Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 36 of 189
Found at i:11014640 original size:21 final size:20
Alignment explanation
Indices: 11014616--11014702 Score: 53
Period size: 19 Copynumber: 4.5 Consensus size: 20
11014606 AATAAGATTA
11014616 TTAATATAAATAATAAATAAT
1 TTAATATAAATAA-AAATAAT
* *
11014637 TTAATAATAATTTAAAATAA-
1 TTAAT-ATAAATAAAAATAAT
* *
11014657 TT-AT-T-ATTAAATATAAT
1 TTAATATAAATAAAAATAAT
*
11014674 TTAATA-AAA-AATATATAAT
1 TTAATATAAATAA-AAATAAT
11014693 TTAATA-AAAT
1 TTAATATAAAT
11014703 TCTTAATATA
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
16 9 0.17
17 3 0.06
18 4 0.07
19 19 0.35
20 2 0.04
21 11 0.20
22 6 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATATAAATAAAAATAAT
Found at i:11014645 original size:11 final size:11
Alignment explanation
Indices: 11014626--11014658 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11014616 TTAATATAAA
11014626 TAATAAATAATT
1 TAAT-AATAATT
11014638 TAATAATAATT
1 TAATAATAATT
11014649 TAA-AATAATT
1 TAATAATAATT
11014659 ATTATTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 7 0.33
11 10 0.48
12 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATAATAATT
Found at i:11014679 original size:24 final size:21
Alignment explanation
Indices: 11014603--11014715 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
11014593 GTTATTAAAT
11014603 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* *
11014625 -ATAATAAATAATTTAATAATAA
1 TTTAATAAATTA-TTAAT-ATAA
11014647 TTTAAAATAATTATTATTAAATATAA
1 TTT--AATAA--ATTATT-AATATAA
* *
11014673 TTTAATAAA-AAAT-ATATAA
1 TTTAATAAATTATTAATATAA
*
11014692 TTTAATAAAATTCTTAATATAA
1 TTTAAT-AAATTATTAATATAA
11014714 TT
1 TT
11014716 ATTCTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 22
0.70 0.09 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 14 0.20
22 13 0.18
23 1 0.01
24 5 0.07
25 5 0.07
26 9 0.13
27 6 0.08
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:11014682 original size:29 final size:28
Alignment explanation
Indices: 11014649--11014739 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
11014639 AATAATAATT
11014649 TAAAATAATTATTATTAAATATAATTTAA
1 TAAAATAATTATTATTAAATATAATTT-A
* * *
11014678 TAAAA-AATATATAATTTAATAAAATTCT-
1 TAAAATAAT-TATTATTAAATATAATT-TA
* * *
11014706 TAATATAATTATTCTTATAT-TAATTTA
1 TAAAATAATTATTATTAAATATAATTTA
11014733 CTAAAAT
1 -TAAAAT
11014740 CATAATATAT
Statistics
Matches: 47, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
26 1 0.02
27 4 0.09
28 19 0.40
29 22 0.47
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
TAAAATAATTATTATTAAATATAATTTA
Found at i:11014692 original size:56 final size:57
Alignment explanation
Indices: 11014616--11014744 Score: 156
Period size: 56 Copynumber: 2.3 Consensus size: 57
11014606 AATAAGATTA
11014616 TTAATATAAATAATAAATAATTTAATAATAA-T-TTAAAATAATTATTATTAAATATAAT
1 TTAATA-AAATAATAAATAATTTAATAA-AATTCTTAAAATAATTATTATTAAAT-TAAT
* * * *
11014674 TTAATAAAA-AATATATAATTTAATAAAATTCTTAATATAATTATTCTTATATTAAT
1 TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
* *
11014730 TTACTAAAATCATAA
1 TTAATAAAATAATAA
11014745 TATATAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
55 2 0.03
56 29 0.48
57 24 0.39
58 6 0.10
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (57 bp):
TTAATAAAATAATAAATAATTTAATAAAATTCTTAAAATAATTATTATTAAATTAAT
Found at i:11015160 original size:77 final size:77
Alignment explanation
Indices: 11015033--11015184 Score: 268
Period size: 77 Copynumber: 2.0 Consensus size: 77
11015023 TTTTTGTCCA
* *
11015033 CTTTAATAATTGAACTTGACAATTAGATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
1 CTTTAATAATTGAACTTGAAAATTAAATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
11015098 ACTGACATAACT
66 ACTGACATAACT
*
11015110 CTTTAATAATTGAACTTGAAAATTAAATATATTTTAATCTTTGAACTTGAAATGTATAAAATTTT
1 CTTTAATAATTGAACTTGAAAATTAAATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
*
11015175 ATTGACATAA
66 ACTGACATAA
11015185 AACTTTTAAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (77 bp):
CTTTAATAATTGAACTTGAAAATTAAATATATTTTAATCTTTGAACTTGAAATATATAAAATTTT
ACTGACATAACT
Found at i:11029391 original size:21 final size:23
Alignment explanation
Indices: 11029367--11029410 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
11029357 AAAAAATAAA
*
11029367 TAGATAAATTTA-TT-TTTATAT
1 TAGATAAATATAGTTATTTATAT
11029388 TAGATAAATATAGTTATTTATAT
1 TAGATAAATATAGTTATTTATAT
11029411 ATGTAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 11 0.55
22 2 0.10
23 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
TAGATAAATATAGTTATTTATAT
Found at i:11038837 original size:75 final size:75
Alignment explanation
Indices: 11038559--11038851 Score: 354
Period size: 75 Copynumber: 3.9 Consensus size: 75
11038549 GGGCAAATTA
* * * ** *
11038559 TTTCGTCAGTTTATCTGACTAGTGCTGGGCATACCATTATACTCATCGGTTTATCCGACTAGAGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
*
11038624 TGGACGTAAC
66 TGGGCGTAAC
* * * * *
11038634 TTTTGTCAGTTTATCTGACTAGTGCTGGGCACATTATTATATTTTTTGATTTATCCGACTAGCGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
* *
11038699 TGAGTGTAAC
66 TGGGCGTAAC
* ** * *
11038709 TTTCGTCAGTTTATTTGACTAGTGCTGGGCACATCATTATATTTGTCATTTTATCTGACTAGCGT
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
*
11038774 TGGGCGCAAC
66 TGGGCGTAAC
* * * * *
11038784 TTTCGCCAGTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCGGTTTATTCG-CTAGTGC
1 TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
11038848 TGGG
66 TGGG
11038852 TACATCATTA
Statistics
Matches: 183, Mismatches: 35, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
74 9 0.05
75 174 0.95
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.39
Consensus pattern (75 bp):
TTTCGTCAGTTTATCTGACTAGTGCTGGGCACATCATTATATTTGTCGGTTTATCCGACTAGCGC
TGGGCGTAAC
Found at i:11038883 original size:39 final size:39
Alignment explanation
Indices: 11038792--11038891 Score: 157
Period size: 39 Copynumber: 2.5 Consensus size: 39
11038782 ACTTTCGCCA
*
11038792 GTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCG
1 GTTTATCTG-CTAGTGCTGGGTACATCATTATATTTGTCG
11038832 GTTTAT-TCGCTAGTGCTGGGTACATCATTATATTTGTCG
1 GTTTATCT-GCTAGTGCTGGGTACATCATTATATTTGTCG
*
11038871 GTTTATCTGCTAGCGCTGGGT
1 GTTTATCTGCTAGTGCTGGGT
11038892 GCAACTTTCA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
39 48 0.86
40 8 0.14
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (39 bp):
GTTTATCTGCTAGTGCTGGGTACATCATTATATTTGTCG
Found at i:11038936 original size:113 final size:115
Alignment explanation
Indices: 11038717--11038958 Score: 353
Period size: 113 Copynumber: 2.1 Consensus size: 115
11038707 ACTTTCGTCA
* * *
11038717 GTTTATTTGACTAGTGCTGGGCACATCATTATATTTGTCATTTTATCTGACTAGCGTTGGGCGCA
1 GTTTATTCGACTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCA
* * *
11038782 ACTTTCGCCAGTTTATCTGACTAGTGCTAGGTACATCATTATATTTGTCG
66 ACTTTCACCAATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCG
* * *
11038832 GTTTATTCG-CTAGTGCTGGGTACATCATTATATTTGTCGGTTTATCTG-CTAGCGCTGGGTGCA
1 GTTTATTCGACTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCA
* *
11038895 ACTTTCATCAATTTATCTGACTAGTGCTAGGCACATTATTATATTTGTCG
66 ACTTTCACCAATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCG
* *
11038945 ATTTATCCGACTAG
1 GTTTATTCGACTAG
11038959 CGTTAGGTGT
Statistics
Matches: 113, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
113 65 0.58
114 40 0.35
115 8 0.07
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (115 bp):
GTTTATTCGACTAGTGCTGGGCACATCATTATATTTGTCAGTTTATCTGACTAGCGCTGGGCGCA
ACTTTCACCAATTTATCTGACTAGTGCTAGGCACATCATTATATTTGTCG
Found at i:11043913 original size:12 final size:13
Alignment explanation
Indices: 11043890--11043918 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11043880 AAAATAAGGT
11043890 TTAAAATGATGAA
1 TTAAAATGATGAA
11043903 TTAAAAT-ATGAA
1 TTAAAATGATGAA
11043915 TTAA
1 TTAA
11043919 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (13 bp):
TTAAAATGATGAA
Found at i:11046052 original size:175 final size:173
Alignment explanation
Indices: 11045755--11046238 Score: 666
Period size: 175 Copynumber: 2.8 Consensus size: 173
11045745 TCTAGTCGGC
* * * * * * *
11045755 AAGACTTGATGCGATCTGCTCTACTGCAACTCCAGAGAGGTAAGATTTATTATTTTAATCCGCTC
1 AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATAT-TTATTTTAATCAGCTC
11045820 CACTGTAATCTCAGGGAGATATGATTACTAGCTTCAATCTGC-TCTGCTGTAATCTCAGGGAGAT
65 CACTGTAATCTCAGGGAGATA-GATTACTAGCTTCAATCTGCTTC-GCTGTAATCTCAGGGAGAT
* * **
11045884 AAGATCTGAGATTTTTTGGCCTATTCCACTGTAATCTCAGGGAGAT
128 AAGATCTGAAATTCTTCAGCCTATTCCACTGTAATCTCAGGGAGAT
*
11045930 AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCAGCTC
1 AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGAT-ATTTATTTTAATCAGCTC
* ** ** * *
11045995 CATTGTAATCTCAATGAGATAGAATTTTTAGCTTCAATATGCTTCGCTGTAATCTCAGGAAGATA
65 CACTGTAATCTCAGGGAGATAG-ATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGATA
*
11046060 AGATCTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGAT
129 AGATCTGAAATTCTTCAGCCTATTCCACTGTAATCTCAGGGAGAT
* *
11046105 AAGACCTGATGCGATCTACTTTGCTGTAACTTCAGAGAGATAAGATTATTTATTTTAATCTA-CT
1 AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGA-TATTTATTTTAATC-AGCT
* *
11046169 CCACTGTAATCTCAGGGAGATGGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
64 CCACTGTAATCTCAGGGAGAT-AGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGAT
11046234 AAGAT
128 AAGAT
11046239 TTGCTTCTTC
Statistics
Matches: 272, Mismatches: 31, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
174 1 0.00
175 265 0.97
176 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (173 bp):
AAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATATTTATTTTAATCAGCTCC
ACTGTAATCTCAGGGAGATAGATTACTAGCTTCAATCTGCTTCGCTGTAATCTCAGGGAGATAAG
ATCTGAAATTCTTCAGCCTATTCCACTGTAATCTCAGGGAGAT
Found at i:11046189 original size:44 final size:44
Alignment explanation
Indices: 11045795--11046239 Score: 168
Period size: 44 Copynumber: 10.2 Consensus size: 44
11045785 TCCAGAGAGG
* **
11045795 TAAGATT-TATTATTTTAATCCGCTCCACTGTAATCTCAGGGAGA
1 TAAGATTAT-TTATTTCAATCTACTCCACTGTAATCTCAGGGAGA
* * * * **
11045839 TATGATTA-CTAGCTTCAATCTGCTCTGCTGTAATCTCAGGGAGA
1 TAAGATTATTTA-TTTCAATCTACTCCACTGTAATCTCAGGGAGA
*** *
11045883 TAAGATCTGAGATTT-TTT-GGCCTATTCCACTGTAATCTCAGGGAGA
1 TAAGAT-T---ATTTATTTCAATCTACTCCACTGTAATCTCAGGGAGA
** * * * * *
11045929 TAAGA--CCTGA-TGCGATCTACTCTACTGTAA-CTTCAGAGAGA
1 TAAGATTATTTATTTCAATCTACTCCACTGTAATC-TCAGGGAGA
** * * **
11045970 TAAGATCCTTTATTTTAATC-AGCTCCATTGTAATCTCAATGAGA
1 TAAGATTATTTATTTCAATCTA-CTCCACTGTAATCTCAGGGAGA
* * * * * *
11046014 T-AGAATT-TTTAGCTTCAATATGCTTCGCTGTAATCTCAGGAAGA
1 TAAG-ATTATTTA-TTTCAATCTACTCCACTGTAATCTCAGGGAGA
* * * *
11046058 TAAGATCTGAAATT-CTTCAGTCTATTCCACTGTAATCTCAGGGAGA
1 TAAGAT-T--ATTTATTTCAATCTACTCCACTGTAATCTCAGGGAGA
** * * * *** *
11046104 TAAGA--CCTGA-TGCGATCTACTTTGCTGTAA-CTTCAGAGAGA
1 TAAGATTATTTATTTCAATCTACTCCACTGTAATC-TCAGGGAGA
*
11046145 TAAGATTATTTATTTTAATCTACTCCACTGTAATCTCAGGGAGA
1 TAAGATTATTTATTTCAATCTACTCCACTGTAATCTCAGGGAGA
** * * * *
11046189 TGGGATTA-CTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGA
1 TAAGATTATTTA-TTTCAATCTACTCCACTGTAATCTCAGGGAGA
11046233 TAAGATT
1 TAAGATT
11046240 TGCTTCTTCA
Statistics
Matches: 287, Mismatches: 84, Indels: 60
0.67 0.19 0.14
Matches are distributed among these distances:
40 4 0.01
41 53 0.18
43 16 0.06
44 146 0.51
45 6 0.02
46 56 0.20
47 2 0.01
48 3 0.01
49 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (44 bp):
TAAGATTATTTATTTCAATCTACTCCACTGTAATCTCAGGGAGA
Found at i:11046249 original size:44 final size:44
Alignment explanation
Indices: 11045811--11046305 Score: 144
Period size: 44 Copynumber: 11.3 Consensus size: 44
11045801 TTATTATTTT
* * * *
11045811 AATCCGCTCCACTGTAATCTCAGGGAGATATGA-TTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCT-TCTTC
** * * * *
11045855 AATCTGCTCTGCTGTAATCTCAGGGAGATAAGATCTGAGATTTTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT-T-TGCTTCTTC
*** ** * ** *
11045901 GGCCTATTCCACTGTAATCTCAGGGAGATAAGA---CCTGATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCTTCTTC
* * * * **
11045942 GATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGAT--TTGCTTCTTC
* * **
11045986 AATCAGCTCCATTGTAATCTCAATGAGAT-AGAATTT--TTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTTGCTT--CTTC
* * * * * *
11046030 AATATGCTTCGCTGTAATCTCAGGAAGATAAGATCTGAAATTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTG--CTTCTTC
* ** * ** *
11046076 AGTCTATTCCACTGTAATCTCAGGGAGATAAGA---CCTGATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCTTCTTC
* * *** * * *
11046117 GATCTACTTTGCTGTAA-CTTCAGAGAGATAAGATTAT--TTATTTT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT-TGCTT-CTTC
* ** * *
11046161 AATCTACTCCACTGTAATCTCAGGGAGATGGGA-TTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCT-TCTTC
*
11046205 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTGCTTCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCTTCTTC
* * * * * * *
11046249 AGTCTGCCCCACTGTGA-CTTCAGGGGGATAAGACTTGTTTCCTC
