCACCGATATAAGAAC
1 TCC-CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* *
73746157 TCCTATGTAAGACCATATCTGGG
1 TCCCATGTAAGACCATGTCTGGG
73746180 GTATGGAATT
Statistics
Matches: 105, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
50 66 0.63
51 1 0.01
53 3 0.03
55 1 0.01
56 34 0.32
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:73746459 original size:12 final size:12
Alignment explanation
Indices: 73746442--73746480 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
73746432 ATGAGTTATT
73746442 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
73746454 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
73746466 TAAGTGAGTAAG
1 TAAGTAAGCAAG
73746478 TAA
1 TAA
73746481 AGAAGGGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:73747196 original size:181 final size:181
Alignment explanation
Indices: 73746966--73747346 Score: 701
Period size: 181 Copynumber: 2.1 Consensus size: 181
73746956 AAATCCTATC
*
73746966 GAGTCTATTTTC-GTAGAAAAATAATGGTGTGGGTAAAGGAATTTTATATTCTGATATATTTAAT
1 GAGTTTATTTTCTGTAGAAAAATAATGGTGTGGGTAAAGGAATTTTATATTCTGATATATTTAAT
* *
73747030 TTTTGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTTTAAAATCATTAAAA
66 TTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTAAAA
*
73747095 ATTGTACGAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGT
131 ATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGT
*
73747146 GAGTTTATTTTCTGTAGAAAAATAATGGTGTGGGTAAATGAATTTTATATTCTGATATATTTAAT
1 GAGTTTATTTTCTGTAGAAAAATAATGGTGTGGGTAAAGGAATTTTATATTCTGATATATTTAAT
*
73747211 TTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTTTGACTTTATAAAATCATTAAAA
66 TTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTAAAA
73747276 ATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGT
131 ATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGT
73747327 GAGTTTATTTTCTGTAGAAA
1 GAGTTTATTTTCTGTAGAAA
73747347 CAAGTGAAAA
Statistics
Matches: 194, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
180 11 0.06
181 183 0.94
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (181 bp):
GAGTTTATTTTCTGTAGAAAAATAATGGTGTGGGTAAAGGAATTTTATATTCTGATATATTTAAT
TTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTAAAA
ATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGT
Found at i:73747397 original size:181 final size:181
Alignment explanation
Indices: 73747028--73747397 Score: 501
Period size: 181 Copynumber: 2.0 Consensus size: 181
73747018 GATATATTTA
*
73747028 ATTTTT-GTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTTTAAAATCATTA
1 ATTTTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTA
*
73747092 AAAATTGTACGAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGTGAGTTTATTTT
66 AAAATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGTGAGTTTATTTT
******** ** * *** * * *
73747157 CTGTAGAAAAATAATGGTGTGGGTAAATGAATTTTATATTCTGATATATTT
131 CTGTAGAAAAATAATGAAAACACCAAATGAAAATCATACGATGAAAAATTG
* *
73747208 AATTTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTTTGACTTTATAAAATCATTA
1 ATTTTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTA
73747273 AAAATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGTGAGTTTATTTT
66 AAAATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGTGAGTTTATTTT
* * *
73747338 CTGTAGAAACA-AGTGAAAACACCATATGAAAATCATACGATGAGAAAATTG
131 CTGTAGAAAAATAATGAAAACACCAAATGAAAATCATACGATGA-AAAATTG
73747389 ATTTTTAGT
1 ATTTTTAGT
73747398 GAATAAAGGC
Statistics
Matches: 163, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
180 21 0.13
181 142 0.87
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.41
Consensus pattern (181 bp):
ATTTTTAGTTAGACAGGATCAGAATGGTTTTTGGAGTCCCCTGTTCTGACTTTATAAAATCATTA
