Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 127 of 173
Found at i:38839875 original size:15 final size:15
Alignment explanation
Indices: 38839844--38839891 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
38839834 AATTTTGCTA
38839844 TAATTAT-ATAT-TT
1 TAATTATAATATATT
38839857 TAATTATAATATATT
1 TAATTATAATATATT
*
38839872 TAATAATAAT-TATGT
1 TAATTATAATATAT-T
38839887 TAATT
1 TAATT
38839892 TATATTTTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 7 0.23
14 7 0.23
15 16 0.53
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TAATTATAATATATT
Found at i:38839994 original size:15 final size:15
Alignment explanation
Indices: 38839959--38840010 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
38839949 TTAAGAATTT
*
38839959 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38839973 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38839987 TATTTAATAATAAT-
1 TATTTAATTATAATA
38840001 TATGTTAATT
1 TAT-TTAATT
38840011 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:38840009 original size:119 final size:120
Alignment explanation
Indices: 38839714--38840126 Score: 708
Period size: 120 Copynumber: 3.4 Consensus size: 120
38839704 AATTATTTTA
* * *
38839714 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
38839776 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
**
38839834 AATTTTGCTATAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
1 AATTTTATTA-AATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTT
38839899 TACAGTATCATATATTATGA-TTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38839954 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
38840019 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
38840074 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
38840127 TAAATATGAT
Statistics
Matches: 280, Mismatches: 8, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
119 74 0.26
120 145 0.52
121 59 0.21
122 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:38840109 original size:16 final size:16
Alignment explanation
Indices: 38840088--38840129 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
38840078 TTATTAAATT
*
38840088 ATATATTTTAATTATA
1 ATATATTTTAATAATA
38840104 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
38840119 AT-TATGTTTAA
1 ATATAT-TTTAA
38840130 ATATGATTAA
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:38840114 original size:15 final size:15
Alignment explanation
Indices: 38840079--38840120 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
38840069 TTAAGAATTT
*
38840079 TATTAAATTAT-ATA
1 TATTTAATTATAATA
38840093 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
38840107 TATTTAATAATAAT
1 TATTTAATTATAAT
38840121 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:38840241 original size:157 final size:157
Alignment explanation
Indices: 38840063--38840379 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
38840053 ATAAGAATAT
*
38840063 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
38840128 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
38840193 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
38840220 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
38840285 AAATATGATTAAATTATTTATTATTGATAATAATAATTTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
38840350 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
38840377 TAA
1 TAA
38840380 GGGTATTTTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:38840260 original size:18 final size:17
Alignment explanation
Indices: 38840232--38840266 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38840222 ATTATTAAGA
*
38840232 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38840249 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38840267 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38840300 original size:75 final size:75
Alignment explanation
Indices: 38840064--38840302 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
38840054 TAAGAATATT
*
38840064 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
38840129 AATATGATTA
66 AATATGATTA
* ** * * * * *
38840139 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
38840201 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
38840221 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
38840286 AATATGATTA
66 AATATGATTA
38840296 AATTATT
1 AATTATT
38840303 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:38848708 original size:26 final size:25
Alignment explanation
Indices: 38848663--38848728 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
38848653 TGATATTTTT
*
38848663 AAATTAAAATTAAAATTAAAAGAATA-
1 AAATT-AAATTAAAATTAAAA-AAAAC
* *
38848689 GAATTAAATTAAACTGTAAAAAAAAC
1 AAATTAAATTAAAAT-TAAAAAAAAC
38848715 AAATTAAATTAAAA
1 AAATTAAATTAAAA
38848729 CTTTTCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (25 bp):
AAATTAAATTAAAATTAAAAAAAAC
Found at i:38851369 original size:31 final size:30
Alignment explanation
Indices: 38851325--38851393 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
38851315 AACGGTTGGT
* *
38851325 GACCAAAAGAGAAAACTTCAAATATTTGGGC
1 GACCAAAAGAGAAAA-GTCAAATAGTTGGGC
* *
38851356 GACC-AAAGAAGAAAAGTCAAGTAGTTGGGT
1 GACCAAAAG-AGAAAAGTCAAATAGTTGGGC
38851386 GACCAAAA
1 GACCAAAA
38851394 AATAAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 19 0.59
31 13 0.41
ACGTcount: A:0.46, C:0.14, G:0.23, T:0.16
Consensus pattern (30 bp):
GACCAAAAGAGAAAAGTCAAATAGTTGGGC
Found at i:38855248 original size:21 final size:21
Alignment explanation
Indices: 38855206--38855251 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38855196 CTTGTACAAA
*
38855206 GTATTGATATCTTTGTAATAG
1 GTATTGATATCTGTGTAATAG
*
38855227 GTATTGATAT-TGTGTTATTAG
1 GTATTGATATCTGTG-TAATAG
38855248 GTAT
1 GTAT
38855252 CGATGCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.26, C:0.02, G:0.22, T:0.50
Consensus pattern (21 bp):
GTATTGATATCTGTGTAATAG
Found at i:38857558 original size:40 final size:40
Alignment explanation
Indices: 38857503--38857720 Score: 364
Period size: 40 Copynumber: 5.5 Consensus size: 40
38857493 AGGCTTGTGC
38857503 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
38857543 CTAGCAGGCTTAATGCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* * *
38857583 CTAGCAGGCTGAATTCCGGTGAAATATTCAGATTATACGT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
38857623 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
*
38857663 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACAT
1 CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
* *
38857703 CTAGCAAGCTTCATGCCG
1 CTAGCAGGCTTAATGCCG
38857721 ATGTACGGAA
Statistics
Matches: 169, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 169 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (40 bp):
CTAGCAGGCTTAATGCCGGTGAAATATTCAGACTATACGT
Found at i:38868147 original size:44 final size:45
Alignment explanation
Indices: 38868096--38868248 Score: 157
Period size: 45 Copynumber: 3.4 Consensus size: 45
38868086 ACTCCACTAT