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATTTGCTTCTTC
*
11046293 AGTCTGCTCCACT
1 AATCTGCTCCACT
11046306 ACAACTTTAG
Statistics
Matches: 323, Mismatches: 96, Indels: 64
0.67 0.20 0.13
Matches are distributed among these distances:
40 4 0.01
41 55 0.17
42 3 0.01
43 7 0.02
44 182 0.56
45 9 0.03
46 60 0.19
47 1 0.00
48 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTTGCTTCTTC
Found at i:11046323 original size:44 final size:44
Alignment explanation
Indices: 11046224--11046326 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
11046214 CGCTGTAATC
* * ***
11046224 TCAGGGAGATAAGATTTGCTTCTTCAGTCTGCCCCACTGTGACT
1 TCAGGGAGATAAGACTTGCTTCCTCAGTCTGCCCCACTACAACT
* * *
11046268 TCAGGGGGATAAGACTTGTTTCCTCAGTCTGCTCCACTACAACT
1 TCAGGGAGATAAGACTTGCTTCCTCAGTCTGCCCCACTACAACT
*
11046312 TTAGGGAGATAAGAC
1 TCAGGGAGATAAGAC
11046327 CCGATGCGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.29
Consensus pattern (44 bp):
TCAGGGAGATAAGACTTGCTTCCTCAGTCTGCCCCACTACAACT
Found at i:11052273 original size:23 final size:24
Alignment explanation
Indices: 11052232--11052279 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
11052222 ATGCCCTTAC
11052232 TATATTCTGGTAAGGTTTCATATG
1 TATATTCTGGTAAGGTTTCATATG
11052256 TATATTCTGG-AAGGTTTCATATG
1 TATATTCTGGTAAGGTTTCATATG
11052279 T
1 T
11052280 GAACTGTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (24 bp):
TATATTCTGGTAAGGTTTCATATG
Found at i:11058769 original size:12 final size:13
Alignment explanation
Indices: 11058746--11058774 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
11058736 AAAATAAGGT
11058746 TTAAAATGATGAA
1 TTAAAATGATGAA
11058759 TTAAAAT-ATGAA
1 TTAAAATGATGAA
11058771 TTAA
1 TTAA
11058775 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (13 bp):
TTAAAATGATGAA
Found at i:11061362 original size:15 final size:14
Alignment explanation
Indices: 11061336--11061365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11061326 GGCTCACAAA
11061336 AAAATAATAAACAC
1 AAAATAATAAACAC
11061350 AAAATAATAAA-AC
1 AAAATAATAAACAC
11061363 AAA
1 AAA
11061366 GTCTAAGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAATAATAAACAC
Found at i:11061496 original size:12 final size:12
Alignment explanation
Indices: 11061479--11061504 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11061469 AGGATGTGCA
11061479 ATCTTAGATATG
1 ATCTTAGATATG
11061491 ATCTTAGATATG
1 ATCTTAGATATG
11061503 AT
1 AT
11061505 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:11061527 original size:19 final size:20
Alignment explanation
Indices: 11061491--11061538 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
11061481 CTTAGATATG
11061491 ATCTTAGATATGATATATGCA
1 ATCTTAGATATGA-ATATGCA
11061512 ATCTTAGATATG-ATATGCA
1 ATCTTAGATATGAATATGCA
*
11061531 ATATTAGA
1 ATCTTAGA
11061539 AGATATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 14 0.54
21 12 0.46
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.38
Consensus pattern (20 bp):
ATCTTAGATATGAATATGCA
Found at i:11061848 original size:3 final size:3
Alignment explanation
Indices: 11061842--11061940 Score: 69
Period size: 3 Copynumber: 33.0 Consensus size: 3
11061832 ATTTTTTTAT
* * *
11061842 TTA TTA TTTA TTA TTA TTA -AA TT- TTA TT- TTC TTG TTA TTAA GTTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A -TTA
* * * * * *
11061887 TTA TTA TTG TTA TTG TTA TTA TCA TCA TCA TTA TTA TTC TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11061935 TTA TTA
1 TTA TTA
11061941 CTATATATAC
Statistics
Matches: 78, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
2 5 0.06
3 66 0.85
4 5 0.06
5 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11062304 original size:30 final size:31
Alignment explanation
Indices: 11062270--11062327 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11062260 TATTTGTTTA
*
11062270 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
11062300 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
11062328 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:11062320 original size:28 final size:27
Alignment explanation
Indices: 11062268--11062347 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
11062258 ATTATTTGTT
*
11062268 TATATATATATGTAATTATCTTTTTTATAA
1 TATATATATATGT-A-TAT-ATTTTTATAA
* * *
11062298 TCTATATATATGTATATAATTTTTTTTA
1 TATATATATATGTATAT-ATTTTTATAA
* *
11062326 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
11062348 GTACCCTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.57
29 1 0.02
30 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTATAA
Found at i:11063845 original size:169 final size:168
Alignment explanation
Indices: 11063509--11063825 Score: 456
Period size: 169 Copynumber: 1.9 Consensus size: 168
11063499 TACCCTTTTA
* * *
11063509 AGTGGGAGTGAGAAACTAATCCTTCGTGAGGTTTTCACCTCCGTATAGGATAGTGGATTGCTTTC
1 AGTGGGAGTGAGAAACTAATCCTTCGTGAGGTCTTCACCTCCGTACAGGATAGCGGATTGCTTTC
* * * *
11063574 GAAATACATCGGTACCTATGCCTTCGTGAGATTATCATCTCCGTATAGTCATAGGGAAAATGTGT
66 GAAATACATCCGTACCTATGCCTTCGTGAGATTATCATCTCCGTACAGCCATAGGGAAAATGTAT
11063639 TCCCCTGAACCGAACTTGACCTATATGAACCTATAATG
131 TCCCCTGAACCGAACTTGACCTATATGAACCTATAATG
* * *
11063677 AGTGGGAGTGAGAAGCTATTTCCTTCGTGAGGTCTTCACCTCCGTGCAGGATAGCGGATTGCTTT
1 AGTGGGAGTGAGAAACTA-ATCCTTCGTGAGGTCTTCACCTCCGTACAGGATAGCGGATTGCTTT
** ** * *
11063742 CGGGATACATCCGTACCTATGTTTTCGTGAGATTTTCATCTCCGTGCAGCCATAGGG-AAATGTA
65 CGAAATACATCCGTACCTATGCCTTCGTGAGATTATCATCTCCGTACAGCCATAGGGAAAATGTA
*
11063806 TTCCCCTTGAACTGAACTTG
130 TTCCCC-TGAACCGAACTTG
11063826 GTCCGTATGA
Statistics
Matches: 130, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
168 29 0.22
169 101 0.78
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (168 bp):
AGTGGGAGTGAGAAACTAATCCTTCGTGAGGTCTTCACCTCCGTACAGGATAGCGGATTGCTTTC
GAAATACATCCGTACCTATGCCTTCGTGAGATTATCATCTCCGTACAGCCATAGGGAAAATGTAT
TCCCCTGAACCGAACTTGACCTATATGAACCTATAATG
Found at i:11067350 original size:132 final size:132
Alignment explanation
Indices: 11067112--11067651 Score: 893
Period size: 132 Copynumber: 4.1 Consensus size: 132
11067102 GAAAATCAGT
*
11067112 GAAGATAGCAGGTCTTGTCTTCCTATATTGGT-GGAAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGG-AAGTGGATCGAAGATGCAGATCTTGTCTT
*
11067176 CCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAG
11067241 ATC
130 ATC
* *
11067244 GAAGATAGCAGGTCCTGTGTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * *
11067309 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTAAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
11067374 TC
131 TC
* * * * *
11067376 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGTGAATCGAAAATACAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
* *
11067441 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGTCTTCATGTATTGGCGTGAAGTAG
65 CCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAG
11067506 ATC
130 ATC
*
11067509 GAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
11067574 CCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
11067639 TC
131 TC
11067641 GAAGATAGCAG
1 GAAGATAGCAG
11067652 ATATTGCCTT
Statistics
Matches: 377, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
132 255 0.68
133 122 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:11067638 original size:265 final size:264
Alignment explanation
Indices: 11067112--11067653 Score: 924
Period size: 265 Copynumber: 2.0 Consensus size: 264
11067102 GAAAATCAGT
* * * * *
11067112 GAAGATAGCAGGTCTTGTCTTCCTATATTGGTGGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGATCATGTCTTCCTATATTGGTGGAAAGTGAATCGAAAATACAGATCTTGTCTTC
* *
11067177 CCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
*
11067242 TCGAAGATAGCAGGTCCTGTGTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
131 TCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
* * *
11067307 TTCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTAAAGTA
196 TCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTAAAGTA
11067372 GATC
261 GATC
11067376 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCG-AAGTGAATCGAAAATACAGATCTTGTCT
1 GAAGATAGCAGATCATGTCTTCCTATATTGGT-G-GAAAGTGAATCGAAAATACAGATCTTGTCT
*
11067440 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGTCTTCATGTATTGGCGTGAAGTA
64 TCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTA
*
11067505 GATCGAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
129 GATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGT
* *
11067570 CTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAG
194 CTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTAAAG
11067635 TAGATC
259 TAGATC
11067641 GAAGATAGCAGAT
1 GAAGATAGCAGAT
11067654 ATTGCCTTCA
Statistics
Matches: 261, Mismatches: 15, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
264 30 0.11
265 230 0.88
266 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (264 bp):
GAAGATAGCAGATCATGTCTTCCTATATTGGTGGAAAGTGAATCGAAAATACAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATATTGTCTTCATGTATTGGCGTGAAGTAGA
TCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
TCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTTGTCTTCATGTATTGGCGTAAAGTA
GATC
Found at i:11067665 original size:44 final size:45
Alignment explanation
Indices: 11067112--11067664 Score: 497
Period size: 44 Copynumber: 12.5 Consensus size: 45
11067102 GAAAATCAGT
* * *
11067112 GAAGATAGCAGGTCTTGTCTTCCTATATTGGT-G-GAAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTG-AAGTAGATC
** * * *
11067156 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * *
11067200 GAAGAAAGCAGATATTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * * * *
11067244 GAAGATAGCAGGTCCTGTGTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * *
11067288 GAAGAT-GCAGATCTTGTCTTTC-CATATTGGTGGCGGAGTAGATC
1 GAAGATAGCAGATCTTGTC-TTCATATATTGGTCGTGAAGTAGATC
* * * *
11067332 GAAGAAAGCAAATCTTGTCTTCATGTATTGG-CGTAAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * *
11067376 GAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGAAGT-GAATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAG-ATC
* ** * * *
11067421 GAAAATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * *
11067465 GAAGAAAGCATATATTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * * *
11067509 GAAGATAGCATG-TCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCA-GATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
** * *
11067553 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* * *
11067597 AAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
* *
11067641 GAAGATAGCAGATATTGCCTTCAT
1 GAAGATAGCAGATCTTGTCTTCAT
11067665 GCACCGATAG
Statistics
Matches: 410, Mismatches: 82, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.00
43 63 0.15
44 253 0.62
45 93 0.23
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (45 bp):
GAAGATAGCAGATCTTGTCTTCATATATTGGTCGTGAAGTAGATC
Found at i:11067746 original size:44 final size:44
Alignment explanation
Indices: 11067698--11067836 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
11067688 AGACAACAGC
11067698 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* *** * ** * * * * *
11067742 CTTGCCTTCCT-GCACCGACAGCGAAGCA-AATCGAAGACACCAG-C
1 CTTGCCTCCCTAG-GTTG-CAGCGGAGCAGGCT-AAAAATAGCAGAT
*
11067786 CTTGCCTCCCTAGGTTGCAGCAGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
11067830 CTTGCCT
1 CTTGCCT
11067837 TCCTGCACCG
Statistics
Matches: 64, Mismatches: 25, Indels: 12
0.63 0.25 0.12
Matches are distributed among these distances:
43 16 0.25
44 31 0.48
45 17 0.27
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.19
Consensus pattern (44 bp):
CTTGCCTCCCTAGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
Found at i:11067756 original size:88 final size:88
Alignment explanation
Indices: 11067645--11067951 Score: 515
Period size: 88 Copynumber: 3.5 Consensus size: 88
11067635 TAGATCGAAG
* * * *
11067645 ATAGCAGATATTGCCTTCATGCACCGATAGCGAAGCAGATCGAAGACAACAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
*
11067710 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCAGAGCAGGCTAAAA
*
11067733 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAAATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
11067798 GGTTGCAGCAGAGCAGGCTAAAA
66 GGTTGCAGCAGAGCAGGCTAAAA
*
11067821 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
* **
11067886 GGTTGTAGCAGAGCAGTTTAAAA
66 GGTTGCAGCAGAGCAGGCTAAAA
*
11067909 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
11067952 TGACCCCAAT
Statistics
Matches: 206, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 206 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.19
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
GGTTGCAGCAGAGCAGGCTAAAA
Found at i:11067777 original size:265 final size:264
Alignment explanation
Indices: 11067153--11067778 Score: 647
Period size: 265 Copynumber: 2.4 Consensus size: 264
11067143 TGGAAAGTGG
* * * * * * * * * *
11067153 ATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAGATATTGT
1 ATCGAAAATACAGACCTTGTCCTCCCATA-CGGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGC
* ** * * * * *