AAAATTGTACAAACATAATTATGAGTTATAATTTATATTTATAGATTACTTAGTGAGTTTATTTT
CTGTAGAAAAATAATGAAAACACCAAATGAAAATCATACGATGAAAAATTG
Found at i:73753869 original size:50 final size:50
Alignment explanation
Indices: 73753815--73753931 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
73753805 ATTATGAGTT
* * *
73753815 GTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAG
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAA
** * * * *
73753865 GTCCCCCGTAAAACTATGTTTGGGACATGGCATGGGCACCGATATGAGAA
1 GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAA
*
73753915 CTCCCATGTAAGACCAT
1 GTCCCATGTAAGACCAT
73753932 ATCTAGGGTA
Statistics
Matches: 53, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.21
Consensus pattern (50 bp):
GTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAA
Found at i:73754270 original size:29 final size:29
Alignment explanation
Indices: 73754229--73754287 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
73754219 AACAAGTAAG
73754229 TGAGTAAGTAAAGAAGCGAGTAAAGATTC
1 TGAGTAAGTAAAGAAGCGAGTAAAGATTC
73754258 TGAGTAAGTAAAGAAGCGAGTAAAGATTC
1 TGAGTAAGTAAAGAAGCGAGTAAAGATTC
73754287 T
1 T
73754288 AATGCTTGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (29 bp):
TGAGTAAGTAAAGAAGCGAGTAAAGATTC
Found at i:73768526 original size:50 final size:50
Alignment explanation
Indices: 73768459--73768687 Score: 257
Period size: 50 Copynumber: 4.6 Consensus size: 50
73768449 GGGAATGAGA
*
73768459 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
* * *
73768509 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGAACCGTGATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
** * * * *
73768559 TCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAA-C
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGA-AAGG
* * * * * **
73768609 TCCCATGTAAGACCATATCTGGGACATGGAATTGGTA--GTACAAGAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAAAGG
*
73768658 TCCCATATAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
73768688 TTTCGCATGT
Statistics
Matches: 150, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 3 0.02
49 31 0.21
50 114 0.76
51 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAAAGG
Found at i:73775049 original size:40 final size:40
Alignment explanation
Indices: 73775012--73775142 Score: 149
Period size: 40 Copynumber: 3.3 Consensus size: 40
73775002 GCTACTCGTT
*
73775012 CAAATGCCTTCGAGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATT-TAGTAACTCGCA
* * *
73775052 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
* * * * * *
73775092 CAAATGCCTTCG-GGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
73775131 CAAATGCCTTCG
1 CAAATGCCTTCG
73775143 GATCTTAGTC
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 34 0.43
40 44 0.55
41 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGAGACATAACCCGGATTTAGTAACTCGCA
Found at i:73775133 original size:39 final size:40
Alignment explanation
Indices: 73775040--73775143 Score: 156
Period size: 39 Copynumber: 2.6 Consensus size: 40
73775030 AGCCCGGTTA
* * *
73775040 TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
73775080 TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCAGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
*
73775119 TAGTATCTCGCACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCGG
73775144 ATCTTAGTCC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
39 34 0.58
40 25 0.42
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAAT
Found at i:73780919 original size:39 final size:40
Alignment explanation
Indices: 73780829--73780992 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
73780819 CTGAATTTAA