** *
38868096 AACTTCAAGGAGATAAGGTTTG-TTTATTCAGTCTGCCCCATTGC
1 AACTTCAAGGAGATAAGACTTGCTTTATTCAGTCTGCCCCACTGC
* * * *
38868140 AATTTCAA-GAGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGC
1 AACTTCAAGGA-GATAAGACTTGCTTTATTCAGTCTGCCCCACTGC
* ** * * *
38868185 AACTTCAGGGAGATAAGACCCGCTTTCTTGAGTCTGCTCCACTGC
1 AACTTCAAGGAGATAAGACTTGCTTTATTCAGTCTGCCCCACTGC
*
38868230 AACTTCAGGGAGATAAGAC
1 AACTTCAAGGAGATAAGAC
38868249 CCGATGTGAT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
43 2 0.02
44 16 0.17
45 75 0.79
46 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (45 bp):
AACTTCAAGGAGATAAGACTTGCTTTATTCAGTCTGCCCCACTGC
Found at i:38868186 original size:45 final size:46
Alignment explanation
Indices: 38868125--38868251 Score: 170
Period size: 45 Copynumber: 2.8 Consensus size: 46
38868115 TTGTTTATTC
* * * **
38868125 AGTCTGCCCCATTGCAATTTCAAGAG-GATAAGACTTGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAAGAGAGATAAGACCCGCTTTCTTG
*
38868170 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACCCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAAGAGAGATAAGACCCGCTTTCTTG
*
38868215 AGTCTGCTCCACTGCAACTTC-AGGGAGATAAGACCCG
1 AGTCTGCTCCACTGCAACTTCAAGAGAGATAAGACCCG
38868252 ATGTGATCTA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
44 3 0.04
45 72 0.96
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (46 bp):
AGTCTGCTCCACTGCAACTTCAAGAGAGATAAGACCCGCTTTCTTG
Found at i:38868284 original size:41 final size:44
Alignment explanation
Indices: 38868168--38868418 Score: 149
Period size: 45 Copynumber: 5.8 Consensus size: 44
38868158 CTTGCTTTCT
* * *
38868168 TGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCTTTCT
1 TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGC-ATCG
*
38868213 TGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCG-AT-G
1 TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGCATCG
* * * * * **
38868255 TGA-TCTACTCTACTGCAACCTCAGAGAGATAAGATCTGCCATTT
1 TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCG-CATCG
* * * * * ** *
38868299 TCAGTCTGC-CCTACTGCAACCTCAGGGGGATAAGATCTACTTAC-
1 TGAGTCTACTCC-ACTGCAACTTCAGGGAGATAAGACCCGCAT-CG
* * * * **
38868343 TCAGTCTGCTTCACTGCAACTTCAGGGAGATAA-AACCTAAT-G
1 TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGCATCG
* * * *
38868385 -CAATCTACTCTACTGCAACTTCAGAGAGATAAGA
1 TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGA
38868419 TCTATTTTTT
Statistics
Matches: 167, Mismatches: 30, Indels: 21
0.77 0.14 0.10
Matches are distributed among these distances:
41 56 0.34
42 4 0.02
43 6 0.04
44 33 0.20
45 68 0.41
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (44 bp):
TGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACCCGCATCG
Found at i:38868396 original size:130 final size:131
Alignment explanation
Indices: 38868170--38868421 Score: 355
Period size: 130 Copynumber: 1.9 Consensus size: 131
38868160 TGCTTTCTTG
* * * *
38868170 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACCCGCTTTCTTGAGTCTGCTCCACTGCAACTT
1 AGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCCACTTACTTCAGTCTGCTCCACTGCAACTT
* * **
38868235 CAGGGAGATAAGACCCGATGTGATCTACTCTACTGCAACCTCAGAGAGATAAGATCTGCCATTTT
66 CAGGGAGATAAAACCCAATGCAATCTACTCTACTGCAACCTCAGAGAGATAAGATCTGCCATTTT
38868300 C
131 C
* * * *
38868301 AGTCTGC-CCTACTGCAACCTCAGGGGGATAAGATCTACTTAC-TCAGTCTGCTTCACTGCAACT
1 AGTCTGCTCC-ACTGCAACCTCAGGGAGATAAGACCCACTTACTTCAGTCTGCTCCACTGCAACT
* *
38868364 TCAGGGAGATAAAACCTAATGCAATCTACTCTACTGCAACTTCAGAGAGATAAGATCT
65 TCAGGGAGATAAAACCCAATGCAATCTACTCTACTGCAACCTCAGAGAGATAAGATCT
38868422 ATTTTTTAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
130 73 0.69
131 33 0.31
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (131 bp):
AGTCTGCTCCACTGCAACCTCAGGGAGATAAGACCCACTTACTTCAGTCTGCTCCACTGCAACTT
CAGGGAGATAAAACCCAATGCAATCTACTCTACTGCAACCTCAGAGAGATAAGATCTGCCATTTT
C
Found at i:38868700 original size:100 final size:100
Alignment explanation
Indices: 38868514--38868720 Score: 233
Period size: 100 Copynumber: 2.1 Consensus size: 100
38868504 GATTCACCGT
** * *
38868514 CTTCAATTTGTTTAACTGCAATGTCAGGGAAACAAGATTTGTCGTTGTAGCTTCGATCTATTCCA
1 CTTCAATTTGTTTAACTGCAATGTCAGGGAAACAAGATCCGTCGTCGTAGCTTCAATCTATTCCA
38868579 CTACACCACCATGGAAATAAGATT-TGCCGTTGTGG
66 CTACACCACCATGGAAATAAGATTCT-CCGTTGTGG
* * * * *
38868614 CTTCAATATT-TTTAATTGTAATGTCGGGGAAACAAGATCCG-CTGTCGTGGCTTCAATCTGTTC
1 CTTCAAT-TTGTTTAACTGCAATGTCAGGGAAACAAGATCCGTC-GTCGTAGCTTCAATCTATTC
* * * *
38868677 CACTACACCGCCA-GAGGAGTAAGATTCTTCGTTGTGG
64 CACTACACCACCATG-GAAATAAGATTCTCCGTTGTGG
38868714 CTTCAAT
1 CTTCAAT
38868721 CTATTCCACT
Statistics
Matches: 90, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
99 2 0.02
100 85 0.94
101 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.33
Consensus pattern (100 bp):
CTTCAATTTGTTTAACTGCAATGTCAGGGAAACAAGATCCGTCGTCGTAGCTTCAATCTATTCCA
CTACACCACCATGGAAATAAGATTCTCCGTTGTGG
Found at i:38868918 original size:50 final size:50
Alignment explanation
Indices: 38868864--38869039 Score: 140
Period size: 50 Copynumber: 3.5 Consensus size: 50
38868854 CCAGAGAAGT
* *
38868864 AAGATTCGCCGTTGTGGCTTCAATCTATTTAATTGTAATGTCAGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTATAATGTCAGGGAAAC
* ** * * * **
38868914 AAGA-TCTGCCGTCGTGGCTTCAATCTGTTCCACTATATTGCCAAGGG-AGT
1 AAGATTC-GCCGTCGTGGCTTCAATCTATTTAATTATAATGTC-AGGGAAAC
* * * * * * *
38868964 AAGATTTGCCGTTGTGACTTCAACCTTTTTAATTACAATGTCGGGGAAAC
1 AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTATAATGTCAGGGAAAC
* * *
38869014 AAGATCCGCCGTCATTGCTTCAATCT
1 AAGATTCGCCGTCGTGGCTTCAATCT
38869040 GTTCCACTAC
Statistics
Matches: 91, Mismatches: 31, Indels: 8
0.70 0.24 0.06
Matches are distributed among these distances:
49 5 0.05
50 81 0.89
51 5 0.05
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
AAGATTCGCCGTCGTGGCTTCAATCTATTTAATTATAATGTCAGGGAAAC
Found at i:38868975 original size:100 final size:100
Alignment explanation
Indices: 38868801--38869092 Score: 345
Period size: 100 Copynumber: 2.9 Consensus size: 100
38868791 CCAAGCCTTC
* * * * * * * *
38868801 ATGTCAGGGAGATAAGATTCACCGTTATGGCTTCAATCTGCTCCGCTACAATGCC-AGAGAAGTA
1 ATGTCAGGGAAACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACAATGCCAAG-GGAGTA
**
38868865 AGATTCGCCGTTGTGGCTTCAATCTATTTAATTGTA
65 AGATTCGCCGTTGTGGCTTCAATCTATTTAATTACA
* * * *
38868901 ATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCACTATATTGCCAAGGGAGTAA
1 ATGTCAGGGAAACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACAATGCCAAGGGAGTAA
* * * *
38868966 GATTTGCCGTTGTGACTTCAACCTTTTTAATTACA
66 GATTCGCCGTTGTGGCTTCAATCTATTTAATTACA
* * * *
38869001 ATGTCGGGGAAACAAGATCCGCCGTCATTGCTTCAATCTGTTCCACTACACCT-CCAGGGGAGTA
1 ATGTCAGGGAAACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACA-ATGCCAAGGGAGTA
*
38869065 AGATTCACCGTTGTGGCTTCAATCTATT
65 AGATTCGCCGTTGTGGCTTCAATCTATT
38869093 CCACTGTAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
100 157 0.98
101 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (100 bp):
ATGTCAGGGAAACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACAATGCCAAGGGAGTAA
GATTCGCCGTTGTGGCTTCAATCTATTTAATTACA
Found at i:38869187 original size:367 final size:367
Alignment explanation
Indices: 38868514--38869353 Score: 1214
Period size: 367 Copynumber: 2.3 Consensus size: 367
38868504 GATTCACCGT
* * * * * * * * *
38868514 CTTCAATTTGTTTAACTGCAATGTCAGGGAAACAAGATTTGTCGTTGTAGCTTCGATCTATTCCA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCA
* * * * * * **
38868579 CTACACCACCATGGAAATAAGATTTGCCGTTGTGGCTTCAATATTTTTAATTGTAATGTCGGGGA
66 CTACACCGCCAAGGGAGTAAGATTTGCCGTTGTGACTTCAACATTTTTAATTACAATGTCGGGGA
* * **
38868644 AACAAGATCCGCTGTCGTGGCTTCAATCTGTTCCACTACACCGCCAGAGGAGTAAGATTCTTCGT
131 AACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACACCGCCAGAGGAGTAAGATTCACCGT
38868709 TGTGGCTTCAATCTATTCCACTAAAATACTAAAGAGATAGGATTCACTGCCCACAGCTTCAATCC
196 TGTGGCTTCAATCTATTCCACTAAAATACTAAAGAGATAGGATTCACTGCCCACAGCTTCAATCC
* * * *
38868774 GCACCACTTCAGCTAATCCAAGCCTTCATGTCAGGGAGATAAGATTCACCGTTATGGCTTCAATC
261 GCACCACTTCAGCTAATCCAACCCTTCACGTCAGGGAGATAAGATTCACCGTCATGACTTCAATC
*
38868839 TGCTCCGCTACAATGCCA-GAGAAGTAAGATTCGCCGTTGTGG
326 TACTCCGCTACAATGCCAGGA-AAGTAAGATTCGCCGTTGTGG
*
38868881 CTTCAATCTATTTAATTGTAATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCA
* ** *
38868946 CTATATTGCCAAGGGAGTAAGATTTGCCGTTGTGACTTCAACCTTTTTAATTACAATGTCGGGGA
66 CTACACCGCCAAGGGAGTAAGATTTGCCGTTGTGACTTCAACATTTTTAATTACAATGTCGGGGA
* * *
38869011 AACAAGATCCGCCGTCATTGCTTCAATCTGTTCCACTACACCTCCAGGGGAGTAAGATTCACCGT
131 AACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACACCGCCAGAGGAGTAAGATTCACCGT
** * *
38869076 TGTGGCTTCAATCTATTCCACTGTAATGCTAAAGAGATAGGATTCACTGCCCATAGCTTCAATCC
196 TGTGGCTTCAATCTATTCCACTAAAATACTAAAGAGATAGGATTCACTGCCCACAGCTTCAATCC
* * *
38869141 GCACCACTTTAGCTAATCCAACCCTTCACGTCAGGGAGATAAGATTCGCCGTCGTGACTTCAATC
261 GCACCACTTCAGCTAATCCAACCCTTCACGTCAGGGAGATAAGATTCACCGTCATGACTTCAATC
*
38869206 TACTCTGCTACAATGCCAGGAAAGTAAGATTCGCCGTTGTGG
326 TACTCCGCTACAATGCCAGGAAAGTAAGATTCGCCGTTGTGG
* * ** *
38869248 CTTCAATCTATTTAATTACAATGTTAGGGAAACAAGATCCACCGTCGTGGCTTCAATCTGTTCTA
1 CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCA
* * *
38869313 CTACACCGCTAGGGGAGTAAGATTCGCCGTTGTGACTTCAA
66 CTACACCGCCAAGGGAGTAAGATTTGCCGTTGTGACTTCAA
38869354 TCTATTCCAT
Statistics
Matches: 418, Mismatches: 54, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
367 416 1.00
368 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (367 bp):
CTTCAATCTATTTAATTGCAATGTCAGGGAAACAAGATCTGCCGTCGTGGCTTCAATCTGTTCCA
CTACACCGCCAAGGGAGTAAGATTTGCCGTTGTGACTTCAACATTTTTAATTACAATGTCGGGGA
AACAAGATCCGCCGTCATGGCTTCAATCTGTTCCACTACACCGCCAGAGGAGTAAGATTCACCGT
TGTGGCTTCAATCTATTCCACTAAAATACTAAAGAGATAGGATTCACTGCCCACAGCTTCAATCC
GCACCACTTCAGCTAATCCAACCCTTCACGTCAGGGAGATAAGATTCACCGTCATGACTTCAATC
TACTCCGCTACAATGCCAGGAAAGTAAGATTCGCCGTTGTGG
Found at i:38869255 original size:50 final size:49
Alignment explanation
Indices: 38869180--38869358 Score: 162
Period size: 50 Copynumber: 3.6 Consensus size: 49
38869170 GTCAGGGAGA
* *
38869180 TAAGATTCGCCGTCGTGACTTCAATCTACTCTGCTACAATGCCAGGAAAG
1 TAAGATTCGCCGTCGTGACTTCAATCTA-TCTACTACAATGCTAGGAAAG
* * * * *
38869230 TAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTACAATGTTAGGGAAA-
1 TAAGATTCGCCGTCGTGACTTCAATCTATCT-ACTACAATGCTA-GGAAAG
* * * * * ** **
38869280 CAAGATCCACCGTCGTGGCTTCAATCTGTTCTACTACACCGCTAGGGGAG
1 TAAGATTCGCCGTCGTGACTTCAATCT-ATCTACTACAATGCTAGGAAAG
*
38869330 TAAGATTCGCCGTTGTGACTTCAATCTAT
1 TAAGATTCGCCGTCGTGACTTCAATCTAT
38869359 TCCATTGTAA
Statistics
Matches: 100, Mismatches: 25, Indels: 9
0.75 0.19 0.07
Matches are distributed among these distances:
49 6 0.06
50 87 0.87
51 7 0.07
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (49 bp):
TAAGATTCGCCGTCGTGACTTCAATCTATCTACTACAATGCTAGGAAAG
Found at i:38869379 original size:267 final size:267
Alignment explanation
Indices: 38868961--38869526 Score: 853
Period size: 267 Copynumber: 2.1 Consensus size: 267
38868951 TTGCCAAGGG
* * * * * *
38868961 AGTAAGATTTGCCGTTGTGACTTCAACCTTTTTAATTACAATGTCGGGGAAACAAGATCCGCCGT
1 AGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTACAATGTCAGGGAAACAAGATCCACCGT
* * *
38869026 CATTGCTTCAATCTGTTCCACTACACCTCCAGGGGAGTAAGATTCACCGTTGTGGCTTCAATCTA
66 CATGGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTTGTGACTTCAATCTA
* * * * *
38869091 TTCCACTGTAATGCTAAAGAGATAGGATTCACTGCCCATAGCTTCAATCCGCACCACTTTAGCTA
131 TTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTCAATCCACACCACATCAGCTA
** * *
38869156 ATCCAACCCTTCACGTCAGGGAGATAAGATTCGCCGTCGTGACTTCAATCTACTCTGCTACAATG
196 ATCCAACCCTTCACACCAGGGAGATAAGATTCGCCGTCGTGACTTCAATCTACTCCGCTACAACG
38869221 CCAGGAA
261 CCAGGAA
*
38869228 AGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTACAATGTTAGGGAAACAAGATCCACCGT
1 AGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTACAATGTCAGGGAAACAAGATCCACCGT
* * * *
38869293 CGTGGCTTCAATCTGTTCTACTACACCGCTAGGGGAGTAAGATTCGCCGTTGTGACTTCAATCTA
66 CATGGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTTGTGACTTCAATCTA
* *
38869358 TTCCATTGTAATGCCAAAGAGATAGGATTCGCTGCCCACAGCTTCAATCCACACCACATCAGCTA
131 TTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTCAATCCACACCACATCAGCTA
* * * *
38869423 ATCCAAGCCTTCACACCAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGTTACAACG
196 ATCCAACCCTTCACACCAGGGAGATAAGATTCGCCGTCGTGACTTCAATCTACTCCGCTACAACG
* *
38869488 CTAGGGA
261 CCAGGAA
38869495 AGTAAGATTCGCCGTTGTGGCTTCAATCTATT
1 AGTAAGATTCGCCGTTGTGGCTTCAATCTATT
38869527 CCATTGTAAT
Statistics
Matches: 268, Mismatches: 31, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
267 268 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (267 bp):
AGTAAGATTCGCCGTTGTGGCTTCAATCTATTTAATTACAATGTCAGGGAAACAAGATCCACCGT
CATGGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAAGATTCACCGTTGTGACTTCAATCTA
TTCCACTGTAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTCAATCCACACCACATCAGCTA
ATCCAACCCTTCACACCAGGGAGATAAGATTCGCCGTCGTGACTTCAATCTACTCCGCTACAACG
CCAGGAA
Found at i:38869658 original size:43 final size:44
Alignment explanation
Indices: 38869602--38869722 Score: 127
Period size: 45 Copynumber: 2.8 Consensus size: 44
38869592 AAGGTCTGCC
38869602 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGA-CTGGT
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGATCTGGT
* * * *** * * *
38869645 ATCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGTT
1 ATCTTCAACCTACTCCACTGCTGCT-CAGGGAGACAAGATCTGGT
* *
38869690 ATTTTCAACCTACTCCACTGTTGCTCAGGGAGA
1 ATCTTCAACCTACTCCACTGCTGCTCAGGGAGA
38869723 TAAGGCTGAG
Statistics
Matches: 57, Mismatches: 19, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
43 19 0.33
44 17 0.30
45 21 0.37
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGATCTGGT
Found at i:38869709 original size:88 final size:88
Alignment explanation
Indices: 38869558--38869722 Score: 231
Period size: 88 Copynumber: 1.9 Consensus size: 88
38869548 AATACTAGTG
* * * * * *