11067218 CTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTGTTCCTATATTGGTAGGAAGT
65 CTTCATGCACCGACGCGAAGCAAATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGT
* * *
11067283 GGATCGAAGATGCAGATCTTGTCTTTCCATATTGGTGGCGGAGTAGATCGAAGAAAGCAAATCTT
130 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTT
* * * ** *
11067348 GTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGCGA
195 GTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGATCATGCCTTCATACACCGATAGCGA
*
11067413 AGTGA
260 AGAGA
* * * * * * *
11067418 ATCGAAAATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCATATATTGT
1 ATCGAAAATACAGACCTTGTCCTCCCATAC-GGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGC
* ** * * * * *
11067483 CTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCATGTCCTGTCTTCCTATATTGGTAGGAAGT
65 CTTCATGCACCGACGCGAAGCAAATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGT
*
11067548 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTT
130 GGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTT
* *
11067613 GTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGAT-ATTGCCTTCATGCACCGATAGCG
195 GTCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGATCA-TGCCTTCATACACCGATAGCG
11067677 AAGCAG-
259 AAG-AGA
* *
11067683 ATCGAAGACA-ACAG-CCTTG-CCTCCC-TA-GGTTGCAGCGGAGCAG-GCTAAAAATAGCAGAT
1 ATCGAA-A-ATACAGACCTTGTCCTCCCATACGG-TG--GCGAAGCAGAGCGAAAAA-AGCAGAT
* *
11067742 CTTGCCTTCCTGCACCGACAGCGAAGCAAATCGAAGA
60 ATTGCCTTCATGCACCGAC-GCGAAGCAAATCGAAGA
11067779 CACCAGCCTT
Statistics
Matches: 313, Mismatches: 38, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
261 2 0.01
262 2 0.01
263 7 0.02
264 31 0.10
265 264 0.84
266 6 0.02
267 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (264 bp):
ATCGAAAATACAGACCTTGTCCTCCCATACGGTGGCGAAGCAGAGCGAAAAAAGCAGATATTGCC
TTCATGCACCGACGCGAAGCAAATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTG
GATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCAAAGAAAGCAAATCTTG
TCTTCATGTATTGGCGTAAAGTAGATCGAAGATAGCAGATCATGCCTTCATACACCGATAGCGAA
GAGA
Found at i:11068022 original size:44 final size:44
Alignment explanation
Indices: 11067959--11068171 Score: 268
Period size: 44 Copynumber: 4.8 Consensus size: 44
11067949 CGATGACCCC
* * *
11067959 AATCCTATCTCCCTAGTCAGCAATGGAATAGGTTAAAGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * *
11068003 AATCCTATCTCCATGGTCAGTAGTGGAATAGGTTGAAGATTGAG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * * *
11068047 AATTCTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTGT-
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
11068090 AGGTCCTATCTCCCTGGTCAGCAGTAGAATAGGTTGAAGATTGTG
1 A-ATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
11068135 AGTCCTATCTCCCTGAG-CAGCAGTGGAGTAGGTTGAA
1 AATCCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
11068172 AATAGCAGAT
Statistics
Matches: 145, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
43 1 0.01
44 142 0.98
45 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:11068975 original size:12 final size:12
Alignment explanation
Indices: 11068958--11068983 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11068948 AGGATATGCA
11068958 ATCTTAGATATG
1 ATCTTAGATATG
11068970 ATCTTAGATATG
1 ATCTTAGATATG
11068982 AT
1 AT
11068984 ATATGCAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:11069006 original size:19 final size:20
Alignment explanation
Indices: 11068973--11069017 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
11068963 AGATATGATC
11068973 TTAGATATGATATATGCAATA
1 TTAGATATGA-ATATGCAATA
*
11068994 TTAGATATG-ATATGCAATC
1 TTAGATATGAATATGCAATA
11069013 TTAGA
1 TTAGA
11069018 AGATATGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.61
21 9 0.39
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (20 bp):
TTAGATATGAATATGCAATA
Found at i:11069024 original size:22 final size:23
Alignment explanation
Indices: 11068975--11069046 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
11068965 ATATGATCTT
*
11068975 AGATATGATATATGCAATATT---
1 AGATATGAT-TATGCAATCTTAGA
11068996 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
11069018 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
11069041 AGATAT
1 AGATAT
11069047 TAAGTTATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
19 10 0.23
21 8 0.18
22 8 0.18
23 18 0.41
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:11069059 original size:3 final size:3
Alignment explanation
Indices: 11069051--11069089 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
11069041 AGATATTAAG
* *
11069051 TTA TTA TTA TTG TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11069090 CTATATATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11069446 original size:30 final size:31
Alignment explanation
Indices: 11069412--11069469 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11069402 TATTTGTTTA
*
11069412 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATATAATCTTTTTTATAATC
*
11069442 TATATATATGTATATAATTTTTTTTATA
1 TATATATATGTATATAATCTTTTTTATA
11069470 TATGTACATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (31 bp):
TATATATATGTATATAATCTTTTTTATAATC
Found at i:11069462 original size:28 final size:27
Alignment explanation
Indices: 11069410--11069489 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 27
11069400 ATTATTTGTT
*
11069410 TATATATATATGTAATTATCTTTTTTATAA
1 TATATATATATGT-A-TAT-ATTTTTATAA
* * *
11069440 TCTATATATATGTATATAATTTTTTTTA
1 TATATATATATGTATAT-ATTTTTATAA
* *
11069468 TATATGTACATGTATATATTTT
1 TATATATATATGTATATATTTT
11069490 GTACCCTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 5 0.12
28 24 0.57
29 1 0.02
30 12 0.29
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (27 bp):
TATATATATATGTATATATTTTTATAA
Found at i:11069635 original size:4 final size:4
Alignment explanation
Indices: 11069615--11069655 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
11069605 GCTTTGCATG
*
11069615 TTAT TGAT TTA- TT-T TTAT TTAT TTAT TTAT TTAT ATTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TT
11069656 CTATGCCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 4 0.12
4 24 0.75
5 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (4 bp):
TTAT
Found at i:11069636 original size:18 final size:18
Alignment explanation
Indices: 11069615--11069651 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11069605 GCTTTGCATG
*
11069615 TTATTGATTTATTTTTAT
1 TTATTGATTTATTTATAT
*
11069633 TTATTTATTTATTTATAT
1 TTATTGATTTATTTATAT
11069651 T
1 T
11069652 ATTTCTATGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTATTGATTTATTTATAT
Found at i:11072548 original size:17 final size:17
Alignment explanation
Indices: 11072510--11072548 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
11072500 GGCCATTTTG
*
11072510 GGACTGTTTAAATTTTT
1 GGACTGTTTAAATTTCT
*
11072527 AGACTGTTTAAATTTCT
1 GGACTGTTTAAATTTCT
11072544 GGACT
1 GGACT
11072549 TTACATTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (17 bp):
GGACTGTTTAAATTTCT
Found at i:11074948 original size:31 final size:30
Alignment explanation
Indices: 11074900--11074963 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
11074890 AAAAAATTTA
* * *
11074900 TGAACATTTTTATTTTTTAATTTATTTTTT
1 TGAACATTTTTAATTTTTAAATTATTTGTT
*
11074930 TGAATATTTTGTAATTTTTAAATTATTTGTT
1 TGAACATTTT-TAATTTTTAAATTATTTGTT
11074961 TGA
1 TGA
11074964 CTCAGTTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 9 0.31
31 20 0.69
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.64
Consensus pattern (30 bp):
TGAACATTTTTAATTTTTAAATTATTTGTT
Found at i:11076045 original size:28 final size:28
Alignment explanation
Indices: 11075977--11076046 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
11075967 CCGAATATAA
*
11075977 TAAATATATATTTTTATTTTTTTTAATTT
1 TAAA-ATAAATTTTTATTTTTTTTAATTT
* *
11076006 TAAAAT-ACTTTTT-TTATTTTTTATTTT
1 TAAAATAAATTTTTATT-TTTTTTAATTT
11076033 TAAAATAAATTTTT
1 TAAAATAAATTTTT
11076047 GGTGTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.06
27 21 0.60
28 8 0.23
29 4 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (28 bp):
TAAAATAAATTTTTATTTTTTTTAATTT
Found at i:11079048 original size:20 final size:21
Alignment explanation
Indices: 11079023--11079062 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11079013 ATTTTTATAC
*
11079023 CATAAAT-AATTAAAAATAAT
1 CATAAATAAAATAAAAATAAT
11079043 CATAAATAAAATAAAAATAA
1 CATAAATAAAATAAAAATAA
11079063 AAATTGACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
CATAAATAAAATAAAAATAAT
Found at i:11080367 original size:11 final size:12
Alignment explanation
Indices: 11080320--11080369 Score: 57
Period size: 12 Copynumber: 4.1 Consensus size: 12
11080310 CGTTGAATGC
11080320 ATAATTTAAATA
1 ATAATTTAAATA
* *
11080332 ATAATTTTTAGAGA
1 ATAA--TTTAAATA
11080346 ATAATTTAAATA
1 ATAATTTAAATA
11080358 ATAA-TTAAATA
1 ATAATTTAAATA
11080369 A
1 A
11080370 GATTAGCATA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 8 0.25
12 14 0.44
14 10 0.31
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (12 bp):
ATAATTTAAATA
Found at i:11080517 original size:14 final size:14
Alignment explanation
Indices: 11080498--11080543 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
11080488 GTTAGTATTA
11080498 TTAAATTTATTTTG
1 TTAAATTTATTTTG
*
11080512 TTAAATTTATTTTTA
1 TTAAATTTA-TTTTG
11080527 TTATAATATTATTTTG
1 TTA-AAT-TTATTTTG
11080543 T
1 T
11080544 ATTTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 9 0.33
15 7 0.26
16 8 0.30
17 3 0.11
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (14 bp):
TTAAATTTATTTTG
Found at i:11081212 original size:44 final size:44
Alignment explanation
Indices: 11081143--11082658 Score: 795
Period size: 44 Copynumber: 33.8 Consensus size: 44
11081133 GACTCTTTTT
* *
11081143 AATCCGCTCCACTGCAACTTCAGGGAGATAAAAGTTATAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * * *
11081187 AATCCGTTCCATTGTAACTTTAGGGAGATAAGAGTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * *
11081231 AATCGGCTCCACTACAACTTCAGGGAGATAATAGTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * *
11081275 AATCCGCTCTACTGTAACTTTAGGGAGATAAGAGTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
11081319 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
** * * *
11081363 AATCAACTCCACTGTAACTTTAGGGAGATAATAGTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
** * *
11081407 AATATGCTCCACTGCAACTTCAGGGAGAAAAGA-TTCACTATA-TTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTA-ACTTC
** * * * * * **
11081452 AATCTACTCTACTGTAACTTTAGGGAAATAAGATTTGTAGTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * * * * * *
11081496 AATCTGCTCTACTACAAATTCAGAGAGATAAGA-TTCACTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
** * * *
11081541 AATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGTAATTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAA-CTTC
* * * * * *
11081586 AGTCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
* * * * *
11081631 ATTCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGTAATTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAA-CTTC
* * ** * * *
11081676 AGTCTGCTTTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
* * * * *** *
11081721 ATTCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGCGGCTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * * * *
11081765 AATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTGTAGCCTGTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTA-ACT-TC
* * * ** *
11081811 TTTAATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTT
1 ---AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTG--TAACTTC
* *
11081860 AA-CCTGCTCCACTGCAACTTC-GAGGAGACAAG-G-TGTATAGCTTT
1 AATCC-GCTCCACTGCAACTTCAG-GGAGATAAGAGTTGTA-A-CTTC
* ** * * * * *
11081904 AATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATC-TC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTG-TAACTTC
* ** * * * *
11081948 TGATCTACTGCACTGCAACTTCAAGAAGATAAGA-TCTATAACTTC
1 -AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGT-TGTAACTTC
** * *
11081993 AATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * *
11082037 AATCTGCTCCGCTGCAACTTCA-GGAGGATAAGATTTGCCATAATGACTTC
1 AATCCGCTCCACTGCAACTTCAGGGA-GATAAGAGTTG---T-A--ACTTC
* * * *
11082087 AATCC-ATCCCACTGCAACTTCAGGGAGAAAAGA-TTCACTATCTTC
1 AATCCGCT-CCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
*** * * * **
11082132 AATTTACACCACTGCAACTTCAAGGAGATAAGATTTGTAGTTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * * * * * * * *
11082176 AATCTGCTCTACTGCAATTTTAGAGTGATAAGA-TTCACTATCTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
** * * * * *
11082221 AATCTACTCCACTGCAACTTTAGGGAGATAATATTTGTAATTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* * * * ** *
11082265 AAGTCAGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATTTTT
1 AA-TCCGCTCCACTGCAACTTCAGGGAGATAAGAGTT--GTAACTTC
* ** * * *** *
11082311 ATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCGGCTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
** * *
11082355 AATTTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTA----A-CTTC
* * * ** *