** *
73780829 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
73780869 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
73780908 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
73780948 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
73780988 CCGGA
1 CCGGA
73780993 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:73782353 original size:323 final size:323
Alignment explanation
Indices: 73781761--73782405 Score: 1272
Period size: 323 Copynumber: 2.0 Consensus size: 323
73781751 AACCAATCCA
73781761 CATATGTGCTCACTCAAAAATGCTAAAAAGAAGATTCAAGAATCATCAATCCACCATCACATGCA
1 CATATGTGCTCACTCAAAAATGCTAAAAAGAAGATTCAAGAATCATCAATCCACCATCACATGCA
73781826 TCATTAACAAGCTTCATATTTAGCATGCAATGGCATTAACACAAAATCTACCTAGGCCGAATATC
66 TCATTAACAAGCTTCATATTTAGCATGCAATGGCATTAACACAAAATCTACCTAGGCCGAATATC
73781891 ATCCCCATGACATAGCAAAGATTTGAACCATGGGCTAATTAGAACTCAAGCTAGCAACTAAAAAC
131 ATCCCCATGACATAGCAAAGATTTGAACCATGGGCTAATTAGAACTCAAGCTAGCAACTAAAAAC
73781956 ATGCATGAATCTCATGGCACAACCTCAAACATACCTTGATCTAGATACAAGTATGGCCAAACCTC
196 ATGCATGAATCTCATGGCACAACCTCAAACATACCTTGATCTAGATACAAGTATGGCCAAACCTC
* *
73782021 CTTCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCCTTCCTCCTTCCTTAGAATTTTT
261 CTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCCTTCCTCCTTCCTTAAAATTTTT
73782084 CATATGTGCTCACTCAAAAATGCTAAAAAGAAGATTCAAGAATCATCAATCCACCATCACATGCA
1 CATATGTGCTCACTCAAAAATGCTAAAAAGAAGATTCAAGAATCATCAATCCACCATCACATGCA
73782149 TCATTAACAAGCTTCATATTTAGCATGCAATGGCATTAACACAAAATCTACCTAGGCCGAATATC
66 TCATTAACAAGCTTCATATTTAGCATGCAATGGCATTAACACAAAATCTACCTAGGCCGAATATC
73782214 ATCCCCATGACATAGCAAAGATTTGAACCATGGGCTAATTAGAACTCAAGCTAGCAACTAAAAAC
131 ATCCCCATGACATAGCAAAGATTTGAACCATGGGCTAATTAGAACTCAAGCTAGCAACTAAAAAC
73782279 ATGCATGAATCTCATGGCACAACCTCAAACATACCTTGATCTAGATACAAGTATGGCCAAACCTC
196 ATGCATGAATCTCATGGCACAACCTCAAACATACCTTGATCTAGATACAAGTATGGCCAAACCTC
73782344 CTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCCTTCCTCCTTCCTTAAAATTTT
261 CTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCCTTCCTCCTTCCTTAAAATTTT
73782406 CGGCCAAATG
Statistics
Matches: 320, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
323 320 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (323 bp):
CATATGTGCTCACTCAAAAATGCTAAAAAGAAGATTCAAGAATCATCAATCCACCATCACATGCA
TCATTAACAAGCTTCATATTTAGCATGCAATGGCATTAACACAAAATCTACCTAGGCCGAATATC
ATCCCCATGACATAGCAAAGATTTGAACCATGGGCTAATTAGAACTCAAGCTAGCAACTAAAAAC
ATGCATGAATCTCATGGCACAACCTCAAACATACCTTGATCTAGATACAAGTATGGCCAAACCTC
CTCCTAATCCTCTTCCAAACCAAACATGAAGCAAGAACTCCTTCCTCCTTCCTTAAAATTTTT
Found at i:73786969 original size:42 final size:41
Alignment explanation
Indices: 73786898--73786978 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 41
73786888 TAGAGATTAC
*
73786898 GTGTAAACCATGTCTGGGACATCGGCATCG-TATTTGATTTT
1 GTGTAAACCATGTCTGGGACATCGCCATCGATA-TTGATTTT
*
73786939 GTGTAAGACCCTGTCTGGGACAGT-GCCATCGATATTGATT
1 GTGTAA-ACCATGTCTGGGACA-TCGCCATCGATATTGATT
73786979 ACATATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
41 6 0.17
42 26 0.74
43 3 0.09
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (41 bp):
GTGTAAACCATGTCTGGGACATCGCCATCGATATTGATTTT
Found at i:73791020 original size:30 final size:30
Alignment explanation
Indices: 73790984--73791040 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
73790974 TAAAAAGGAA
73790984 GTAAATACTAGTACTCGTAGTTCCTTTGAG
1 GTAAATACTAGTACTCGTAGTTCCTTTGAG
73791014 GTAAATACTAGTACTCGTAGTTCCTTT
1 GTAAATACTAGTACTCGTAGTTCCTTT
73791041 CAGTTCGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (30 bp):
GTAAATACTAGTACTCGTAGTTCCTTTGAG
Found at i:73797225 original size:13 final size:13
Alignment explanation