38869558 TCTTCGATCTGCTTCGCTGCTAGTAGAGGAAGGCAAGGTCTGCCATCTTCAACCTACTCCACTGC
1 TCTTCGATCTACTTCACTGCCAATAGAGGAAGACAAGATCTGCCATCTTCAACCTACTCCACTGC
38869623 TGCTCAGGGAGACAAGACTGGTA
66 TGCTCAGGGAGACAAGACTGGTA
* ** * *
38869646 TCTTCGATCTACTTCACTGCCAATATAGGAAGACAAGATCTGTTATTTTCAACCTACTCCACTGT
1 TCTTCGATCTACTTCACTGCCAATAGAGGAAGACAAGATCTGCCATCTTCAACCTACTCCACTGC
38869711 TGCTCAGGGAGA
66 TGCTCAGGGAGA
38869723 TAAGGCTGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 66 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTACTTCACTGCCAATAGAGGAAGACAAGATCTGCCATCTTCAACCTACTCCACTGC
TGCTCAGGGAGACAAGACTGGTA
Found at i:38891157 original size:16 final size:16
Alignment explanation
Indices: 38891136--38891184 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
38891126 AAATAACACG
38891136 TTTAAATTTAAAAATA
1 TTTAAATTTAAAAATA
* *
38891152 TTTAAAATTAAAAAAA
1 TTTAAATTTAAAAATA
*
38891168 ATTAAATCTTATAAAAT
1 TTTAAAT-TTA-AAAAT
38891185 CAAACATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 19 0.73
17 3 0.12
18 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTAAATTTAAAAATA
Found at i:38893716 original size:14 final size:14
Alignment explanation
Indices: 38893697--38893734 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
38893687 AATAATACTA
*
38893697 TTTAAAATTATTAT
1 TTTAAAATAATTAT
38893711 TTTAAAA-AATTAT
1 TTTAAAATAATTAT
38893724 TATTAAAATAA
1 T-TTAAAATAA
38893735 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 6 0.29
14 13 0.62
15 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTTAAAATAATTAT
Found at i:38893789 original size:16 final size:16
Alignment explanation
Indices: 38893743--38893792 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
38893733 AAAATTGAAA
38893743 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
38893760 A-A--AATAATAAATT
1 ATATTAATAATTTATT
38893773 ATATTAATAATTTATT
1 ATATTAATAATTTATT
38893789 ATAT
1 ATAT
38893793 GAATTAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:38894924 original size:41 final size:41
Alignment explanation
Indices: 38894866--38894959 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
38894856 ACCATCAACA
*
38894866 ATTCAAAATCAAGCATTAATCAAGGATCAAATAAAAACTATC
1 ATTCAAAGT-AAGCATTAATCAAGGATCAAATAAAAACTATC
*
38894908 ATTCAAAGTAAGCATTAATCAAGGATCAAATCAAAACTATC
1 ATTCAAAGTAAGCATTAATCAAGGATCAAATAAAAACTATC
38894949 ATTCAAAGTAA
1 ATTCAAAGTAA
38894960 ACACATATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 42 0.84
42 8 0.16
ACGTcount: A:0.51, C:0.16, G:0.09, T:0.24
Consensus pattern (41 bp):
ATTCAAAGTAAGCATTAATCAAGGATCAAATAAAAACTATC
Found at i:38898171 original size:34 final size:34
Alignment explanation
Indices: 38898122--38898189 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
38898112 GATTCAAGAT
*
38898122 TTTCATGACCTGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCGGTAAAGAAGGAAAGAGGAGCTAG
*
38898156 TTTCATGATCGGTAAAGAAGGAAAGAGGAGCTAG
1 TTTCATGACCGGTAAAGAAGGAAAGAGGAGCTAG
38898190 AGAGTGAGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (34 bp):
TTTCATGACCGGTAAAGAAGGAAAGAGGAGCTAG
Found at i:38899691 original size:21 final size:22
Alignment explanation
Indices: 38899660--38899700 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
38899650 AGTGTTTAAG
38899660 AAGGAAATAATCATCACAAAAT
1 AAGGAAATAATCATCACAAAAT
38899682 AAGG-AATAATCATCACAAA
1 AAGGAAATAATCATCACAAA
38899701 TCTTAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.59, C:0.15, G:0.10, T:0.17
Consensus pattern (22 bp):
AAGGAAATAATCATCACAAAAT
Found at i:38899847 original size:17 final size:17
Alignment explanation
Indices: 38899825--38899859 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
38899815 AAATATAATG
38899825 AATGCTCAAAAGTGTTT
1 AATGCTCAAAAGTGTTT
38899842 AATGCTCAAAAGTGTTT
1 AATGCTCAAAAGTGTTT
38899859 A
1 A
38899860 CAAGAAGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.34
Consensus pattern (17 bp):
AATGCTCAAAAGTGTTT
Found at i:38903906 original size:23 final size:23
Alignment explanation
Indices: 38903880--38903923 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
38903870 ACAAACTTTA
38903880 TCTAAGTTAAAATCATTTTTTTT
1 TCTAAGTTAAAATCATTTTTTTT
38903903 TCTAAGTTAAAATCATTTTTT
1 TCTAAGTTAAAATCATTTTTT
38903924 GGCAATCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.09, G:0.05, T:0.55
Consensus pattern (23 bp):
TCTAAGTTAAAATCATTTTTTTT
Found at i:38906422 original size:20 final size:20
Alignment explanation
Indices: 38906397--38906434 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38906387 AGGAGTAGTT
*
38906397 TTTCAATCAATTTAAAAATG
1 TTTCAATCAAGTTAAAAATG
*
38906417 TTTCAATTAAGTTAAAAA
1 TTTCAATCAAGTTAAAAA
38906435 AAGTTTAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.39
Consensus pattern (20 bp):
TTTCAATCAAGTTAAAAATG
Found at i:38906440 original size:21 final size:20
Alignment explanation
Indices: 38906397--38906440 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
38906387 AGGAGTAGTT
* *
38906397 TTTCAATCAATTTAAAAATG
1 TTTCAATCAATTAAAAAAAG
*
38906417 TTTCAATTAAGTTAAAAAAAG
1 TTTCAATCAA-TTAAAAAAAG
38906438 TTT
1 TTT
38906441 AAACCATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
TTTCAATCAATTAAAAAAAG
Found at i:38909941 original size:33 final size:34
Alignment explanation
Indices: 38909883--38909974 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 34
38909873 TTATTAAATG
* *
38909883 CATCTTTAATTAATGTCTTGCATTAT-TGATCTA
1 CATCTTTAATTAATGACATGCATTATGTGATCTA
*
38909916 CATCATTTAATT-ATGACATGCATTATGTGTTCTA
1 CATC-TTTAATTAATGACATGCATTATGTGATCTA
* *
38909950 CA--TTTAA-TAAAGTCATGCATTATGT
1 CATCTTTAATTAATGACATGCATTATGT
38909975 TACTCTCATG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
30 1 0.02
31 19 0.37
33 16 0.31
34 15 0.29
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (34 bp):
CATCTTTAATTAATGACATGCATTATGTGATCTA
Found at i:38914891 original size:26 final size:26
Alignment explanation
Indices: 38914855--38915038 Score: 149
Period size: 26 Copynumber: 7.1 Consensus size: 26
38914845 ATGAAAAAGT
*
38914855 AGGCCTTGAACCGATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * * *
38914881 AGGCCTTGA-ACTAGTGGTTATTTAGT
1 AGGCCTTGAGCCGA-TGTTTATTTAGC
* *
38914907 AGGCCTCGAGCTTG-TGTTTATTTAGC
1 AGGCCTTGAGC-CGATGTTTATTTAGC
* * *
38914933 AGGCATTGAGCCAATG-TAATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* *
38914958 AGGCCTTGAGTCTATGTTTATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * * * *
38914984 AGGCCTTGAGCAGGTGATTAGTTACC
1 AGGCCTTGAGCCGATGTTTATTTAGC
* * *
38915010 AGGCTTTGACCCGATGTATATTTAGC
1 AGGCCTTGAGCCGATGTTTATTTAGC
38915036 AGG
1 AGG
38915039 TACTACGTAC
Statistics
Matches: 119, Mismatches: 34, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
25 23 0.19
26 96 0.81
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (26 bp):
AGGCCTTGAGCCGATGTTTATTTAGC
Found at i:38914976 original size:51 final size:52
Alignment explanation
Indices: 38914868--38914994 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 52