11082404 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTT
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTG--TAACTTC
* * *
11082450 AATCTGCTCCACTGCAACTTC-GAGGAGATAAG-GTGTATAACTTT
1 AATCCGCTCCACTGCAACTTCAG-GGAGATAAGAGT-TGTAACTTC
* * * * * *
11082494 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTG-TAACTTC
* ** * * * *
11082539 GATCTACTCCACTGCAACTTCAAGAAGATAA-AATCTATAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGT-TGTAACTTC
* * * *
11082583 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTC
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
* ** * *
11082627 AATCTGCTCTGCTGTAACTTTAGGG-GATAAGA
1 AATCCGCTCCACTGCAACTTCAGGGAGATAAGA
11082659 TTCGCCATAA
Statistics
Matches: 1158, Mismatches: 244, Indels: 141
0.75 0.16 0.09
Matches are distributed among these distances:
42 2 0.00
43 16 0.01
44 557 0.48
45 380 0.33
46 86 0.07
47 4 0.00
48 2 0.00
49 75 0.06
50 29 0.03
51 7 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC
Found at i:11081297 original size:88 final size:88
Alignment explanation
Indices: 11081143--11082658 Score: 718
Period size: 89 Copynumber: 16.9 Consensus size: 88
11081133 GACTCTTTTT
* * * ** *
11081143 AATCCGCTCCACTGCAACTTCAGGGAGATAAAAGTTATAACTTCAATCCGTTCCATTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
11081208 AGGGAGATAAGAGTTGTAACTTC
66 AGGGAGATAAGAGTTGTAACTTC
* * * * * *
11081231 AATCGGCTCCACTACAACTTCAGGGAGATAATAGTTGTAACTTCAATCCGCTCTACTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
11081296 AGGGAGATAAGAGTTGTAACTTC
66 AGGGAGATAAGAGTTGTAACTTC
* * *
11081319 AATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTCAATCAACTCCACTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
*
11081384 AGGGAGATAATAGTTGTAACTTC
66 AGGGAGATAAGAGTTGTAACTTC
* * * *
11081407 AATATGCTCCACTGCAACTTCAGGGAGAAAAGA-TTCACTATA-TTCAATCTACTCTACTGTAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT--CTA-ACTTCAATCCACTCCACTGTAAC
* * **
11081470 TTTAGGGAAATAAGATTTGTAGTTTC
63 TTTAGGGAGATAAGAGTTGTAACTTC
* * * * * * *
11081496 AATCTGCTCTACTACAAATTCAGAGAGATAAGA-TTCACTATCTTCAATCTACTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT--CTAACTTCAATCCACTCCACTGTAACT
* * * *
11081560 TCAGAGAGATAAGATTTGTAATTTTC
64 TTAGGGAGATAAGAGTTGTAA-CTTC
* * * * * ** *
11081586 AGTCTGCTCTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTCATTCTGCTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT--CTAACTTCAATCCACTCCACTGTAACT
* * * *
11081650 TCAGAGAGATAAGATTTGTAATTTTC
64 TTAGGGAGATAAGAGTTGTAA-CTTC
* ** * * * ** *
11081676 AGTCTGCTTTACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTCATTCTGCTCCACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT--CTAACTTCAATCCACTCCACTGTAACT
* * * *** *
11081740 TCAGTGAGATAAGATTTGCGGCTTT
64 TTAGGGAGATAAGAGTTGTAACTTC
* * * * * ** *
11081765 AATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTGTAGCCTGTCTTTAATCTGCTCCACTGCA
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTA-ACT-TC---AATCCACTCCACTGTA
* ** *
11081830 A-TTTCAGGGAGATAAGATTTGTTTATTTTT
61 ACTTT-AGGGAGATAAGAGTTG--TAACTTC
* * * * * ** ** *
11081860 AACCTGCTCCACTGCAACTTC-GAGGAGACAAG-GTGTATAGCTTTAATCTGCTTTACTGCAACT
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGAGT-TCTAACTTCAATCCACTCCACTGTAACT
* * * *
11081923 TTAGAGAGATAAAATTTGCTATC-TC
64 TTAGGGAGATAAGAGTTG-TAACTTC
* * * * * * *** * *
11081948 TGATCTACTGCACTGCAACTTCAAGAAGATAAGA-TCTATAACTTCAATTTGCTCCATTGCAACT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGT-TCTAACTTCAATCCACTCCACTGTAACT
* *
11082012 TCAGGGAGATAAGACTTGTAACTTC
64 TTAGGGAGATAAGAGTTGTAACTTC
* *
11082037 AATCTGCTCCGCTGCAACTTCA-GGAGGATAAGATTTGCCATAATGACTTCAATCCA-TCCCACT
1 AATCTGCTCCACTGCAACTTCAGGGA-GATAAGAGTT--C-T-A--ACTTCAATCCACT-CCACT
* * * * *
11082100 GCAACTTCAGGGAGAAAAGA-TTCACTATCTTC
58 GTAACTTTAGGGAGATAAGAGTT--GTAACTTC
* * * * * * ** ** * * *
11082132 AATTTACACCACTGCAACTTCAAGGAGATAAGATTTGTAGTTTCAATCTGCTCTACTGCAATTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
* * * * *
11082197 AGAGTGATAAGA-TTCACTATCTTT
66 AGGGAGATAAGAGTT--GTAACTTC
* * * * * * * * *
11082221 AATCTACTCCACTGCAACTTTAGGGAGATAATATTTGTAATTTTAAGT-CAGCTCTACTGCAACT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAA-TCCA-CTCCACTGTAACT
* * * ** *
11082285 TCAGAGAGATAAGA-TTCACTATTTTT
64 TTAGGGAGATAAGAGTT--GTAACTTC
* * * * ** * *** *
11082311 ATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC-GGCTTTAATTTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT-CTAACTTCAATCCACTCCACTGTAACTT
* * *
11082375 CAAGGAGATAAGATTTGTAGCCTATCTTC
65 TAGGGAGATAAGAGTTGTA----A-CTTC
* ** * ** *
11082404 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTT-TATTTTTAATCTGCTCCACTGCAAC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA---GTTCTAACTTCAATCCACTCCACTGTAAC
* * *
11082468 -TTCGAGGAGATAAG-GTGTATAACTTT
63 TTTAG-GGAGATAAGAGT-TGTAACTTC
* * * * * * * *
11082494 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCCGATCTACTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTT-CTAACTTCAATCCACTCCACTGTAACTT
* * * * *
11082559 CAAGAAGATAA-AATCTATAACTTC
65 TAGGGAGATAAGAGT-TGTAACTTC
* * ** ** **
11082583 AATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAACTTCAATCTGCTCTGCTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
11082648 AGGG-GATAAGA
66 AGGGAGATAAGA
11082659 TTCGCCATAA
Statistics
Matches: 1170, Mismatches: 203, Indels: 110
0.79 0.14 0.07
Matches are distributed among these distances:
87 11 0.01
88 248 0.21
89 382 0.33
90 313 0.27
91 6 0.01
92 4 0.00
93 66 0.06
94 36 0.03
95 99 0.08
96 5 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGAGTTCTAACTTCAATCCACTCCACTGTAACTTT
AGGGAGATAAGAGTTGTAACTTC
Found at i:11081915 original size:228 final size:225
Alignment explanation
Indices: 11081313--11082613 Score: 634
Period size: 228 Copynumber: 5.8 Consensus size: 225
11081303 TAAGAGTTGT
* * * **
11081313 AACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGAGTTGTAACTTC--AATCAACTCCACT
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT-ACTTCTTAATCTGCTCCACT
* * * * * ** * *
11081376 GTAACTTTAGGGAGATAATAGTTG--TAACTTCAATATGCTCCACTGCAACTTCAGGGAGAAAAG
65 GCAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGACAAG
* * * * * * * **
11081439 AT-TCACT-A-TATTCAATCTACTCTACTGTAACTTTAGGGAAATAAGATT-TGTAGT-T-TCAA
130 ATGT-A-TAACT-TTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTA-TCTCTC-A
* * * *
11081498 TCTGCTCTACTACAAATTC-AGAGAGATAAGAT-TCAC
190 TCTACTCCACTGCAACTTCAAGA-AGATAAGATCT-AC
* * * * *
11081534 TATCTTCAATCTACTCCACTGCAACTTC-AGAGAGATAAGATTTGTAATT-TTCAGTCTGCTCTA
1 -AACTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTTGTACTTCTT-AATCTGCTCCA
* * ** *
11081597 CTGCAACTTCAGAGAGATAAGA-TTCACTATCTTCATTCTGCTCCACTGCAACTTCAGAGAGATA
63 CTGCAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGACA
* * * * *
11081661 AGATTTGTAATTTTCAGTCTGCTTTACTGCAACTTCAGAGAGATAAGATTCACTATCT-TCATTC
128 AGATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTCTCA-TC
* * * *
11081725 TGCTCCACTGCAACTTC-AGTGAGATAAGATTTGC
192 TACTCCACTGCAACTTCAAG-AAGATAAGATCTAC
** * *
11081759 GGCTTTAATCTGCTCTACTGCAACTTCAAGGAGATAAGATTTGTAGCCTGTCTTTAATCTGCTCC
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTA--CT-TC-TTAATCTGCTCC
* ** * *
11081824 ACTGCAATTTCAGGGAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTC-GAGGAGA
62 ACTGCAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGA-GAGA
* * * ** *
11081888 CAAGGTGTATAGCTTT-AATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATCTCTGAT
126 CAAGATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTCTCAT
* *
11081952 CTACTGCACTGCAACTTCAAGAAGATAAGATCTAT
191 CTACTCCACTGCAACTTCAAGAAGATAAGATCTAC
* * * * *
11081987 AACTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTC--AATCTGCTCCGCT
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT-ACTTCTTAATCTGCTCCACT
* *
11082050 GCAACTTCA-GGAGGATAAGATTTGCCATAATGACTTCAATCCAT-C-CCACTGCAACTTCAGGG
65 GCAACTTCAGGGA-GATAAGATTTGAC-T-AT--CTTCAA-CC-TGCTCCACTGCAACTTCAGAG
* * * * *** * **
11082112 AGAAAAGAT-TCACTATC-TTCAATTTACACCACTGCAACTTCA-AGGAGATAAGATT-TGTAGT
123 AGACAAGATGT-A-TAACTTTCAATCTGCTTTACTGCAACTTCAGA-GAGATAAAATTCACTA-T
* * ** *
11082173 -T-TCAATCTGCTCTACTGCAA-TTTTAGAGTGATAAGAT-TCAC
184 CTCTC-ATCTACTCCACTGCAACTTCAAGA-AGATAAGATCT-AC
* * * * * * * * *
11082214 TATCTTTAATCTACTCCACTGCAACTTTAGGGAGATAATATTTGTAATT-TTAAGTCAGCTCTAC
1 -AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTACTTCTTAA-TCTGCTCCAC
* * * * *** * * *
11082278 TGCAACTTCAGAGAGATAAGA-TTCACTATTTTTATTTTGCTCCACTGCAACTTTAGGGAGATAA
64 TGCAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGACAA
* **** * ** * *
11082342 GATTTGCGGCTTT-AATTTGCTCCACTGCAACTTCA-AGGAGATAAGATTTGTAGCCTATCT-TC
129 GATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGA-GAGATAA-AATT-CA--CTATCTCTC
* * * * * **
11082404 AATCTGCTCCACTGCAATTTCAGGGAGATAAGATTTGTTT
189 -ATCTACTCCACTGCAACTTCAAGAAGATAAGA--TCTAC
** * * * * * *
11082444 ATTTTTAATCTGCTCCACTGCAACTTCGAGGAGATAAGGTGTATAAC-T-TTAATCTGCTCTACT
1 AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGT-ACTTCTTAATCTGCTCCACT
* * * * * *
11082507 GCAACTTCAGAGAGATAAGATTTG-CTATCTCCGATCTACTCCACTGCAACTTCA-AGAAGATAA
65 GCAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGAG-AGACAA
* * ** * *
11082570 AATCTATAAC-TTCAATCTGCTCCACTACAACTTCAGGGAGATAA
129 GATGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAA
11082614 GACTTGAAAC
Statistics
Matches: 839, Mismatches: 175, Indels: 124
0.74 0.15 0.11
Matches are distributed among these distances:
221 4 0.00
222 43 0.05
223 88 0.10
224 139 0.17
225 40 0.05
226 14 0.02
227 65 0.08
228 324 0.39
229 117 0.14
230 4 0.00
231 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.32
Consensus pattern (225 bp):
AACTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTACTTCTTAATCTGCTCCACTG
CAACTTCAGGGAGATAAGATTTGACTATCTTCAACCTGCTCCACTGCAACTTCAGAGAGACAAGA
TGTATAACTTTCAATCTGCTTTACTGCAACTTCAGAGAGATAAAATTCACTATCTCTCATCTACT
CCACTGCAACTTCAAGAAGATAAGATCTAC
Found at i:11082163 original size:139 final size:138
Alignment explanation
Indices: 11081958--11082210 Score: 330
Period size: 139 Copynumber: 1.8 Consensus size: 138
11081948 TGATCTACTG
* * * * *
11081958 CACTGCAACTTCAAGAAGATAAGATCTATAACTTCAATTTGCTCCATTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAAGAAGAAAAGATCTATAACTTCAATTTACACCACTGCAACTTCAAGGAGATA
*
11082023 AGACTTGTAACTTCAATCTGCTCCGCTGCAACTTCAGGAG-GATAAGATTTGCCATAATGACTTC
66 AGACTTGTAACTTCAATCTGCTCCACTGCAACTTCA-GAGTGATAAGATTTGCCATAATGACTTC
11082087 AATCCATCC
130 AATCCATCC
* * *
11082096 CACTGCAACTTCAGGGAGAAAAGAT-TCACTATCTTCAATTTACACCACTGCAACTTCAAGGAGA
1 CACTGCAACTTCAAGAAGAAAAGATCT-A-TAACTTCAATTTACACCACTGCAACTTCAAGGAGA
* ** * * *
11082160 TAAGATTTGTAGTTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATT
64 TAAGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGAGTGATAAGATT
11082211 CACTATCTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
137 1 0.01
138 26 0.27
139 70 0.72
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (138 bp):
CACTGCAACTTCAAGAAGAAAAGATCTATAACTTCAATTTACACCACTGCAACTTCAAGGAGATA
AGACTTGTAACTTCAATCTGCTCCACTGCAACTTCAGAGTGATAAGATTTGCCATAATGACTTCA
ATCCATCC
Found at i:11082259 original size:590 final size:590
Alignment explanation
Indices: 11081514--11082671 Score: 1888
Period size: 590 Copynumber: 2.0 Consensus size: 590
11081504 CTACTACAAA
* *
11081514 TTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTTGT
1 TTCAGAGAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGAGAGATAAGATTTGT
* * * *
11081579 AATTTTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCATTCTGCTCCACT
66 AAGTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACT
* * *
11081644 GCAACTTCAGAGAGATAAGATTTGTAATTTTCAGTCTGCTTTACTGCAACTTCAGAGAGATAAGA
131 GCAACTTCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAGA
*
11081709 TTCACTATCTTCATTCTGCTCCACTGCAACTTCAGTGAGATAAGATTTGCGGCTTTAATCTGCTC
196 TTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCTC
* * *
11081774 TACTGCAACTTCAAGGAGATAAGATTTGTAGCCTGTCTTTAATCTGCTCCACTGCAATTTCAGGG
261 CACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGG
*
11081839 AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAGCTTT
326 AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTTT
* * * *
11081904 AATCTGCTTTACTGCAACTTTAGAGAGATAAAATTTGCTATCTCTGATCTACTGCACTGCAACTT
391 AATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGATCTACTCCACTGCAACTT
* * * * *
11081969 CAAGAAGATAAGATCTATAACTTCAATTTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAAC
456 CAAGAAGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAAC
*
11082034 TTCAATCTGCTCCGCTGCAACTTCAGGAGGATAAGATTTGCCATAATGACTTCAATCCATCCCAC
521 TTCAATCTGCTCCGCTGCAACTTCAGG-GGATAAGATTCGCCATAATGACTTCAATCCATCCCAC
11082099 TGCAAC
585 TGCAAC
* *
11082105 TTCAGGGAGAAAAGATTCACTATCTTCAATTTACACCACTGCAACTTCA-AGGAGATAAGATTTG
1 TTCAGAGAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGA-GAGATAAGATTTG
* * * *
11082169 T-AGTTTCAATCTGCTCTACTGCAATTTTAGAGTGATAAGATTCACTATCTTTAATCTACTCCAC
65 TAAGTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCAC
* * *