Indices: 73797207--73797235 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
73797197 GCACATAAGA
73797207 GTGCCCCACGGCC
1 GTGCCCCACGGCC
73797220 GTGCCCCACGGCC
1 GTGCCCCACGGCC
73797233 GTG
1 GTG
73797236 TTCCCCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.48, G:0.34, T:0.10
Consensus pattern (13 bp):
GTGCCCCACGGCC
Found at i:73798772 original size:13 final size:13
Alignment explanation
Indices: 73798754--73798779 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
73798744 TAAAATCTGC
73798754 TAAAAAATAAAAA
1 TAAAAAATAAAAA
73798767 TAAAAAATAAAAA
1 TAAAAAATAAAAA
73798780 GTAGTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:73800389 original size:31 final size:32
Alignment explanation
Indices: 73800334--73800393 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
73800324 TAAAGAACCT
* *
73800334 AAAAATGCAAACTAAATGATAAAGTAATGAAA
1 AAAAATGAAAACTAAATCATAAAGTAATGAAA
*
73800366 AAAAATGAAAACTAATTCA-AAAGTAATG
1 AAAAATGAAAACTAAATCATAAAGTAATG
73800394 GAGATTATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.62, C:0.07, G:0.12, T:0.20
Consensus pattern (32 bp):
AAAAATGAAAACTAAATCATAAAGTAATGAAA
Found at i:73807649 original size:55 final size:55
Alignment explanation
Indices: 73807529--73807655 Score: 132
Period size: 55 Copynumber: 2.3 Consensus size: 55
73807519 CGACATCGCT
**
73807529 GTGGTCGAACCTGCCAAAACAACACGGGCGCGCGACACGCCCGTGTGAAAGCACA
1 GTGGTCGAACCTGTTAAAACAACACGGGCGCGCGACACGCCCGTGTGAAAGCACA
* * * * ** * *
73807584 TTGGGT-GAACCTATTAAAACAATACGGGCGTGCGACACGCCCGTGT-CTAGTACCC
1 GT-GGTCGAACCTGTTAAAACAACACGGGCGCGCGACACGCCCGTGTGAAAGCA-CA
73807639 GTGGTCGAACCTGTTAA
1 GTGGTCGAACCTGTTAA
73807656 GTTAACACGG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
54 6 0.11
55 48 0.84
56 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (55 bp):
GTGGTCGAACCTGTTAAAACAACACGGGCGCGCGACACGCCCGTGTGAAAGCACA
Found at i:73817827 original size:17 final size:16
Alignment explanation
Indices: 73817805--73817889 Score: 75
Period size: 17 Copynumber: 5.1 Consensus size: 16
73817795 TATAGATTTG
*
73817805 AAACTATAGACTATTAA
1 AAACTATAGACT-TGAA
73817822 AAACTATAGA-TTGAGA
1 AAACTATAGACTTGA-A
*
73817838 CAACTATAGACTGTGAA
1 AAACTATAGACT-TGAA
*
73817855 AAACTATATAC-TGAGA
1 AAACTATAGACTTGA-A
*
73817871 CAACTATAGACTGTGAA
1 AAACTATAGACT-TGAA
73817888 AA
1 AA
73817890 CTCTAGCTAG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
15 5 0.09
16 21 0.38
17 23 0.42
18 6 0.11
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTTGAA
Found at i:73817847 original size:33 final size:33
Alignment explanation
Indices: 73817794--73817889 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
73817784 GTTAAGTGTT
* *
73817794 CTATAGATT-TGA-AACTATAGACTATTAAAAA
1 CTATAGATTGAGACAACTATAGACTATGAAAAA
*
73817825 CTATAGATTGAGACAACTATAGACTGTGAAAAA
1 CTATAGATTGAGACAACTATAGACTATGAAAAA
* * *
73817858 CTATATACTGAGACAACTATAGACTGTGAAAA
1 CTATAGATTGAGACAACTATAGACTATGAAAA
73817890 CTCTAGCTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 9 0.16
32 2 0.03
33 47 0.81
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (33 bp):
CTATAGATTGAGACAACTATAGACTATGAAAAA
Found at i:73817891 original size:16 final size:16
Alignment explanation
Indices: 73817805--73817905 Score: 87
Period size: 16 Copynumber: 6.2 Consensus size: 16
73817795 TATAGATTTG
* *
73817805 AAACTATAGACTATTAA
1 AAACTATAGACT-GTGA
* *
73817822 AAACTATAGATTGAGA
1 AAACTATAGACTGTGA
*
73817838 CAACTATAGACTGTGAA
1 AAACTATAGACTGTG-A
* *
73817855 AAACTATATACTGAGA
1 AAACTATAGACTGTGA
*
73817871 CAACTATAGACTGTGA
1 AAACTATAGACTGTGA
*
73817887 AAACTCTAG-CTAGTGA
1 AAACTATAGACT-GTGA
73817903 AAA
1 AAA
73817906 TGATAGATAG