38914858 CCTTGAACCG
* * * * *
38914868 ATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGTAGGCCTCGAGCTT
1 ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCTT
* * *
38914920 GTGTTTATTTAGCAGGCATTGAGCCAAT-GTAATTTAGCAGGCCTTGAG-TCT
1 ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCT-T
38914971 ATGTTTATTTAGCAGGCCTTGAGC
1 ATGTTTATTTAGCAGGCCTTGAGC
38914995 AGGTGATTAG
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.02
51 40 0.62
52 23 0.36
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (52 bp):
ATGTTTATTTAGCAGGCCTTGAGCCAATGGTAATTTAGCAGGCCTCGAGCTT
Found at i:38915013 original size:77 final size:78
Alignment explanation
Indices: 38914868--38915038 Score: 202
Period size: 77 Copynumber: 2.2 Consensus size: 78
38914858 CCTTGAACCG
* * ** * * *
38914868 ATGTTTATTTAGCAGGCCTTGAACTAGTGGTTATTTAGTAGGCCTCGAGCTTGTGTTTATTTAGC
1 ATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTACC
*
38914933 AGGCATTGAGCCA
66 AGGCATTGACCCA
* * *
38914946 ATGTA-ATTTAGCAGGCCTTGAGTCTA-TGTTTATTTAGCAGGCCTTGAGCAGGTGATTAGTTAC
1 ATGTATATTTAGCAGGCCTTGA-ACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTAC
* *
38915009 CAGGCTTTGACCCG
65 CAGGCATTGACCCA
38915023 ATGTATATTTAGCAGG
1 ATGTATATTTAGCAGG
38915039 TACTACGTAC
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
77 61 0.78
78 17 0.22
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.36
Consensus pattern (78 bp):
ATGTATATTTAGCAGGCCTTGAACTAGTGGTTATTTAGCAGGCCTCGAGCAGGTGATTAGTTACC
AGGCATTGACCCA
Found at i:38933723 original size:17 final size:17
Alignment explanation
Indices: 38933703--38933739 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
38933693 AAAAATAAAA
38933703 AAAATAAAAAAAAATTT
1 AAAATAAAAAAAAATTT
* *
38933720 AAAATCAAACAAAATTT
1 AAAATAAAAAAAAATTT
38933737 AAA
1 AAA
38933740 TTTGAAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATAAAAAAAAATTT
Found at i:38935528 original size:6 final size:6
Alignment explanation
Indices: 38935510--38935567 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
38935500 CGCGTTCTTC
* * * *
38935510 TCCCCT CTCCCCT TCCCCT TCCCCT TTCCCT TTCCCT TTCCCT TTCCCT
1 TCCCCT -TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
*
38935559 TTCCCT TCC
1 TCCCCT TCC
38935568 TCTTAGGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 43 0.88
7 6 0.12
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCCCCT
Found at i:38935534 original size:12 final size:12
Alignment explanation
Indices: 38935512--38935567 Score: 76
Period size: 12 Copynumber: 4.6 Consensus size: 12
38935502 CGTTCTTCTC
*
38935512 CCCTCTCCCCTTC
1 CCCT-TCCCCTTT
38935525 CCCTTCCCCTTT
1 CCCTTCCCCTTT
*
38935537 CCCTTTCCCTTT
1 CCCTTCCCCTTT
*
38935549 CCCTTTCCCTTT
1 CCCTTCCCCTTT
38935561 CCCTTCC
1 CCCTTCC
38935568 TCTTAGGTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
12 36 0.90
13 4 0.10
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (12 bp):
CCCTTCCCCTTT
Found at i:38935534 original size:19 final size:19
Alignment explanation
Indices: 38935510--38935551 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
38935500 CGCGTTCTTC
38935510 TCCCCTCTCCCCTTCCCCT
1 TCCCCTCTCCCCTTCCCCT
* * *
38935529 TCCCCTTTCCCTTTCCCTT
1 TCCCCTCTCCCCTTCCCCT
38935548 TCCC
1 TCCC
38935552 TTTCCCTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (19 bp):
TCCCCTCTCCCCTTCCCCT
Found at i:38935546 original size:18 final size:18
Alignment explanation
Indices: 38935519--38935567 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
38935509 CTCCCCTCTC
*
38935519 CCCTTCCCCTTCCCCTTT
1 CCCTTTCCCTTCCCCTTT
*
38935537 CCCTTTCCCTTTCCCTTT
1 CCCTTTCCCTTCCCCTTT
38935555 CCCTTTCCCTTCC
1 CCCTTTCCCTTCC
38935568 TCTTAGGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
CCCTTTCCCTTCCCCTTT
Found at i:38937502 original size:30 final size:29
Alignment explanation
Indices: 38937468--38937529 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
38937458 AAAAACCTGT
38937468 TTTTTTTCAAAATTTACCGAAATGGGCCA
1 TTTTTTTCAAAATTTACCGAAATGGGCCA
* * ** *
38937497 ATTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTTCAAAATTTACCGAAATGGGCCA
38937526 TTTT
1 TTTT
38937530 CTGCGAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.44
Consensus pattern (29 bp):
TTTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:38939413 original size:20 final size:20
Alignment explanation
Indices: 38939388--38939427 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
38939378 AAATATTTTC
*
38939388 AGTAAATCATTTTCTAGAAA
1 AGTAAATCATTTTCCAGAAA
38939408 AGTAAATCATTTTCCAGAAA
1 AGTAAATCATTTTCCAGAAA
38939428 TAATTTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAATCATTTTCCAGAAA
Found at i:38939434 original size:34 final size:33
Alignment explanation
Indices: 38939378--38939442 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 33
38939368 AAACACCAGA
*
38939378 AAATATTTTCAGTAAATCATTTTCTA-GAAAAGT
1 AAATATTTTCAGTAAATAATTTT-TAGGAAAAGT
38939411 AAATCATTTTCCAG-AAATAATTTTTAGGAAAA
1 AAAT-ATTTT-CAGTAAATAATTTTTAGGAAAA
38939443 CATTTTACTG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
33 6 0.21
34 19 0.68
35 3 0.11
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (33 bp):
AAATATTTTCAGTAAATAATTTTTAGGAAAAGT
Found at i:38948376 original size:69 final size:69
Alignment explanation
Indices: 38948291--38948455 Score: 226
Period size: 69 Copynumber: 2.4 Consensus size: 69
38948281 AAGAGGTTTA
* *
38948291 ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGTGATTTTAAGGTG
1 ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGTG
38948356 TAAG
66 TAAG
* * * * *
38948360 ACCATAGCTC-AGCTATGGCAACCAATAGAGTCTGCTGGGATAGTTAACATGGGGATTTCAAGGT
1 ACCATAGCTCGA-CTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGT
38948424 GTAAG
65 GTAAG
*
38948429 ACAATAGCTCGACTAT-GACAACCAATA
1 ACCATAGCTCGACTATGGA-AACCAATA
38948456 AAGCTCGCAG
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
68 2 0.02
69 81 0.96
70 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (69 bp):
ACCATAGCTCGACTATGGAAACCAATAGAGTCTGATGGGACAGTAAACACGGGGATTTCAAGGTG
TAAG
Found at i:38952700 original size:53 final size:53
Alignment explanation
Indices: 38952615--38952721 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
38952605 TGGGCCATTA
*
38952615 GATTTGTTGGGCATGTCACATATTAGAACAATTGTCTCCAACACTTGCCACAT
1 GATTTGTTGGGCATGTCACATATTAGAACAATTGTCTCCAACACCTGCCACAT
*
38952668 GATTTGTTGGGCATGTCACATATTAGACCAATTGTCTCCAACACCTGCCACAT
1 GATTTGTTGGGCATGTCACATATTAGAACAATTGTCTCCAACACCTGCCACAT
38952721 G
1 G
38952722 GTACATTTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (53 bp):
GATTTGTTGGGCATGTCACATATTAGAACAATTGTCTCCAACACCTGCCACAT
Found at i:38953818 original size:28 final size:28
Alignment explanation
Indices: 38953778--38953833 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
38953768 TACTTGATGT
38953778 CAATGCCCTCAAGATAATTAGATTTTCA
1 CAATGCCCTCAAGATAATTAGATTTTCA
*
38953806 CAATGCCCTCAAGATAATTGGATTTTCA
1 CAATGCCCTCAAGATAATTAGATTTTCA
38953834 TTCTTAGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (28 bp):