11082233 TGCAACTTTAGGGAGATAATATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAG
130 TGCAACTTCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAG
* * * * *
11082298 ATTCACTATTTTTATTTTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCGGCTTTAATTTGCT
195 ATTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCT
11082363 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGG
260 CCACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGG
* *
11082428 GAGATAAGATTTGTTTATTTTTAATCTGCTCCACTGCAACTTCGAGGAGATAAGGTGTATAACTT
325 GAGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTT
*
11082493 TAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGCTATCTCCGATCTACTCCACTGCAACT
390 TAATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGATCTACTCCACTGCAACT
11082558 TCAAGAAGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAA
455 TCAAGAAGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAA
* * *
11082623 CTTCAATCTGCTCTGCTGTAACTTTAGGGGATAAGATTCGCCATAATGA
520 CTTCAATCTGCTCCGCTGCAACTTCAGGGGATAAGATTCGCCATAATGA
11082672 ATTAGGTAAT
Statistics
Matches: 522, Mismatches: 44, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
589 20 0.04
590 443 0.85
591 59 0.11
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.33
Consensus pattern (590 bp):
TTCAGAGAGAAAAGATTCACTATCTTCAATCTACACCACTGCAACTTCAGAGAGATAAGATTTGT
AAGTTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTACTCCACT
GCAACTTCAGAGAGATAAGATTTGTAATTTTAAGTCAGCTCTACTGCAACTTCAGAGAGATAAGA
TTCACTATCTTCATTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCGGCTTTAATCTGCTC
CACTGCAACTTCAAGGAGATAAGATTTGTAGCCTATCTTCAATCTGCTCCACTGCAATTTCAGGG
AGATAAGATTTGTTTATTTTTAACCTGCTCCACTGCAACTTCGAGGAGACAAGGTGTATAACTTT
AATCTGCTCTACTGCAACTTCAGAGAGATAAAATTTGCTATCTCCGATCTACTCCACTGCAACTT
CAAGAAGATAAAATCTATAACTTCAATCTGCTCCACTACAACTTCAGGGAGATAAGACTTGAAAC
TTCAATCTGCTCCGCTGCAACTTCAGGGGATAAGATTCGCCATAATGACTTCAATCCATCCCACT
GCAAC
Found at i:11084998 original size:192 final size:192
Alignment explanation
Indices: 11084671--11085035 Score: 649
Period size: 192 Copynumber: 1.9 Consensus size: 192
11084661 TCACATATAA
* *
11084671 GTGAGCACTCACAATCCTATGGCATTCCAACTATATCCAATGGTTCCAAAAATTCACAATGCCAA
1 GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
* *
11084736 CATAACGCAGTAATACACATGTACAGGTCACGTCATTTTAGGCTCACAATTTTTAATAGAGCTCA
66 CATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
* *
11084801 CAGTACCACAACACGTCATAGAATAGCTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
131 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
*
11084863 GTGAGCACTCATAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
1 GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
* *
11084928 CATATCGCAATAATACACATTTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
66 CATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
11084993 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
131 CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGC
11085036 TCGCATAAAC
Statistics
Matches: 164, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
192 164 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.25
Consensus pattern (192 bp):
GTGAGCACTCACAATCCTATGGCATGCCAACTATATCCAATAGTTCCAAAAATTCACAATGCCAA
CATAACGCAATAATACACATGTACAGGTCACGTCATTTTAGGCTCACAAATTTTAATAGAGCTCA
CAGTACCACAACACGTCATAGAACAACTTGCAAAGCATTAAGCGCCCTATCACATTACATAG
Found at i:11091804 original size:15 final size:16
Alignment explanation
Indices: 11091778--11091820 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
11091768 ACAAAAATAT
*
11091778 TTATAAAAAATAAAAA
1 TTATAAATAATAAAAA
11091794 TT-TAAATAATAAAAA
1 TTATAAATAATAAAAA
11091809 TTAATAAATAAT
1 TT-ATAAATAAT
11091821 TCATAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 14 0.58
16 2 0.08
17 8 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTATAAATAATAAAAA
Found at i:11093967 original size:18 final size:18
Alignment explanation
Indices: 11093944--11093982 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11093934 ACCTCTTCCA
11093944 TAAAACCCCTTAAGGG-TT
1 TAAAACCCCTT-AGGGATT
11093962 TAAAACCCCTTAGGGATT
1 TAAAACCCCTTAGGGATT
11093980 TAA
1 TAA
11093983 CTTCAACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (18 bp):
TAAAACCCCTTAGGGATT
Found at i:11100415 original size:20 final size:20
Alignment explanation
Indices: 11100390--11100440 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
11100380 TATGAACCAC
*
11100390 TCCATTTACTTACTTATCAT
1 TCCATTTACTTAATTATCAT
* *
11100410 TCCATTTATTTAATTTTCAT
1 TCCATTTACTTAATTATCAT
*
11100430 TTCA-TTACTTA
1 TCCATTTACTTA
11100441 GCATAAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 6 0.23
20 20 0.77
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (20 bp):
TCCATTTACTTAATTATCAT
Found at i:11103729 original size:15 final size:15
Alignment explanation
Indices: 11103709--11103739 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11103699 TTACATCATT
11103709 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
11103724 TCTTCTATGAGAAAC
1 TCTTCTATGAGAAAC
11103739 T
1 T
11103740 AGACTCAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TCTTCTATGAGAAAC
Found at i:11104282 original size:27 final size:28
Alignment explanation
Indices: 11104221--11104280 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
11104211 GGTAGAGTGG
* *
11104221 GAAAAGAAAAATCCAGAAGGCGAAGGGT
1 GAAAAGAAAAATCAAGAAGACGAAGGGT
*
11104249 GAAAAGAAAAATCAAGAAGATGAAGGGT
1 GAAAAGAAAAATCAAGAAGACGAAGGGT
11104277 GAAA
1 GAAA
11104281 GAGAGCAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.30, T:0.08
Consensus pattern (28 bp):
GAAAAGAAAAATCAAGAAGACGAAGGGT
Found at i:11107329 original size:24 final size:24
Alignment explanation
Indices: 11107302--11107351 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
11107292 TAGCAGTTAT
11107302 TATTAGAGAAACTGTTAGATCAGC
1 TATTAGAGAAACTGTTAGATCAGC
*
11107326 TATTGGAGAAACTGTTAGATCAGC
1 TATTAGAGAAACTGTTAGATCAGC
11107350 TA
1 TA
11107352 AGGCTCTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (24 bp):
TATTAGAGAAACTGTTAGATCAGC
Found at i:11109281 original size:22 final size:22
Alignment explanation
Indices: 11109256--11109297 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11109246 TAAGAGATCT
*
11109256 CACAACGCATGGATGAGGTTTG
1 CACAACGCATGGAAGAGGTTTG
*
11109278 CACAATGCATGGAAGAGGTT
1 CACAACGCATGGAAGAGGTT
11109298 CGTACATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.31, T:0.21
Consensus pattern (22 bp):
CACAACGCATGGAAGAGGTTTG
Found at i:11110103 original size:3 final size:3
Alignment explanation
Indices: 11110095--11110126 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11110085 AGAAAGTGTA
11110095 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
11110127 AATGAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:11111070 original size:49 final size:49
Alignment explanation
Indices: 11110994--11111139 Score: 177
Period size: 49 Copynumber: 3.0 Consensus size: 49
11110984 CTTCGTTTTC
* *
11110994 TCGATGCCATAGTCCAACTATGGTCTTACACGTAATCACATAACACATA
1 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
* *
11111043 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATATCACTTA
1 TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
* * * * * *
11111092 CCGATGCCATAG-CCTAGCAATGGTCTTATACGAAAATCACATATCACA
1 TCGATGCCATAGTCC-AACTATGATCTTACACG-AAATCACATAACACA
11111140 AGTTGTCATG
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
48 2 0.02
49 69 0.81
50 14 0.16
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.26
Consensus pattern (49 bp):
TCGATGCCATAGTCCAACTATGATCTTACACGAAATCACATAACACATA
Found at i:11112701 original size:23 final size:23
Alignment explanation
Indices: 11112667--11112833 Score: 199
Period size: 23 Copynumber: 7.3 Consensus size: 23
11112657 TAAGTGCCAT
*
11112667 ACTGATATGTAGTCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
* *
11112690 ACTGATACGTAGCCGTAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
* *
11112713 ACTGAAATGTAGCTGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
** *
11112736 ACTGATATGTATTCGTAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
** * * *
11112759 ACAAAAATGCAGCCGAAGTTACC
1 ACTGATATGTAGCCGAAGCTACC
*
11112782 ACTGATATGTAGCCGTAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
*
11112805 ACTGAAATGTAGCCGAAGCTACC
1 ACTGATATGTAGCCGAAGCTACC
11112828 ACTGAT
1 ACTGAT
11112834 CAATAACACT
Statistics
Matches: 115, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 115 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
ACTGATATGTAGCCGAAGCTACC
Found at i:11112734 original size:46 final size:46
Alignment explanation
Indices: 11112667--11112833 Score: 244
Period size: 46 Copynumber: 3.6 Consensus size: 46
11112657 TAAGTGCCAT
* * *
11112667 ACTGATATGTAGTCGAAGCTACCACTGATACGTAGCCGTAGCTACC
1 ACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACC
* **
11112713 ACTGAAATGTAGCTGAAGCTACCACTGATATGTATTCGTAGCTACC
1 ACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACC
** * *
11112759 ACAAAAATGCAGCCGAAGTTACCACTGATATGTAGCCGTAGCTACC
1 ACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACC
11112805 ACTGAAATGTAGCCGAAGCTACCACTGAT
1 ACTGAAATGTAGCCGAAGCTACCACTGAT
11112834 CAATAACACT
Statistics
Matches: 104, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 104 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (46 bp):
ACTGAAATGTAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACC
Found at i:11113077 original size:18 final size:17
Alignment explanation
Indices: 11113051--11113089 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11113041 ATTTTCCTTC
11113051 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
11113068 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
11113086 CACA
1 CACA
11113090 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:11120684 original size:20 final size:20
Alignment explanation
Indices: 11120659--11120708 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11120649 TGGCTTAAAA
11120659 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11120679 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11120696 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11120709 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11125311 original size:20 final size:20
Alignment explanation
Indices: 11125286--11125335 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11125276 TGGCTTAAAA
11125286 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11125306 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11125323 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11125336 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11130770 original size:29 final size:31
Alignment explanation
Indices: 11130699--11130775 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
11130689 TTAACGGCTC
* *
11130699 AGTGACTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATACGATAACATA
* *
11130730 AGTGACTAAAATGTAACATTTC-A-AACATA
1 AGTGACTAAAATGTAACAATACGATAACATA
11130759 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
11130776 CTAAGGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 22 0.52
30 1 0.02
31 19 0.45
ACGTcount: A:0.47, C:0.13, G:0.14, T:0.26
Consensus pattern (31 bp):
AGTGACTAAAATGTAACAATACGATAACATA
Found at i:11141671 original size:3 final size:3
Alignment explanation
Indices: 11141663--11141704 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
11141653 ACAGAAGAGG
11141663 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11141705 ATATGTGTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11152169 original size:47 final size:46
Alignment explanation
Indices: 11152106--11152273 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
11152096 TATTTAATAT
*
11152106 TAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTAT-AA
**
11152153 TAATT-TTATGAAATTATAT--ATT-AT-T-ATTAAATTATATTTAATAA
1 TAATTATT-TGAAATTATATAAATTCATATAAGAAAATT-TA-TT-ATAA
* * *
11152197 TAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGTTA
1 TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTA-TAA
* *
11152244 TAATTATTTTAAATTTTATTAAA-TCATATA
1 TAATTATTTGAAATTATA-TAAATTCATATA
11152274 TTTTAATTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
42 6 0.06
43 3 0.03
44 20 0.20
45 7 0.07
46 6 0.06
47 45 0.45
48 6 0.06
49 6 0.06
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.48
Consensus pattern (46 bp):
TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTATAA
Found at i:11152248 original size:91 final size:91
Alignment explanation
Indices: 11152072--11152239 Score: 309
Period size: 91 Copynumber: 1.8 Consensus size: 91
11152062 TTAAATGTAT
* *
11152072 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
11152137 GAAAATTTATTATCAATAATTTTATG
66 GAAAATTTATTATCAATAATTTTATG
*
11152163 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
11152228 GAAAATTTATTA
66 GAAAATTTATTA
11152240 GTTATAATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
91 74 1.00
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
GAAAATTTATTATCAATAATTTTATG