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
15 2 0.03
16 41 0.61
17 24 0.36
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.25
Consensus pattern (16 bp):
AAACTATAGACTGTGA
Found at i:73821181 original size:22 final size:22
Alignment explanation
Indices: 73821156--73821202 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
73821146 GGGGAAGAAA
73821156 TCCCTATTCAAATACATATAAT
1 TCCCTATTCAAATACATATAAT
* *
73821178 TCCCTATTTAGATACATATAAT
1 TCCCTATTCAAATACATATAAT
73821200 TCC
1 TCC
73821203 GGCTGGAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.38
Consensus pattern (22 bp):
TCCCTATTCAAATACATATAAT
Found at i:73824649 original size:36 final size:36
Alignment explanation
Indices: 73824600--73824670 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
73824590 AACCTCCATC
*
73824600 ATTAACCAGACTCAAGCTAGCAAACATTGCACTCAG
1 ATTAACCAAACTCAAGCTAGCAAACATTGCACTCAG
* *
73824636 ATTAACCAAACTCAAGCTTGTAAACATTGCACTCA
1 ATTAACCAAACTCAAGCTAGCAAACATTGCACTCA
73824671 AGCTAGCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.39, C:0.27, G:0.11, T:0.23
Consensus pattern (36 bp):
ATTAACCAAACTCAAGCTAGCAAACATTGCACTCAG
Found at i:73826804 original size:22 final size:22
Alignment explanation
Indices: 73826774--73826815 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
73826764 TATCATAATA
* *
73826774 TATCTCATATTGATCCACAAAC
1 TATCACATATTCATCCACAAAC
*
73826796 TATCACATATTCATTCACAA
1 TATCACATATTCATCCACAA
73826816 GGTTAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.33
Consensus pattern (22 bp):
TATCACATATTCATCCACAAAC
Found at i:73830127 original size:16 final size:18
Alignment explanation
Indices: 73830106--73830145 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
73830096 TGCAAAGGCT
*
73830106 GAAAAGTC-GAAACGCC-
1 GAAAAGTCTGAAAAGCCA
73830122 GAAAAG-CTGAAAAGCCA
1 GAAAAGTCTGAAAAGCCA
73830139 GAAAAGT
1 GAAAAGT
73830146 GGGTTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 6 0.30
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAGTCTGAAAAGCCA
Found at i:73830869 original size:34 final size:34
Alignment explanation
Indices: 73830826--73830902 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 34
73830816 TTTACATACT
73830826 ATACTAAAATGGGCTAAGACCCAGACTGCCACTG
1 ATACTAAAATGGGCTAAGACCCAGACTGCCACTG
* * **
73830860 ATACTAAAATGGGCTCAGGCCCAGACTGTTACTG
1 ATACTAAAATGGGCTAAGACCCAGACTGCCACTG
*
73830894 CTACTAAAA
1 ATACTAAAA
73830903 GAGGGGCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (34 bp):
ATACTAAAATGGGCTAAGACCCAGACTGCCACTG
Found at i:73832409 original size:22 final size:22
Alignment explanation
Indices: 73832367--73832411 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
73832357 TGTGAAGATA
* *
73832367 TTTATTTTTAGTTTGGTTTATT
1 TTTATTTTTAGTTTAGCTTATT
*
73832389 TTTATTTTTATTTTAGCTTATT
1 TTTATTTTTAGTTTAGCTTATT
73832411 T
1 T
73832412 ATTTTTCATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.09, T:0.73
Consensus pattern (22 bp):
TTTATTTTTAGTTTAGCTTATT
Found at i:73847772 original size:34 final size:34
Alignment explanation
Indices: 73847712--73847777 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
73847702 GTATCCGTTA
* * * *
73847712 GGGCCGTAGCCCACTATAGTATCAGTATCAGTGT
1 GGGCCCTAGCCCACTACAGTAACAGTAACAGTGT
73847746 GGGCCCTAGCCC-CATACAGTAACAGTAACAGT
1 GGGCCCTAGCCCAC-TACAGTAACAGTAACAGT
73847778 AAAAGTAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.04
34 26 0.96
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.21
Consensus pattern (34 bp):
GGGCCCTAGCCCACTACAGTAACAGTAACAGTGT
Found at i:73851627 original size:42 final size:42
Alignment explanation