CAATGCCCTCAAGATAATTAGATTTTCA
Found at i:38958404 original size:13 final size:13
Alignment explanation
Indices: 38958386--38958411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38958376 TTGGTTCTCC
38958386 AAAATGAAAATGA
1 AAAATGAAAATGA
38958399 AAAATGAAAATGA
1 AAAATGAAAATGA
38958412 CTTGGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:38967673 original size:25 final size:25
Alignment explanation
Indices: 38967638--38967688 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
38967628 ACGGATTACC
*
38967638 TGTAAGGCCTTCATGGT-AGACTCTT
1 TGTAAGACCTTCATGGTGA-ACTCTT
*
38967663 TGTAAGACCTTTATGGTGAACTCTT
1 TGTAAGACCTTCATGGTGAACTCTT
38967688 T
1 T
38967689 ATAAAGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 22 0.96
26 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.39
Consensus pattern (25 bp):
TGTAAGACCTTCATGGTGAACTCTT
Found at i:38971371 original size:8 final size:8
Alignment explanation
Indices: 38971358--38971382 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38971348 TTTCGAGCAA
38971358 TTATTCTT
1 TTATTCTT
38971366 TTATTCTT
1 TTATTCTT
38971374 TTATTCTT
1 TTATTCTT
38971382 T
1 T
38971383 CCAAGCGAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (8 bp):
TTATTCTT
Found at i:38975151 original size:44 final size:44
Alignment explanation
Indices: 38975083--38975176 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
38975073 TAGATCACAT
*
38975083 CAGATTGAAGCCAAAAATCTTATCTCCCTCAGATTACAGCGGAG
1 CAGATTGAAGCCAAAAATCCTATCTCCCTCAGATTACAGCGGAG
* ** * *
38975127 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAAAAATCCTATCTCCCTCAGATTACAGCGGAG
38975171 CAGATT
1 CAGATT
38975177 AAAATAAAGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (44 bp):
CAGATTGAAGCCAAAAATCCTATCTCCCTCAGATTACAGCGGAG
Found at i:38975241 original size:142 final size:142
Alignment explanation
Indices: 38975008--38975277 Score: 434
Period size: 142 Copynumber: 1.9 Consensus size: 142
38974998 CAGGTCTTAG
*
38975008 CTCCCTGAGATTACAGTAGAGATGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
1 CTCCCTGAGATTACAGTAGAGATGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
*
38975073 TAGATCACATCAGATTGAAGCCAAAAATCTTATCTCCCTCAGATTACAGCGGAGCAGATTGAAGC
66 TAGATCACATCAGATTGAAGCCAAAAATCTTATCTCCCTCAGATTACAACGGAGCAGATTGAAGC
38975138 TAGTAATCCTAT
131 TAGTAATCCTAT
* *
38975150 CTCCCTGAGATTACAGTGGAGCA-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTACTGTAGA
1 CTCCCTGAGATTACAGTAGAG-ATGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
* * * * * *
38975214 GTAGATCGCATTAGATTGAAGCTAAAAATCTTATCTCCCTGATATTACAACGGAGTAGATTGAA
65 GTAGATCACATCAGATTGAAGCCAAAAATCTTATCTCCCTCAGATTACAACGGAGCAGATTGAA
38975278 ACAAGTGTGT
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
142 116 0.99
143 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (142 bp):
CTCCCTGAGATTACAGTAGAGATGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAG
TAGATCACATCAGATTGAAGCCAAAAATCTTATCTCCCTCAGATTACAACGGAGCAGATTGAAGC
TAGTAATCCTAT
Found at i:38979997 original size:21 final size:20
Alignment explanation
Indices: 38979964--38980005 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
38979954 TGAAGATAGG
*
38979964 AGCATACATAAGA-GATATTC
1 AGCATACAAAAGATGAT-TTC
38979984 AGCAGTACAAAAGATGATTTC
1 AGCA-TACAAAAGATGATTTC
38980005 A
1 A
38980006 AAGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 12 0.63
22 3 0.16
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (20 bp):
AGCATACAAAAGATGATTTC
Found at i:38984379 original size:21 final size:22
Alignment explanation
Indices: 38984332--38984380 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
38984322 AAACTATTGT
*
38984332 ATTAATAGTTTTTTTTATAATA
1 ATTAATAGTTTTTTTAATAATA
38984354 ATTAATA-TTATTTTTAAT-ATA
1 ATTAATAGTT-TTTTTAATAATA
*
38984375 TTTAAT
1 ATTAAT
38984381 TGTATATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTAATAGTTTTTTTAATAATA
Found at i:38984714 original size:38 final size:38
Alignment explanation
Indices: 38984663--38984739 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
38984653 CGATAATCAA
38984663 CTCTGCCTTCTTTCTTTTATCTTCCCCACAAGATGGGC
1 CTCTGCCTTCTTTCTTTTATCTTCCCCACAAGATGGGC
38984701 CTCTGCCTTCTTTCTTTTATCTTCCCCACAAGATGGGC
1 CTCTGCCTTCTTTCTTTTATCTTCCCCACAAGATGGGC
38984739 C
1 C
38984740 AAAACTTGCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.13, C:0.35, G:0.13, T:0.39
Consensus pattern (38 bp):
CTCTGCCTTCTTTCTTTTATCTTCCCCACAAGATGGGC
Found at i:38990620 original size:272 final size:272
Alignment explanation
Indices: 38990134--38990678 Score: 1063
Period size: 272 Copynumber: 2.0 Consensus size: 272
38990124 GGGGGGGAGC
*
38990134 TTTTTTCAGGAAGTGATATTCATCTGGCTTTTACTGAAATACTGGGAGGATAGTGCAGCCATATA
1 TTTTTTCAGGAAGTGATATTCATCTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATA
38990199 AAGCTTTATACCTTTTAACTTTCAGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGT
66 AAGCTTTATACCTTTTAACTTTCAGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGT
38990264 TATGATTTAGTGCAACTAGAGAGTACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGG
131 TATGATTTAGTGCAACTAGAGAGTACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGG
38990329 GCATCAGTGATGGGGTATTGAATATGCAACTTAGTGCTTTACATGTTCTACTTTCTAAGCATGAC
196 GCATCAGTGATGGGGTATTGAATATGCAACTTAGTGCTTTACATGTTCTACTTTCTAAGCATGAC
38990394 ATGGTATGAACT
261 ATGGTATGAACT
38990406 TTTTTTCAGGAAGTGATATTCATCTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATA
1 TTTTTTCAGGAAGTGATATTCATCTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATA
38990471 AAGCTTTATACCTTTTAACTTTCAGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGT
66 AAGCTTTATACCTTTTAACTTTCAGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGT
*
38990536 TATGATTTAGTGCAACTAGAGAGTACTCGGCAAAGTATACCCACTTCTCATGGCAGCTTTACTGG
131 TATGATTTAGTGCAACTAGAGAGTACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGG
*
38990601 GCATCGGTGATGGGGTATTGAATATGCAACTTAGTGCTTTACATGTTCTACTTTCTAAGCATGAC
196 GCATCAGTGATGGGGTATTGAATATGCAACTTAGTGCTTTACATGTTCTACTTTCTAAGCATGAC
38990666 ATGGTATGAACT
261 ATGGTATGAACT
38990678 T
1 T
38990679 ATTTCCCTGT
Statistics
Matches: 270, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 270 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (272 bp):
TTTTTTCAGGAAGTGATATTCATCTGGCTTTTACTGAAATACAGGGAGGATAGTGCAGCCATATA
AAGCTTTATACCTTTTAACTTTCAGCTATTTTCATTCTCTGTTGTACTTACTGCTGGTTATATGT
TATGATTTAGTGCAACTAGAGAGTACTCGACAAAGTATACCCACTTCTCATGGCAGCTTTACTGG
GCATCAGTGATGGGGTATTGAATATGCAACTTAGTGCTTTACATGTTCTACTTTCTAAGCATGAC
ATGGTATGAACT
Found at i:38995891 original size:48 final size:48
Alignment explanation
Indices: 38995835--38995930 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
38995825 CTATTAGGAG
38995835 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
*
38995883 ATTCATGAATAATCTTTCAACAATTTAGTAGCAAGACACTTAATACAA
1 ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
38995931 GAAACATTGC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (48 bp):