Found at i:11152373 original size:37 final size:35
Alignment explanation
Indices: 11152332--11152501 Score: 100
Period size: 37 Copynumber: 4.7 Consensus size: 35
11152322 TAGTATCATA
*
11152332 TATTATGATTTTAGTAAATTCATATAAGAATATTGAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* * *
11152369 TATTAAGAATTTTATTAAATTATAT---ATTTTAAT
1 TATTATG-ATTTTAGTAAATTATATAAAATATTAAT
* * * *
11152402 TATGAT-ATATTTAATAATAATTATGTTAAATTATCT-A-
1 TATTATGAT-TTTAGT-A-AATTAT-ATAAAATAT-TAAT
*
11152439 TATTATGATTTGAGTAAATTCATATAAGAATATTAAT
1 TATTATGATTTTAGTAAATT-ATATAA-AATATTAAT
* *
11152476 TATTAAGAATTTTATTAAATTATATA
1 TATTATG-ATTTTAGTAAATTATATA
11152502 TTTTAATTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
31 2 0.02
32 5 0.05
33 11 0.11
34 6 0.06
35 9 0.09
36 8 0.08
37 30 0.30
38 28 0.28
39 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (35 bp):
TATTATGATTTTAGTAAATTATATAAAATATTAAT
Found at i:11152418 original size:222 final size:226
Alignment explanation
Indices: 11152124--11152530 Score: 544
Period size: 222 Copynumber: 1.8 Consensus size: 226
11152114 TTAAATTATA
* *
11152124 TAAATTCATATAAGAAAATTTATTATCAATAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
* * *
11152189 TTTAATAATAATTATTTTAAATTATAC-AAATTCAT-A-TAAGAAAATT-TATTAG-TTA-TAAT
66 TTTAATAATAATTATGTTAAATTAT-CTAAATT-ATGATTAAGAAAATTATATAAGAATATTAAT
* *
11152248 TATTTTA-AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTTATTTCAAA
129 TA-TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTTATTTCAAA
11152312 TTATATTTTATAGTATCATATATTATGATTTTAG
193 TTATATTTTATAGTATCATATATTATGATTTTAG
* * * *
11152346 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT-TTAATTATGA-TA
1 TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATT-ATTA-AATTA
* * *
11152409 TATTTAATAATAATTATGTTAAATTATCTATATTATGATTTGAGTAAATTCATATAAGAATATTA
64 TATTTAATAATAATTATGTTAAATTATCTAAATTATGA-TTAAGAAAATT-ATATAAGAATATTA
* *
11152474 ATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATT
127 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATT
11152531 ATGTTTAAAT
Statistics
Matches: 158, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
221 5 0.03
222 83 0.53
223 1 0.01
224 8 0.05
226 5 0.03
227 5 0.03
228 51 0.32
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (226 bp):
TAAATTCATATAAGAAAATTGATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
TTTAATAATAATTATGTTAAATTATCTAAATTATGATTAAGAAAATTATATAAGAATATTAATTA
TTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTTATTTCAAATTA
TATTTTATAGTATCATATATTATGATTTTAG
Found at i:11152449 original size:107 final size:109
Alignment explanation
Indices: 11152325--11152540 Score: 391
Period size: 107 Copynumber: 2.0 Consensus size: 109
11152315 TATTTTATAG
* *
11152325 TATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
*
11152390 ATATATTTTAATTATGATATATTTAATAATAATTATG-TTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
11152433 TATC-TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
11152497 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
66 ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
11152541 ATTATTAAAT
Statistics
Matches: 104, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
107 94 0.90
108 10 0.10
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (109 bp):
TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
ATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
Found at i:11152518 original size:16 final size:16
Alignment explanation
Indices: 11152497--11152538 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
11152487 TTATTAAATT
*
11152497 ATATATTTTAATTATA
1 ATATATTTTAATAATA
11152513 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
11152528 AT-TATGTTTAA
1 ATATAT-TTTAA
11152539 ATATTATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:11152523 original size:15 final size:15
Alignment explanation
Indices: 11152488--11152529 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
11152478 TTAAGAATTT
*
11152488 TATTAAATTAT-ATA
1 TATTTAATTATAATA
11152502 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
11152516 TATTTAATAATAAT
1 TATTTAATTATAAT
11152530 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:11152763 original size:45 final size:44
Alignment explanation
Indices: 11152683--11152784 Score: 134
Period size: 45 Copynumber: 2.3 Consensus size: 44
11152673 ACCTCTATTC
*
11152683 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCAATA
* *
11152727 CATTCAACCAAACA-ATTGATTTGCTATTACGCCTCTATTCCAATA
1 CATTCAACCAAACACA-AGA-TTACTATTACGCCTCTATTCCAATA
* *
11152772 CAGTGAACCAAAC
1 CATTCAACCAAAC
11152785 GTGCTCTAAG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
43 1 0.02
44 16 0.31
45 34 0.67
ACGTcount: A:0.36, C:0.28, G:0.07, T:0.28
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCAATA
Found at i:11154287 original size:16 final size:19
Alignment explanation
Indices: 11154239--11154294 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 19
11154229 TTTAGTCATA
11154239 TAATAAATTATTAATATAAT
1 TAATAAATTATTAATAT-AT
11154259 TAATATAATTTATT-AT-T-T
1 TAATA-AA-TTATTAATATAT
11154277 TAATAAATTATTTAATAT
1 TAATAAATTA-TTAATAT
11154295 TTCAATTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 3 0.10
17 4 0.13
18 8 0.26
19 1 0.03
20 6 0.19
21 4 0.13
22 5 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAATATAT
Found at i:11154346 original size:15 final size:15
Alignment explanation
Indices: 11154304--11154346 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 15
11154294 TTTCAATTAT
11154304 ATTTT-AATAATAAA
1 ATTTTAAATAATAAA
*
11154318 TTTTTAAA-AATAAA
1 ATTTTAAATAATAAA
*
11154332 ATTTTAAATATTAAA
1 ATTTTAAATAATAAA
11154347 TATTAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 17 0.71
15 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTTTAAATAATAAA
Found at i:11154369 original size:15 final size:15
Alignment explanation
Indices: 11154302--11154407 Score: 72
Period size: 15 Copynumber: 6.5 Consensus size: 15
11154292 TATTTCAATT
11154302 ATATTTTAATAATAA
1 ATATTTTAATAATAA
*
11154317 AT-TTTTAAAAATAA
1 ATATTTTAATAATAA
11154331 A-ATTTTAAATATTAAATATTA
1 ATATTTT--A-A-T-AATA--A
11154352 ATATTTTAATAATAA
1 ATATTTTAATAATAA
*
11154367 ATATTTATTGCAATTATAA
1 ATA-TT-TT--AATAATAA
*
11154386 ATATATTAATAATAA
1 ATATTTTAATAATAA
11154401 ATATTTT
1 ATATTTT
11154408 GTAGTATAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
14 16 0.22
15 19 0.26
16 3 0.04
17 9 0.12
18 2 0.03
19 15 0.21
20 1 0.01
21 2 0.03
22 5 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (15 bp):
ATATTTTAATAATAA
Found at i:11157500 original size:25 final size:25
Alignment explanation
Indices: 11157450--11157500 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11157440 AGTTCTTGTA
* **
11157450 TTTTTATTTTTAAGATTTTAGTTTT
1 TTTTTATTTTTAAGATTTAAAATTT
11157475 TTTTTATTTTTTAA-ATTTAAAATTT
1 TTTTTA-TTTTTAAGATTTAAAATTT
11157500 T
1 T
11157501 AAATATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTTATTTTTAAGATTTAAAATTT
Found at i:11159477 original size:16 final size:16
Alignment explanation
Indices: 11159441--11159480 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
11159431 GAATTACATT
*
11159441 TTAATTATATTATTATA
1 TTAATT-TATAATTATA
*
11159458 TTAATTTATAATTTTA
1 TTAATTTATAATTATA
11159474 TTAATTT
1 TTAATTT
11159481 TAAAAAGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTAATTTATAATTATA
Found at i:11166825 original size:18 final size:17
Alignment explanation
Indices: 11166802--11166836 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11166792 GAATAGATTT
11166802 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
11166820 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
11166837 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:11167682 original size:18 final size:17
Alignment explanation
Indices: 11167651--11167685 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
11167641 GATTTAGGGT
11167651 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
11167668 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
11167686 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:11169814 original size:121 final size:121
Alignment explanation
Indices: 11169644--11169983 Score: 457
Period size: 121 Copynumber: 2.8 Consensus size: 121
11169634 ATCGAGGTGG
* * * * * *
11169644 TTACATGTTTGAATAATCTTTTAGCTTTCAAGATAAGTTCCATCTTAAAATGCTATGCTTGTGAG
1 TTACATGTTTGAACAATC-TTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAG
11169709 TTTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGGC-GA
65 TTTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGA-GCTGA
* * * *
11169766 TTACATGTTTGAACAATCTTTAGCTTTTGAGATATGTTCGATTTTAAAATGTTATGCGTGCGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
* ** * * * * *
11169831 TTGCATCTCTGCCAATGCTTCTTGTTCGGTATTTGCTTACTCTAGAATTGAGCTGA
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGCTGA
* * * *
11169887 TTACATGTTTGAACAATCTTTAGCTTTCGAGGTAAGTTTGGTTTTAAAATGTTATTCATGTGAGT
1 TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
11169952 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTAT
66 TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTAT
11169984 AGAATGCTAT
Statistics
Matches: 188, Mismatches: 29, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
120 2 0.01
121 169 0.90
122 17 0.09
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (121 bp):
TTACATGTTTGAACAATCTTTAGCTTTCGAGATAAGTTCGATTTTAAAATGTTATGCATGTGAGT
TTGCTTCTCTGCCTGTGCTTCTTGTTCAGTATCTCCTTACACTAAAATTGAGCTGA
Found at i:11182284 original size:18 final size:18
Alignment explanation
Indices: 11182256--11182290 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11182246 TAATACTCTT
11182256 TTTACCTTTTAATCAAAAA
1 TTTACCTTTTAAT-AAAAA
11182275 TTTA-CTTTTAATAAAA
1 TTTACCTTTTAATAAAA
11182291 TTGCACCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (18 bp):
TTTACCTTTTAATAAAAA
Found at i:11189153 original size:31 final size:28
Alignment explanation
Indices: 11189110--11189184 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
11189100 TGAAAAGCTA
*
11189110 TTATTTGGGCACTTTCAAAAAAGTTTAACCC
1 TTATTTGAGCACTTT--AAAAAGTTTAA-CC
* *
11189141 TTATTTGAGCACTTTGAAAAGTTTAACT
1 TTATTTGAGCACTTTAAAAAGTTTAACC
*
11189169 TTCATTTGAACACTTT
1 TT-ATTTGAGCACTTT
11189185 TGAAAAGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.08
29 22 0.56
31 14 0.36
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (28 bp):
TTATTTGAGCACTTTAAAAAGTTTAACC
Found at i:11189175 original size:29 final size:30
Alignment explanation
Indices: 11189128--11189224 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 30
11189118 GCACTTTCAA
*
11189128 AAAAGTTTAACCCTTATTTGAGCAC-TTTG
1 AAAAGTTTAACCCTTATTTGAACACTTTTG
*
11189157 AAAAGTTTAA-CTTTCATTTGAACACTTTTG
1 AAAAGTTTAACCCTT-ATTTGAACACTTTTG
* ** *
11189187 AAAAGGTTAAGCCCGGATTTTGAA-ATTTTTG
1 AAAAGTTTAA-CCCTTA-TTTGAACACTTTTG
11189218 AAAAGTT
1 AAAAGTT
11189225 GGGTCCCAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
28 3 0.05
29 19 0.35
30 13 0.24
31 13 0.24
32 7 0.13
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (30 bp):
AAAAGTTTAACCCTTATTTGAACACTTTTG
Found at i:11191120 original size:24 final size:24
Alignment explanation
Indices: 11191076--11191122 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11191066 TTTAAAATAC
*
11191076 TTAAAAAATTTTATTTTTTTATTT
1 TTAAAAAATTTTATTTGTTTATTT
*
11191100 TTAAAATATTTT-TTGTGTTTATT
1 TTAAAAAATTTTATT-TGTTTATT
11191123 AAAAATCGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (24 bp):
TTAAAAAATTTTATTTGTTTATTT
Found at i:11192948 original size:14 final size:13
Alignment explanation
Indices: 11192929--11192971 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
11192919 ATTTAAAGTG
*
11192929 TTAAGTTTAATAT
1 TTAAGTTTAAAAT
11192942 TTAAAGTCTTAAAAT
1 TT-AAGT-TTAAAAT
*
11192957 TTGAGTTTAAAAT
1 TTAAGTTTAAAAT
11192970 TT
1 TT
11192972 TAGTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 11 0.42
14 7 0.27
15 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (13 bp):
TTAAGTTTAAAAT
Found at i:11197508 original size:31 final size:31
Alignment explanation
Indices: 11197459--11197528 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
11197449 AAAAAAAGCC
*
11197459 CAGTGACTTGAATAAAAACTTTCAAATAATT
1 CAGTGACTTAAATAAAAACTTTCAAATAATT
* *
11197490 CAGTGATTTAAATGAAAACTTTCAAATAATT
1 CAGTGACTTAAATAAAAACTTTCAAATAATT
*
11197521 AAGTGACT
1 CAGTGACT
11197529 ATTTTGTAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (31 bp):
CAGTGACTTAAATAAAAACTTTCAAATAATT
Found at i:11213382 original size:17 final size:17
Alignment explanation
Indices: 11213360--11213392 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11213350 CCTGGTCCCC
11213360 TACTTTCATCATTATTT
1 TACTTTCATCATTATTT
*
11213377 TACTTTGATCATTATT
1 TACTTTCATCATTATT
11213393 GTTATAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.58
Consensus pattern (17 bp):
TACTTTCATCATTATTT
Found at i:11213858 original size:3 final size:3
Alignment explanation
Indices: 11213850--11213887 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
11213840 GATTCATTTT