Indices: 73851565--73851645 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
73851555 TCTAGATCTA
73851565 AATTCTTTCTTTCTTAATCTATATGAATTCAAAATTAACCTG
1 AATTCTTTCTTTCTTAATCTATATGAATTCAAAATTAACCTG
*
73851607 AATTCTTTCTTTCTTGATCTATATGAATTCAAAATTAAC
1 AATTCTTTCTTTCTTAATCTATATGAATTCAAAATTAAC
73851646 TTATTTAATC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.33, C:0.16, G:0.05, T:0.46
Consensus pattern (42 bp):
AATTCTTTCTTTCTTAATCTATATGAATTCAAAATTAACCTG
Found at i:73859356 original size:40 final size:41
Alignment explanation
Indices: 73859296--73859476 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 41
73859286 TATTCGAATG
* *
73859296 ATATCCGGGCTAA-TTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
73859336 ATATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
73859376 ATATCCGGGCTAAG-TCCCAAAGGCATTTATGATAGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
73859416 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCAAGTTG-TT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
73859456 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
73859477 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
38 1 0.01
39 14 0.11
40 104 0.85
41 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:73859744 original size:22 final size:22
Alignment explanation
Indices: 73859704--73859745 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
73859694 GAATGTGCAT
*
73859704 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
73859726 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
73859746 TCGAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:73875997 original size:5 final size:5
Alignment explanation
Indices: 73875989--73876013 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
73875979 AAAATAAAAA
73875989 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
73876014 GTTTGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:73876859 original size:24 final size:24
Alignment explanation
Indices: 73876831--73876881 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
73876821 ATGAAATGTG
73876831 ATAGATTAATAGTTAAATTTATCC
1 ATAGATTAATAGTTAAATTTATCC
73876855 ATAGATTAATAGTTAAATTTATCC
1 ATAGATTAATAGTTAAATTTATCC
73876879 ATA
1 ATA
73876882 TAGATCCGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.08, T:0.41
Consensus pattern (24 bp):
ATAGATTAATAGTTAAATTTATCC
Found at i:73877623 original size:57 final size:57
Alignment explanation
Indices: 73877554--73877667 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
73877544 CCCAAAATCG
73877554 ATGGAATGTAAATTTATGTATGCTTGTATTAATAAATATGACCGGTAAGTTTACTTT
1 ATGGAATGTAAATTTATGTATGCTTGTATTAATAAATATGACCGGTAAGTTTACTTT
*
73877611 ATGGAATGTAAATTTATGTATGCTTGTATTAATAAATATTACCGGTAAGTTTACTTT
1 ATGGAATGTAAATTTATGTATGCTTGTATTAATAAATATGACCGGTAAGTTTACTTT
73877668 CCGTTATACG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (57 bp):
ATGGAATGTAAATTTATGTATGCTTGTATTAATAAATATGACCGGTAAGTTTACTTT
Found at i:73884929 original size:25 final size:25
Alignment explanation
Indices: 73884872--73884930 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
73884862 CAGCTCAAGA
* *
73884872 GAGCTTACTGATATTCAGCTCGCAT
1 GAGCTTACCGATATTCAGCTCGCAG
* * * *
73884897 GAGTTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCGATATTCAGCTCGCAG
73884922 GAGCTTACC
1 GAGCTTACC
73884931 ATTTATAGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGCAG
Found at i:73885156 original size:22 final size:22
Alignment explanation
Indices: 73885131--73885179 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
73885121 GAAGTACATG
* *
73885131 GAAAT-AATGTTACATGATATAT
1 GAAATGAATGATAAATG-TATAT
*
73885153 GAAATGTATGATAAATGTATAT
1 GAAATGAATGATAAATGTATAT