ATTCATGAATAATCTTTCAACAATTCAGTAGCAAGACACTTAATACAA
Found at i:39005818 original size:22 final size:22
Alignment explanation
Indices: 39005793--39005858 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
39005783 CATACATATT
39005793 TAATTATTTATATTTAATAATA
1 TAATTATTTATATTTAATAATA
* * *
39005815 TAATAAATTATTAGTATAATTAATA
1 TAATTATTTA-TA-TTTAA-TAATA
39005840 TAATT-TATTAT-TTTAATAA
1 TAATTAT-TTATATTTAATAA
39005859 ATTATTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
21 3 0.09
22 12 0.35
23 2 0.06
24 5 0.15
25 12 0.35
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
TAATTATTTATATTTAATAATA
Found at i:39005863 original size:16 final size:19
Alignment explanation
Indices: 39005815--39005864 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
39005805 TTTAATAATA
39005815 TAATAAATTATTAGTATAAT
1 TAATAAATTATTAGTAT-AT
39005835 TAATATAATTTATTA-T-T-T
1 TAATA-AA-TTATTAGTATAT
39005853 TAATAAATTATT
1 TAATAAATTATT
39005865 CAATATTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 5 0.18
17 2 0.07
18 6 0.21
20 6 0.21
21 3 0.11
22 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TAATAAATTATTAGTATAT
Found at i:39005912 original size:15 final size:16
Alignment explanation
Indices: 39005885--39005915 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
39005875 AATTTATTTG
39005885 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
39005901 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
39005916 GTTTAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:39006083 original size:30 final size:31
Alignment explanation
Indices: 39006049--39006112 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
39006039 ATAAATTTGG
* * *
39006049 AATTTAGTCCTTATAC-TTTTATTTTTTAAA
1 AATTTAGTCCCTATACTTTTTATATTTCAAA
*
39006079 AATTTAGTCCCTCTACTTTTTATATTTCAAA
1 AATTTAGTCCCTATACTTTTTATATTTCAAA
39006110 AAT
1 AAT
39006113 CCAGGTTCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.31, C:0.14, G:0.03, T:0.52
Consensus pattern (31 bp):
AATTTAGTCCCTATACTTTTTATATTTCAAA
Found at i:39012165 original size:19 final size:20
Alignment explanation
Indices: 39012141--39012180 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
39012131 CTTATATAAC
39012141 TTAATTAA-TATTTTAAACT
1 TTAATTAATTATTTTAAACT
39012160 TTAATTAATTATTTTAAACT
1 TTAATTAATTATTTTAAACT
39012180 T
1 T
39012181 GATTAACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTAATTATTTTAAACT
Found at i:39012185 original size:19 final size:18
Alignment explanation
Indices: 39012138--39012186 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 18
39012128 TTCCTTATAT
39012138 AACTTAATTAATATTTTA
1 AACTTAATTAATATTTTA
39012156 AACTTTAATTAATTATTTTA
1 AAC-TTAATTAA-TATTTTA
*
39012176 AACTTGATTAA
1 AACTTAATTAA
39012187 CATAACACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 3 0.11
19 15 0.54
20 10 0.36
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (18 bp):
AACTTAATTAATATTTTA
Found at i:39019630 original size:32 final size:32
Alignment explanation
Indices: 39019580--39019776 Score: 197
Period size: 32 Copynumber: 6.3 Consensus size: 32
39019570 GAAAGGCTAC
* * *
39019580 AAGCCATAAGT-ATAGTAATATGATTGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
39019611 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
39019643 CAGTCATCAGTAATAGTAGTATGATCGGCATA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
39019675 AGGCCAT---TAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
39019704 CAA-CCATCAATAATGGTAATATGATTGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
39019736 TAGCCATCAGTAATGGTAATATAATCGACACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
39019768 AAGCCATCA
1 AAGCCATCA
39019777 AAAGCATCGC
Statistics
Matches: 135, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
29 23 0.17
30 1 0.01
31 11 0.08
32 100 0.74
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:39019710 original size:29 final size:30
Alignment explanation
Indices: 39019621--39019710 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 30
39019611 AAGCCATCAG
* *
39019621 TAGTAGTAATATGATCGGCACACAGTCATCAG
1 TAGTAGTAATATGATCGGCACACAG--ACCAT
* * * *
39019653 TAATAGTAGTATGATCGGCATA-AGGCCAT
1 TAGTAGTAATATGATCGGCACACAGACCAT
39019682 TAGTAGTAATATGATCGGCACACA-ACCAT
1 TAGTAGTAATATGATCGGCACACAGACCAT
39019711 CAATAATGGT
Statistics
Matches: 47, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
29 25 0.53
30 1 0.02
31 2 0.04
32 19 0.40
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGTAGTAATATGATCGGCACACAGACCAT
Found at i:39019742 original size:61 final size:60
Alignment explanation
Indices: 39019591--39019747 Score: 179
Period size: 61 Copynumber: 2.5 Consensus size: 60
39019581 AGCCATAAGT
* ** *
39019591 ATAGTAATATGATTGACACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAGTCATCAGTA
1 ATAGTAATATGATTGGCAC-AAGCCAT---TAGTAGTAATATGATCGGCACACAACCATCAATA
* * *
39019655 ATAGTAGTATGATCGGCATAAGGCCATTAGTAGTAATATGATCGGCACACAACCATCAATA
1 ATAGTAATATGATTGGCACAA-GCCATTAGTAGTAATATGATCGGCACACAACCATCAATA
* *
39019716 ATGGTAATATGATTGGCACATAGCCATCAGTA
1 ATAGTAATATGATTGGCACA-AGCCATTAGTA
39019748 ATGGTAATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
61 56 0.71
62 1 0.01
63 2 0.03
64 20 0.25
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (60 bp):
ATAGTAATATGATTGGCACAAGCCATTAGTAGTAATATGATCGGCACACAACCATCAATA
Found at i:39019774 original size:93 final size:93
Alignment explanation
Indices: 39019592--39019774 Score: 224
Period size: 93 Copynumber: 2.0 Consensus size: 93
39019582 GCCATAAGTA
* * * *
39019592 TAGTAATATGATTGACACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAGTCATCAGTAAT
1 TAGTAATATGATCGACACAAAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAAT
* * * * *
39019657 AGTAGTATGATCGGCATAAGGCCATTAG
66 AGTAATATAATCGACACAAAGCCATTAG
* * * *
39019685 TAGTAATATGATCGGCACACAA-CCATCAATAATGGTAATATGATTGGCACATAGCCATCAGTAA
1 TAGTAATATGATCGACACA-AAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAA
*
39019749 TGGTAATATAATCGACACAAAGCCAT
65 TAGTAATATAATCGACACAAAGCCAT
39019775 CAAAAGCATC
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
93 73 0.97
94 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (93 bp):
TAGTAATATGATCGACACAAAGCCATCAATAATAGTAATATGATCGGCACACAGCCATCAGTAAT
AGTAATATAATCGACACAAAGCCATTAG
Found at i:39019834 original size:26 final size:26
Alignment explanation
Indices: 39019785--39019836 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
39019775 CAAAAGCATC
*
39019785 GCAGCAAAGCAGCTAGCAACAGTATA
1 GCAGCAAAGCAGCCAGCAACAGTATA
* * *
39019811 GCAGCAAAGCTGCCAGTAATAGTATA
1 GCAGCAAAGCAGCCAGCAACAGTATA
39019837 TGTGGCCAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.15
Consensus pattern (26 bp):
GCAGCAAAGCAGCCAGCAACAGTATA
Found at i:39019990 original size:24 final size:24
Alignment explanation
Indices: 39019951--39020060 Score: 103
Period size: 24 Copynumber: 4.6 Consensus size: 24
39019941 CCATGCACGG
**
39019951 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