11213850 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11213888 TTGAAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11215998 original size:6 final size:7
Alignment explanation
Indices: 11215981--11216005 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11215971 AAATATTCTA
11215981 AAAAAAT
1 AAAAAAT
11215988 AAAAAAT
1 AAAAAAT
11215995 AAAAAAT
1 AAAAAAT
11216002 AAAA
1 AAAA
11216006 TTGGGAATGT
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:11221560 original size:31 final size:30
Alignment explanation
Indices: 11221501--11221560 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
11221491 CCTTTTTATT
* *
11221501 TTTCCCTCAAAAACTTTTACTCCTTCCCAC
1 TTTCCCCCAAAAACTTTTACTCCCTCCCAC
*
11221531 TTTCCCCCCAAAACTTTTACTCCCCTCCCA
1 TTTCCCCCAAAAACTTTTACT-CCCTCCCA
11221561 TCCCAACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.22, C:0.45, G:0.00, T:0.33
Consensus pattern (30 bp):
TTTCCCCCAAAAACTTTTACTCCCTCCCAC
Found at i:11227355 original size:9 final size:9
Alignment explanation
Indices: 11227343--11227367 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11227333 TTTGTAATAA
11227343 TTTTAATGG
1 TTTTAATGG
11227352 TTTTAATGG
1 TTTTAATGG
11227361 TTTTAAT
1 TTTTAAT
11227368 TTTGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (9 bp):
TTTTAATGG
Found at i:11229012 original size:24 final size:24
Alignment explanation
Indices: 11228971--11229018 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
11228961 ATTATTTTTT
**
11228971 TAAAAAAAATTAGTTTCACAAAAA
1 TAAAAAAAATTAACTTCACAAAAA
* *
11228995 TAAAAAATATTAACTTCAGAAAAA
1 TAAAAAAAATTAACTTCACAAAAA
11229019 AATAATTAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.25
Consensus pattern (24 bp):
TAAAAAAAATTAACTTCACAAAAA
Found at i:11231220 original size:9 final size:9
Alignment explanation
Indices: 11231206--11231245 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
11231196 TTTGTTTAAA
11231206 AATTAACCG
1 AATTAACCG
11231215 AATTAACCG
1 AATTAACCG
*
11231224 AATTATCCG
1 AATTAACCG
*
11231233 AATTAACCA
1 AATTAACCG
11231242 AATT
1 AATT
11231246 GAATCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:11232610 original size:39 final size:39
Alignment explanation
Indices: 11232566--11232643 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
11232556 AAATCTAGTT
11232566 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
1 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
11232605 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
1 GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
11232644 AATCGAGCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.26, T:0.38
Consensus pattern (39 bp):
GTAGTATTTTGGGTCTGTAATAGTTTATAGGCACTCCGA
Found at i:11237048 original size:14 final size:12
Alignment explanation
Indices: 11237029--11237062 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
11237019 TACGTTTTGT
*
11237029 TATATATATTCA
1 TATATATATACA
*
11237041 TATATATATACC
1 TATATATATACA
11237053 TATATATATA
1 TATATATATA
11237063 GACTTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATATATACA
Found at i:11239925 original size:13 final size:13
Alignment explanation
Indices: 11239909--11239955 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
11239899 AAGTATTAAA
11239909 AATTGAAGTATTG
1 AATTGAAGTATTG
* **
11239922 AATTTAAGT-TAC
1 AATTGAAGTATTG
11239934 AATTGAAGTATTG
1 AATTGAAGTATTG
*
11239947 AATTTAAGT
1 AATTGAAGT
11239956 TACAAAATTG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
12 9 0.35
13 17 0.65
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (13 bp):
AATTGAAGTATTG
Found at i:11239938 original size:25 final size:25
Alignment explanation
Indices: 11239909--11239960 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11239899 AAGTATTAAA
11239909 AATTGAAGTATTGAATTTAAGTTAC
1 AATTGAAGTATTGAATTTAAGTTAC
11239934 AATTGAAGTATTGAATTTAAGTTAC
1 AATTGAAGTATTGAATTTAAGTTAC
11239959 AA
1 AA
11239961 AATTGTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (25 bp):
AATTGAAGTATTGAATTTAAGTTAC
Found at i:11241283 original size:19 final size:19
Alignment explanation
Indices: 11241241--11241283 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11241231 AAACAGCAAG
*
11241241 AGAAAAGCAGAGAAAAAAA
1 AGAAAAACAGAGAAAAAAA
*
11241260 GGAAAAACAGA-AAGAAAAA
1 AGAAAAACAGAGAA-AAAAA
11241279 AGAAA
1 AGAAA
11241284 TTCCTATTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAAAAACAGAGAAAAAAA
Found at i:11242337 original size:24 final size:22
Alignment explanation
Indices: 11242294--11242353 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 22
11242284 AATATTATTT
11242294 AAATTTATCATGCATCATAGTTTA
1 AAATTTATCAT--ATCATAGTTTA
*
11242318 AAATTTATCATATACTATAGTTTT
1 AAATTTATCATAT-C-ATAGTTTA
*
11242342 AAACTTATCATA
1 AAATTTATCATA
11242354 GATTATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 29 0.91
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.43
Consensus pattern (22 bp):
AAATTTATCATATCATAGTTTA
Found at i:11250557 original size:18 final size:18
Alignment explanation
Indices: 11250534--11250569 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
11250524 CATCATTTCA
11250534 GGACCAAAACCAGTTAAC
1 GGACCAAAACCAGTTAAC
11250552 GGACCAAAACCAGTTAAC
1 GGACCAAAACCAGTTAAC
11250570 TCTTTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.28, G:0.17, T:0.11
Consensus pattern (18 bp):
GGACCAAAACCAGTTAAC
Found at i:11254153 original size:2 final size:2
Alignment explanation
Indices: 11254109--11254138 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11254099 TCAATGGATT
*
11254109 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11254139 CATTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11257631 original size:67 final size:67
Alignment explanation
Indices: 11257523--11257657 Score: 191
Period size: 67 Copynumber: 2.0 Consensus size: 67
11257513 AGTGGTCGAT
* * * * * *
11257523 TATTAAAGGGCTTTAATTTAGATTAATGGTCTATTTGTTTGCCAGTAAAATGTTTTCTAGAAAAT
1 TATTAAAGAGCTTTAATTGAGATTAAGGGTCGATTTGTTTGCCAGTAAAATATTTTCCAGAAAAT
11257588 AA
66 AA
*
11257590 TATTAAAGAGCTTTAATTGAGATTAAGGGTCCGA-TTGTTTGCCAGTAAAATATTTTCCGGAAAA
1 TATTAAAGAGCTTTAATTGAGATTAAGGGT-CGATTTGTTTGCCAGTAAAATATTTTCCAGAAAA
11257654 TAA
65 TAA
11257657 T
1 T
11257658 TTATGGAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 58 0.97
68 2 0.03
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.39
Consensus pattern (67 bp):
TATTAAAGAGCTTTAATTGAGATTAAGGGTCGATTTGTTTGCCAGTAAAATATTTTCCAGAAAAT
AA
Found at i:11257686 original size:34 final size:33
Alignment explanation
Indices: 11257642--11257706 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
11257632 CAGTAAAATA
11257642 TTTTCCGGAAAATAATTTA-TGGAAAATGATTTAC
1 TTTTCCGGAAAATAATTTACT-GAAAAT-ATTTAC
* *
11257676 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTCCGGAAAATAATTTACTGAAAATATTT
11257707 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.14
34 23 0.82
35 1 0.04
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (33 bp):
TTTTCCGGAAAATAATTTACTGAAAATATTTAC
Found at i:11257810 original size:18 final size:17
Alignment explanation
Indices: 11257787--11257828 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 17
11257777 GAAAGCTATT
11257787 TTTATATATATTAATAAA
1 TTTATATATATTAAT-AA
11257805 TTTATATATATTAATAA
1 TTTATATATATTAATAA
11257822 TTTATAT
1 TTTATAT
11257829 TTTAATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTATATATATTAATAA
Found at i:11260139 original size:31 final size:31
Alignment explanation
Indices: 11260073--11260139 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
11260063 TGATATTGCT
* *
11260073 AATTG-AATGCATGATTAAACATGCTACTGA
1 AATTGTAAAGCATGATTAAACATGCCACTGA
11260103 AATTGTAAAGCATG-TTAAAGCATGCCACT-A
1 AATTGTAAAGCATGATTAAA-CATGCCACTGA
11260133 ATATTGT
1 A-ATTGT
11260140 TACCGTTACC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.31
Consensus pattern (31 bp):
AATTGTAAAGCATGATTAAACATGCCACTGA
Found at i:11260704 original size:29 final size:28
Alignment explanation
Indices: 11260648--11260707 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
11260638 ATTGTTCCCT
*
11260648 CAAAACTTTTACTCCTTCCCACTTCCCCC
1 CAAAACTTTTACTCCCTCCCAC-TCCCCC
*
11260677 CAAAACTTTTACTCCCCTCCCA-ACCCCC
1 CAAAACTTTTACT-CCCTCCCACTCCCCC
11260705 CAA
1 CAA
11260708 TCTACCCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.29
29 13 0.46
30 7 0.25
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (28 bp):
CAAAACTTTTACTCCCTCCCACTCCCCC
Found at i:11263898 original size:17 final size:17
Alignment explanation
Indices: 11263862--11263900 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11263852 TGTTTATCAG
* *
11263862 AAATA-AAATTTTATAT
1 AAATATAAATTTTAGAA
11263878 AAATATAAATTTTAGAA
1 AAATATAAATTTTAGAA
11263895 AAATAT
1 AAATAT
11263901 TACAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
AAATATAAATTTTAGAA
Found at i:11268983 original size:127 final size:126
Alignment explanation
Indices: 11268754--11268993 Score: 299
Period size: 127 Copynumber: 1.9 Consensus size: 126
11268744 TTATTTTAAT
* *
11268754 TTTAAAAGGATATTCGGTTATTTAGGTCAACGAGAAAAATCGAAACCCAATAAGTTAGGGCACGA
1 TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAACCCAATAAGTTAGGGCACGA
* *
11268819 TTTCTCGAATTTTCTAAATATAGAATATTACCTTTATTTTTGAAATTTTATACGTTTGGAAA
66 TTTCTCGAATTTCCTAAATATAGAATATTACCTTTA-TTTTAAAATTTTATACGTTTGGAAA
** * * * *
11268881 TTTAAAAGGATATTTTGCTATTCAGGTTTAACGAG-AAAATCGAGACCCAGTAAGTTAGGGTACG
1 TTTAAAAGGATATTCGGCTATTCAGG-TCAACGAGAAAAATCGAAACCCAATAAGTTAGGGCACG
* *
11268945 A-TTCTTCGAATTTCCTAAA-ATGCGAGATATTGCC-TTATTTTAAAATTTT
65 ATTTC-TCGAATTTCCTAAATAT-AGA-ATATTACCTTTATTTTAAAATTTT
11268994 CTTTTTGAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
126 16 0.16
127 67 0.69
128 14 0.14
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (126 bp):
TTTAAAAGGATATTCGGCTATTCAGGTCAACGAGAAAAATCGAAACCCAATAAGTTAGGGCACGA
TTTCTCGAATTTCCTAAATATAGAATATTACCTTTATTTTAAAATTTTATACGTTTGGAAA
Found at i:11271161 original size:44 final size:42
Alignment explanation
Indices: 11270986--11271936 Score: 308
Period size: 44 Copynumber: 22.6 Consensus size: 42
11270976 GTTTTAATCC
* *
11270986 GCTCCACTGCAACTTCAAGGAGATAGGATTGGTTTCTTTTGTCT
1 GCTCCACTACAACTT-AGGGAGATAGGATTGGTTTC-TTTGTCT
* ** * * * *
11271030 ACTCCACTACTGCTTAGGGAGATAAGACTGG---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGATTGGTTTCTTTG-TCT
* ** * * ** *
11271070 GCTCCATTACTGCTTAGGGAGATACGATCTGTGGTT-TTAATCC
1 GCTCCACTACAACTTAGGGAGATAGGAT-TG-GTTTCTTTGTCT
*
11271113 GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTCGTCT
1 GCTCCACTACAACTT-AGGGAGATAGGATTGGTTTCTTT-GTCT
** * * * * *
11271157 GCTCCACTACTGCTTAAGGAGATAAGACTGG---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGATTGGTTTCTTTG-TCT
* ** *
11271197 GCTCCATTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTCTTT-GTCT
** * * *
11271241 GCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
** *
11271281 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTCTTT-GTCT
** ** *
11271325 GCTCCACTACTGCTTAGGGAGATA--A--GACTTCATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGATTGGTTTC-TTTG-TCT
** *
11271365 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTCTTT-GTCT
* ** * * *
11271409 GCTCTACTACTGCTTAGGGAGATAAGACTT-GATGC---GATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
** * *
11271449 GCTCCACTACTGCTTAAGGAGATAAGATCTGGTTTCTTTCGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTCTTT-GTCT
** * * *
11271493 GCTCCACTACTGCTTAGGGAGATAAGACTT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
** *
11271533 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTC-TTTGTCT
** * * * *
11271577 GCTCCACTACTGCTTAGGGAGATAAGACCT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
* ** *
11271617 ACTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTC-TTTGTCT
** * * * *
11271661 GCTCCACTACTGCTTAGGGAGATAAGACCT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
* * *
11271701 GCTCCACTACTACTCAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTC-TTTGTCT
** * * * *
11271745 GCTCCACTACTGCTTAGAGAGATAAGACTT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
** * **
11271785 GCTCCACTACTGCTTATGGAGATAATATCTGGTTTCTTTTGTCT
1 GCTCCACTACAACTTAGGGAGATAGGAT-TGGTTTC-TTTGTCT
** ** * *
11271829 GCTCCACTACTGCTTAGGGAGATAAAACTT-G---ATGTGATCT
1 GCTCCACTACAACTTAGGGAGATAGGA-TTGGTTTCTTTG-TCT
** *
11271869 GCTCCACTACTGGC-TAGGGAGATAAGATCTGGTTTCTTTTGTCT
1 GCTCCACTAC-AACTTAGGGAGATAGGAT-TGGTTTC-TTTGTCT
*
11271913 GCTCCACTACTACTTAGGGAGATA
1 GCTCCACTACAACTTAGGGAGATA
11271937 AGACTGTTGG
Statistics
Matches: 728, Mismatches: 98, Indels: 162
0.74 0.10 0.16
Matches are distributed among these distances:
39 29 0.04
40 294 0.40
41 16 0.02
42 6 0.01
43 53 0.07
44 302 0.41
45 28 0.04
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (42 bp):
GCTCCACTACAACTTAGGGAGATAGGATTGGTTTCTTTGTCT
Found at i:11271249 original size:84 final size:84
Alignment explanation
Indices: 11271031--11271941 Score: 1413
Period size: 84 Copynumber: 10.9 Consensus size: 84
11271021 CTTTTGTCTA
* * *
11271031 CTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-GATCTGCTCCATTACTGCTTAGGGAG