73885175 GAAAT
1 GAAAT
73885180 TTGATTAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (22 bp):
GAAATGAATGATAAATGTATAT
Found at i:73889620 original size:18 final size:17
Alignment explanation
Indices: 73889599--73889641 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
73889589 AATAAAATCC
*
73889599 TAAAATACAAGAAAATTT
1 TAAAATACAA-AAAATTA
*
73889617 TAAAATTATAAAAAATTA
1 TAAAA-TACAAAAAATTA
73889635 TAAAATA
1 TAAAATA
73889642 AAGGAGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
TAAAATACAAAAAATTA
Found at i:73893208 original size:10 final size:10
Alignment explanation
Indices: 73893195--73893242 Score: 62
Period size: 10 Copynumber: 4.8 Consensus size: 10
73893185 TTATTTTCAT
73893195 TTATCTTTAA
1 TTATCTTTAA
73893205 TTATCTTTAA
1 TTATCTTTAA
*
73893215 TTATCTTTAT
1 TTATCTTTAA
*
73893225 TTAT-TTGTAT
1 TTATCTT-TAA
73893235 TTATCTTT
1 TTATCTTT
73893243 TAGAATTTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:73895400 original size:25 final size:24
Alignment explanation
Indices: 73895368--73895420 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
73895358 AACAATATCA
73895368 CGGTGGTTTA-TTAAAAAAAAATCT
1 CGGTGG-TTACTTAAAAAAAAATCT
*
73895392 CGGTGGGTTACTTGAAAAAAAATCT
1 CGGT-GGTTACTTAAAAAAAAATCT
73895417 CGGT
1 CGGT
73895421 AGTTTTCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (24 bp):
CGGTGGTTACTTAAAAAAAAATCT
Found at i:73898531 original size:45 final size:46
Alignment explanation
Indices: 73898477--73898585 Score: 148
Period size: 45 Copynumber: 2.3 Consensus size: 46
73898467 TGCACACTTT
*
73898477 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAAA
1 TCAC-ATTGGTCATTCGGCCTTATCACATATAACACTTACACATAAA
* **
73898523 TCACATTGGTCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGTCATTCGGCCTTATCACATATA-ACACTTACACATAAA
*
73898570 TCACATTGGCCATTCG
1 TCACATTGGTCATTCG
73898586 ATCTTAAGCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
45 26 0.46
46 4 0.07
47 26 0.46
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGTCATTCGGCCTTATCACATATAACACTTACACATAAA
Found at i:73901179 original size:22 final size:20
Alignment explanation
Indices: 73901139--73901179 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
73901129 AGTCTTATTA
*
73901139 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
73901159 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
73901180 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:73902337 original size:77 final size:77
Alignment explanation
Indices: 73902249--73902400 Score: 286
Period size: 77 Copynumber: 2.0 Consensus size: 77
73902239 ATGCCATTTC
*
73902249 ATTAACAACAAATTTCATCCTTTTTAACCAATTCAAAACATACCAAAAATCACATAGCAAACTCA
1 ATTAACAACAAATTTCATCATTTTTAACCAATTCAAAACATACCAAAAATCACATAGCAAACTCA
73902314 TTCATTCTAATT
66 TTCATTCTAATT
*
73902326 ATTAACAACAAATTTCATCATTTTTAACCAATTCAAAACATACCAAAAATCACATAGTAAACTCA
1 ATTAACAACAAATTTCATCATTTTTAACCAATTCAAAACATACCAAAAATCACATAGCAAACTCA
73902391 TTCATTCTAA
66 TTCATTCTAA
73902401 CATATCATTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.31
Consensus pattern (77 bp):
ATTAACAACAAATTTCATCATTTTTAACCAATTCAAAACATACCAAAAATCACATAGCAAACTCA
TTCATTCTAATT
Found at i:73903234 original size:42 final size:44
Alignment explanation
Indices: 73903132--73903293 Score: 117
Period size: 43 Copynumber: 3.8 Consensus size: 44
73903122 AGCTCGTACA
* *
73903132 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGCAATCAAATATCG
1 ATGCC-ACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
* * * *
73903175 ATGCCACTGTTCTAGACAG-GGTTTTACACGAAATCAATTAT-G
1 ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
* ** *
73903217 ATGCCGA-TGTCCCAGACA-TAGTCTTACATATAAATCATAA-GTCG
1 ATGCC-ACTGTCCCAGACAGTGGTCTTACA-CGAAATCA-AATATCG
*
73903261 ATGCCAAC-GTCCCAGA-TGTGGTCTTACACGAAA
1 ATGCC-ACTGTCCCAGACAGTGGTCTTACACGAAA
73903294 ACACATATAG
Statistics
Matches: 91, Mismatches: 19, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
42 24 0.26
43 41 0.45
44 26 0.29
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCCACTGTCCCAGACAGTGGTCTTACACGAAATCAAATATCG
Found at i:73910921 original size:44 final size:44
Alignment explanation
Indices: 73910849--73910955 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
73910839 AATATGATGC
* * * *
73910849 TCCCAGACATGGTCTTACTCATAAATCATAAGTCGATGTCAACG
1 TCCCAGACGTGGTCTTACACATAAATCATAAATCGATGCCAACG
** * *
73910893 TCTTAGACGTGGTCTTACACGTAAATCATAAATCGATGCCAATG
1 TCCCAGACGTGGTCTTACACATAAATCATAAATCGATGCCAACG
73910937 TCCCAGACGTGGTCTTACA
1 TCCCAGACGTGGTCTTACA
73910956 GGAAAACACA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
TCCCAGACGTGGTCTTACACATAAATCATAAATCGATGCCAACG
Found at i:73914388 original size:26 final size:26
Alignment explanation
Indices: 73914357--73914409 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
73914347 AAAATAAAAC
73914357 ATATCATAAAACAGTGTGAAAACAAT
1 ATATCATAAAACAGTGTGAAAACAAT
73914383 ATATCATAAAACAGTGTGAAAACAAT
1 ATATCATAAAACAGTGTGAAAACAAT
73914409 A
1 A
73914410 GAATAGAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (26 bp):
ATATCATAAAACAGTGTGAAAACAAT
Found at i:73924755 original size:55 final size:55
Alignment explanation
Indices: 73924666--73924775 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
73924656 GATGAGGAGT
*
73924666 GTAAACTCCTCGAACCACCATGACTATGCGAAATCGAGGTAAGTAGAGCTTAGAC
1 GTAAACTCCTCGAACCACCATGACTATGCAAAATCGAGGTAAGTAGAGCTTAGAC
73924721 GTAAACTCCTCGAACCACCATGACTATGCAAAATCGAGGTAAGTAGAGCTTAGAC
1 GTAAACTCCTCGAACCACCATGACTATGCAAAATCGAGGTAAGTAGAGCTTAGAC
73924776 TATAAATAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.20
Consensus pattern (55 bp):
GTAAACTCCTCGAACCACCATGACTATGCAAAATCGAGGTAAGTAGAGCTTAGAC
Found at i:73925285 original size:17 final size:17
Alignment explanation
Indices: 73925264--73925312 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
73925254 TTATAAACAC
73925264 CTATTATTTATTTTTAT
1 CTATTATTTATTTTTAT
*
73925281 TTATTATTTATTTTTAT
1 CTATTATTTATTTTTAT
73925298 CT-TTATTTATATTTT
1 CTATTATTTAT-TTTT
73925313 GAAATTACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (17 bp):
CTATTATTTATTTTTAT
Found at i:73930403 original size:18 final size:18
Alignment explanation
Indices: 73930382--73930417 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
73930372 AAGAAAATTT
73930382 ATATCTAAAATTTAAAGA
1 ATATCTAAAATTTAAAGA
*
73930400 ATATCTAAATTTTAAAGA
1 ATATCTAAAATTTAAAGA
73930418 CAAACTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (18 bp):
ATATCTAAAATTTAAAGA
Found at i:73931841 original size:17 final size:17
Alignment explanation
Indices: 73931819--73931854 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
73931809 TAGAAATTCT
*
73931819 TTACTCTTGGGGGTACC
1 TTACTCTCGGGGGTACC
73931836 TTACTCTCGGGGGTACC
1 TTACTCTCGGGGGTACC
73931853 TT
1 TT
73931855 GTATTGCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.25, G:0.28, T:0.36
Consensus pattern (17 bp):
TTACTCTCGGGGGTACC
Found at i:73932206 original size:19 final size:20
Alignment explanation
Indices: 73932170--73932222 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
73932160 AAATTACAAA
*
73932170 AAAAATTTAAAATAATTT-T
1 AAAAATTCAAAATAATTTAT
73932189 CAAAAATTCAAAAT-ATTTAT
1 -AAAAATTCAAAATAATTTAT
73932209 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
73932223 TTATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTAT
Done.