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAG
* * * * *
11271091 ATACGATCTGTGGTTTTAATCCG
65 ATAAGA-CT-T-GATGTGATCTG
* ** * *
11271114 CTCCACTGCAACTTCAGGGAGATAGGAT-TGGTTTCTTTCGTCTGCTCCACTACTGCTTAAGGAG
1 CTCCACTACTGCTT-AGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAG
*
11271178 ATAAGACTGGATGTGATCTG
65 ATAAGACTTGATGTGATCTG
*
11271198 CTCCATTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
11271263 TAAGACTTGATGTGATCTG
66 TAAGACTTGATGTGATCTG
11271282 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
*
11271347 TAAGACTTCATGTGATCTG
66 TAAGACTTGATGTGATCTG
*
11271366 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCTACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
*
11271431 TAAGACTTGATGCGATCTG
66 TAAGACTTGATGTGATCTG
*
11271450 CTCCACTACTGCTTAAGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
11271515 TAAGACTTGATGTGATCTG
66 TAAGACTTGATGTGATCTG
*
11271534 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
* *
11271599 TAAGACCTGATGTGATCTA
66 TAAGACTTGATGTGATCTG
*
11271618 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
*
11271683 TAAGACCTGATGTGATCTG
66 TAAGACTTGATGTGATCTG
* * * *
11271702 CTCCACTACTACTCAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGAGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
11271767 TAAGACTTGATGTGATCTG
66 TAAGACTTGATGTGATCTG
* * *
11271786 CTCCACTACTGCTTATGGAGATAATATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
*
11271851 TAAAACTTGATGTGATCTG
66 TAAGACTTGATGTGATCTG
* *
11271870 CTCCACTACTGGC-TAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTACTTAGGGAG
1 CTCCACTACT-GCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAG
11271934 ATAAGACT
65 ATAAGACT
11271942 GTTGGCTTCA
Statistics
Matches: 772, Mismatches: 48, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
83 23 0.03
84 715 0.93
85 2 0.00
86 2 0.00
87 29 0.04
88 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.33
Consensus pattern (84 bp):
CTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGA
TAAGACTTGATGTGATCTG
Found at i:11272208 original size:88 final size:88
Alignment explanation
Indices: 11272112--11272890 Score: 845
Period size: 88 Copynumber: 8.8 Consensus size: 88
11272102 GTCGTTAGTA
* * * * *
11272112 CAGGAAGGCAAGATCTGCAATC-TCTGACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGT
1 CAGGAAGGCAAGATCTGCTATCTTC-AACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGT
*
11272176 CTTTGATCTGCTTCGCTGTCAATA
65 CTTTGATCTGCTTCGCTGTCAATG
** * *
11272200 CAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* * * * *
11272265 TTCGACCTACTTCACTGTCAATA
66 TTTGATCTGCTTCGCTGTCAATG
* * **
11272288 CAGGAAGGCAAGATTTGCTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* * *
11272353 TTCGACCTGATTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
** * * *
11272376 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATG-GAGGCAATGTTTTCTA
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAA-G-GTT-TG
* *
11272440 TTTCTTTGATCTG-TTCTCTGTCAATG
62 TGTCTTTGATCTGCTTCGCTGTCAATG
* ** * *
11272466 TAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
11272531 TTTGACCTGCTTCACTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* * * *
11272554 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGAAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* **
11272619 TTCGATCTGCTTCGCTGTCAGGG
66 TTTGATCTGCTTCGCTGTCAATG
* * * * ** * *
11272642 TAGGAAGGCAAGATCTGTTGTCTTCAAACAGCTCTGCTACAACCGAGAGAGGTAAGGTTT-TAT-
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
11272705 TTTCGATCTGCTTCGCTGTTAACG
66 TTT-GATCTGCTTCGCTGTCAATG
* * ** *
11272729 CAGGAATGCAAGATCTGCTATCTTTAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTT-TGT-
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
11272792 TTTCGATCTGCTTCGCTATTAATG
66 TTT-GATCTGCTTCGCTGTCAATG
* * * *
11272816 CAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATG-GAGGCAAGGATCTGTT
1 CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTG
11272880 TCTTTGATCTG
64 TCTTTGATCTG
11272891 TTTTCTGGGG
Statistics
Matches: 593, Mismatches: 86, Indels: 23
0.84 0.12 0.03
Matches are distributed among these distances:
86 2 0.00
87 157 0.26
88 347 0.59
89 14 0.02
90 62 0.10
91 11 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTC
TTTGATCTGCTTCGCTGTCAATG
Found at i:11272267 original size:43 final size:43
Alignment explanation
Indices: 11272218--11272355 Score: 131
Period size: 43 Copynumber: 3.2 Consensus size: 43
11272208 CAAGATCTAT
11272218 TGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTG
* * * *
11272261 TGTCTTCGACCTA-CTTCACTGTCA-ATACAG-GA-AGGCAAGATTTG
1 TGTCTTCAACC-AGCTCCAC---CACA-ACCGAGAGAGGCAAGGTTTG
** *
11272305 CTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTG
1 -TGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTG
11272349 TGTCTTC
1 TGTCTTC
11272356 GACCTGATTC
Statistics
Matches: 74, Mismatches: 11, Indels: 20
0.70 0.10 0.19
Matches are distributed among these distances:
42 4 0.05
43 25 0.34
44 24 0.32
45 16 0.22
46 5 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGTTTG
Found at i:11272297 original size:44 final size:43
Alignment explanation
Indices: 11272249--11272387 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
11272239 CAACCGAGAG
11272249 AGGCAAGGTTTGTGTCTTCGACCTACTTCACTGTCAATACAGGA
1 AGGCAAGGTTTGTGTCTTCGACCTACTTC-CTGTCAATACAGGA
* * *
11272293 AGGCAAGATTTGCTGTCTTCAACC-AGC-T-CTG-CTACA-ACCGAGA
1 AGGCAAGGTTTG-TGTCTTCGACCTA-CTTCCTGTC-A-ATACAG-GA
*
11272336 GAGGCAAGGTTTGTGTCTTCGACCTGA-TTCGCTGTCAATGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGACCT-ACTTC-CTGTCAATACAGGA
11272381 AGGCAAG
1 AGGCAAG
11272388 ATCTGCTATC
Statistics
Matches: 75, Mismatches: 7, Indels: 26
0.69 0.06 0.24
Matches are distributed among these distances:
41 1 0.01
42 7 0.09
43 13 0.17
44 32 0.43
45 15 0.20
46 6 0.08
47 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (43 bp):
AGGCAAGGTTTGTGTCTTCGACCTACTTCCTGTCAATACAGGA
Found at i:11272546 original size:266 final size:263
Alignment explanation
Indices: 11272112--11272872 Score: 940
Period size: 266 Copynumber: 2.9 Consensus size: 263
11272102 GTCGTTAGTA
* * * ** * *
11272112 CAGGAAGGCAAGATCTGCAATCTCTGACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTC
1 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAACCGA-GGAGGCAAGTTTTATTTC
* * *
11272177 TTTGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAA
65 TTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTACAA
* * * *
11272242 CCGAGAGAGGCAAGGTTTGTGTCTTCGACCTACTTCACTGTCAATACAGGAAGGCAAGATTTGCT
130 CCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT
*
11272307 GTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGATTCGCTGTC
195 GTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGATTCGCTGTC
*
11272372 AATG
260 AAGG
*
11272376 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCAATGTTTTCTAT
1 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAACCGA-GGAGGCAA-G-TTT-TAT
* *
11272441 TTCTTTGATCTG-TTCTCTGTCAATGTAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTA
62 TTCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTA
11272505 CAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
127 CAACCGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCT
* * * *
11272570 GTTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGAAAGGTTTGTGTCTTCGATCTGCTTCGCT
192 GCTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGATTCGCT
*
11272635 GTCAGGG
257 GTCAAGG
* * * ** * ** *
11272642 TAGGAAGGCAAGATCTGTTGTCTTCAAACAGCTCTGCTACAACCGAGAGAGGTAAGGTTTTA-TT
1 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAACCGAG-GAGGCAA-GTTTTATTT
* * * * ** * * *
11272706 -TTCGATCTGCTTCGCTGTTAACGCAGGAATGCAAGATCTGCTATCTTTAACCAGCTCTGCTACA
64 CTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTACA
* * * * *
11272770 ACTGAGAGAGGCAAGGTTT-TGT-TTTCGATCTGCTTCGCTATTAATGCAGGAAGGCAAGATCTG
129 ACCGAGAGAGGCAAGGTTTGTGTCTTT-GACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTG
* * * *
11272833 CTATCTTTAACCAACTCCACTACAACCGATG-GAGGCAAGG
193 CTGTCTTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGG
11272873 ATCTGTTTCT
Statistics
Matches: 432, Mismatches: 58, Indels: 16
0.85 0.11 0.03
Matches are distributed among these distances:
261 3 0.01
262 76 0.18
263 65 0.15
264 52 0.12
265 5 0.01
266 218 0.50
267 13 0.03
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (263 bp):
CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAACCGAGGAGGCAAGTTTTATTTCT
TTGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTACAAC
CGAGAGAGGCAAGGTTTGTGTCTTTGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTG
TCTTCAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGATTCGCTGTCA
AGG
Found at i:11272620 original size:43 final size:43
Alignment explanation
Indices: 11272484--11272621 Score: 127
Period size: 44 Copynumber: 3.2 Consensus size: 43
11272474 CAAGATCTAT
*
11272484 TGTCTTCAACCAGCTCTACTACAACCGAGAGAGGCAAGGTTTG
1 TGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTG
** * * * * * *
11272527 TGTCTTTGACCTGCTTCACTGTCAA-TGCAG-GAAGGCAAGATCTG
1 TGTCTTCAACCAGCTCCACT-ACAACCG-AGAG-AGGCAAGGTTTG
* *
11272571 TTGTCTTCAACCAGCTCCGCTACAACCGAGAGAGGAAAGGTTTG
1 -TGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTG
11272615 TGTCTTC
1 TGTCTTC
11272622 GATCTGCTTC
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
43 24 0.34
44 29 0.41
45 17 0.24
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.27
Consensus pattern (43 bp):
TGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTG
Found at i:11272666 original size:354 final size:349
Alignment explanation
Indices: 11272112--11272886 Score: 989
Period size: 354 Copynumber: 2.2 Consensus size: 349
11272102 GTCGTTAGTA
* * * * *
11272112 CAGGAAGGCAAGATCTGCAATC-TCTGACCTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGT
1 CAGGAAGGCAAGATCTACTATCTTC-AACCAGCTCCACTACAACCGA-GGAGGCAAGGTTTGTGT
* *
11272176 CTTTGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACA
64 CTTTGACCTGCTTCACTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACA
* * *
11272241 ACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTACTTCACTGTCAATACAGGAAGGCAAGATTTGC
129 ACCGAGAGAGGAAAGGTTTGTGTCTTCGACCTACTTCACTGTCAAGACAGGAAGGCAAGATCTGC
* *
11272306 TGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGATTCGCTGT
194 TGTCTTCAAACAGCTCTGCTACAACCGAGAGAGGCAAGGTTT-TATCTTCGACCTGATTCGCTGT
* * * *
11272371 CAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATG-GAGGCAATGTT
258 CAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA-GAGAGGCAAGGTT
* *
11272435 TTCTATTTCTTTGATCTG-TTCTCTGTCAATG
322 TTCT-TTTC---GATCTGCTTCGCTATCAATG
* * * *
11272466 TAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCTACTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCGAG-GAGGCAAGGTTTGTGTC
* * * *
11272531 TTTGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCGCTACAA
65 TTTGACCTGCTTCACTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAA
* * * * ** *
11272596 CCGAGAGAGGAAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAGGGTAGGAAGGCAAGATCTGTT
130 CCGAGAGAGGAAAGGTTTGTGTCTTCGACCTACTTCACTGTCAAGACAGGAAGGCAAGATCTGCT
* * * * *
11272661 GTCTTCAAACAGCTCTGCTACAACCGAGAGAGGTAAGGTTTTATTTTCGATCTGCTTCGCTGTTA
195 GTCTTCAAACAGCTCTGCTACAACCGAGAGAGGCAAGGTTTTATCTTCGACCTGATTCGCTGTCA
* ** * *
11272726 ACGCAGGAATGCAAGATCTGCTATCTTTAACCAGCTCTGCTACAACTGAGAGAGGCAAGGTTTTG
260 ACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTTC
*
11272791 TTTTCGATCTGCTTCGCTATTAATG
325 TTTTCGATCTGCTTCGCTATCAATG
* * * * *
11272816 CAGGAAGGCAAGATCTGCTATCTTTAACCAACTCCACTACAACCGATGGAGGCAAGGATCTGTTT
1 CAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCGA-GGAGGCAAGG-TTTGTGT
11272881 CTTTGA
64 CTTTGA
11272887 TCTGTTTTCT
Statistics
Matches: 362, Mismatches: 53, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
349 6 0.02
350 58 0.16
351 12 0.03
352 5 0.01
353 75 0.21
354 204 0.56
355 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (349 bp):
CAGGAAGGCAAGATCTACTATCTTCAACCAGCTCCACTACAACCGAGGAGGCAAGGTTTGTGTCT
TTGACCTGCTTCACTGTCAATACAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCACCACAAC
CGAGAGAGGAAAGGTTTGTGTCTTCGACCTACTTCACTGTCAAGACAGGAAGGCAAGATCTGCTG
TCTTCAAACAGCTCTGCTACAACCGAGAGAGGCAAGGTTTTATCTTCGACCTGATTCGCTGTCAA
CGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTTCT
TTTCGATCTGCTTCGCTATCAATG
Found at i:11273504 original size:108 final size:108
Alignment explanation
Indices: 11273315--11273510 Score: 295
Period size: 108 Copynumber: 1.8 Consensus size: 108
11273305 GAAAAATGCT
11273315 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
11273380 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * * ** *
11273423 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAATAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAA
* * *
11273487 TTAATCAATATAGCAAATTTTGCT
65 TCAATCAAGACAGCAAATTTTGCT
11273511 AGAATACAAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
108 74 0.95
109 4 0.05
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Done.