39019975 AATCAGCCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * * * *
39019999 AATTAGTCATTGACATCTCGGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
39020023 AATCAATCATTTACATCACAGGCA
1 AATCAGTCATTTAAATCACAGACA
* *
39020047 AATTAATCATTTAA
1 AATCAGTCATTTAA
39020061 CTCCGAGGGG
Statistics
Matches: 69, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 69 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:39020108 original size:27 final size:27
Alignment explanation
Indices: 39020078--39020430 Score: 221
Period size: 27 Copynumber: 13.5 Consensus size: 27
39020068 GGGCAAAATA
*
39020078 GTCATTTTACCATACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
39020105 GTCATTTTATCCTACAGAAGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
39020132 ATAATTTTACTCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ** *
39020159 GTTATTTTACATTAC--GGTCA-T---
1 GTCATTTTACCCTACAGGGGCATTACG
*
39020180 -T--T--TACCCTTCAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* **
39020202 GTTATTTTACCCTTTAGGGGCATTAC-
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
39020228 GACTATATTACCTTACAGGGGCATTACA
1 GTC-ATTTTACCCTACAGGGGCATTACG
* *
39020256 GTTATTTTACCCTACAGGAGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
39020283 GTCATTTTACCCTACAGGAGCGTTACA
1 GTCATTTTACCCTACAGGGGCATTACG
**
39020310 GTCATTTTACCCTACAGGGGTGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * *
39020337 GTTATTTTACCTTATAGGGGCGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* ***
39020364 GTCATTTTACCC-ATC-GAGGGTATTTTA
1 GTCATTTTACCCTA-CAG-GGGCATTACG
* * *
39020391 GTCATTTTACCCTTCAGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGCATTACG
*
39020418 ATCATTTTACCCT
1 GTCATTTTACCCT
39020431 TCGAGGGTAT
Statistics
Matches: 251, Mismatches: 58, Indels: 34
0.73 0.17 0.10
Matches are distributed among these distances:
16 5 0.02
18 5 0.02
19 1 0.00
20 1 0.00
23 1 0.00
24 1 0.00
25 5 0.02
26 3 0.01
27 227 0.90
28 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:39020171 original size:16 final size:16
Alignment explanation
Indices: 39020152--39020184 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
39020142 TCTATAGGGG
*
39020152 CATTACGGTTATTTTA
1 CATTACGGTCATTTTA
39020168 CATTACGGTCATTTTA
1 CATTACGGTCATTTTA
39020184 C
1 C
39020185 CCTTCAGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
CATTACGGTCATTTTA
Found at i:39020211 original size:70 final size:70
Alignment explanation
Indices: 39020098--39020228 Score: 181
Period size: 70 Copynumber: 1.9 Consensus size: 70
39020088 CATACAGGGG
* *
39020098 CATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACTCTATAGGGGCATTACGGTTA
1 CATTACGGTCATTTTACCCTACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACGGTTA
39020163 TTTTA
66 TTTTA
* ** ** * *
39020168 CATTACGGTCATTTTACCCTTCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTACG
1 CATTACGGTCATTTTACCCTACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACG
39020229 ACTATATTAC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
70 52 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (70 bp):
CATTACGGTCATTTTACCCTACAGAAGCATTACAATAATTTTACCCTATAGGGGCATTACGGTTA
TTTTA
Found at i:39020248 original size:97 final size:97
Alignment explanation
Indices: 39020078--39020265 Score: 236
Period size: 97 Copynumber: 1.9 Consensus size: 97
39020068 GGGCAAAATA
* *
39020078 GTCATTTTACCATACAGGGGCATTACGGTCATTTTATCCTACAGAAGCATTACAATAATTTTACT
1 GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTACAATAATATTACT
* *
39020143 CTATAGGGGCATTACGGTTATTTTACATTACG
66 CTACAGGGGCATTACAGTTATTTTACATTACG
* * * ** ** *
39020175 GTCATTTTACCCTTCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTACGACT-ATATTAC
1 GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTAC-AATAATATTAC
39020239 -CTTACAGGGGCATTACAGTTATTTTAC
65 TC-TACAGGGGCATTACAGTTATTTTAC
39020266 CCTACAGGAG
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
96 1 0.01
97 74 0.96
98 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (97 bp):
GTCATTTTACCATACAGGGGCATTACGGTCATTTTACCCTACAGAAGCATTACAATAATATTACT
CTACAGGGGCATTACAGTTATTTTACATTACG
Found at i:39020290 original size:81 final size:81
Alignment explanation
Indices: 39020168--39020375 Score: 247
Period size: 81 Copynumber: 2.6 Consensus size: 81
39020158 GGTTATTTTA
* * * ** *
39020168 CATTACGGTCATTTTACCCTTCAGGGGCATTACGGTTATTTTACCCTTTAGGGGCATTACGACT-
1 CATTACGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTAC-ACTC
*
39020232 ATATTACCTTACAGGGG
65 ATATTACCCTACAGGGG
* * * *
39020249 CATTACAGTTATTTTACCCTACAGGAGCATTACGGTCATTTTACCCTACAGGAGCGTTACAGTCA
1 CATTACGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACACTCA
*
39020314 TTTTACCCTACAGGGG
66 TATTACCCTACAGGGG
** * * *
39020330 TGTTACGGTTATTTTACCTTATAGGGGCGTTACGGTCATTTTACCC
1 CATTACGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCC
39020376 ATCGAGGGTA
Statistics
Matches: 107, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
80 2 0.02
81 105 0.98
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (81 bp):
CATTACGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACACTCA
TATTACCCTACAGGGG
Found at i:39020452 original size:81 final size:81
Alignment explanation
Indices: 39020308--39020480 Score: 195
Period size: 81 Copynumber: 2.1 Consensus size: 81
39020298 AGGAGCGTTA
* * * * * *
39020308 CAGTCATTTTACCCTACAGGGGTGTTACGGTTATTTTACCTTATAGGGGCGTTACGGTCATTTTA
1 CAGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCTTAGAGGGGAGTTACGGTAATTTTA
*
39020373 CCCATCGAGGGTATTT
66 CCCATCGAGGCTATTT
* * * * * *
39020389 TAGTCATTTTACCCTTCAGGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTA-GGTAATTTT
1 CAGTCATTTTACCCTACAGGGGTATTACGATCATTTTA-CCTTAGAGGGGAGTTACGGTAATTTT
*
39020453 ACCCTTCGAGGCTATTT
65 ACCCATCGAGGCTATTT
*
39020470 CAGTAATTTTA
1 CAGTCATTTTA
39020481 TAGCCTTTTC
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 64 0.85
82 11 0.15
ACGTcount: A:0.21, C:0.19, G:0.20, T:0.40
Consensus pattern (81 bp):
CAGTCATTTTACCCTACAGGGGTATTACGATCATTTTACCTTAGAGGGGAGTTACGGTAATTTTA
CCCATCGAGGCTATTT
Found at i:39020469 original size:54 final size:54
Alignment explanation
Indices: 39020365--39020470 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
39020355 GGCGTTACGG
* *
39020365 TCATTTTACCCATCGAGGGTATTTTAGTCATTTTACCCTTCAGGGGTATTTCGA
1 TCATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCTTCAGGGCTATTTCGA
*
39020419 TCATTTTACCCTTCGAGGGTA-TTTAGGTAATTTTACCCTTC-GAGGCTATTTC
1 TCATTTTACCCATCGAGGGTATTTTA-GTAATTTTACCCTTCAG-GGCTATTTC
39020471 AGTAATTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
53 5 0.11
54 42 0.89
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (54 bp):
TCATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCTTCAGGGCTATTTCGA
Found at i:39020475 original size:27 final size:27
Alignment explanation
Indices: 39020367--39020480 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 27
39020357 CGTTACGGTC
* * *
39020367 ATTTTACCCATCGAGGGTATTTTAGTC
1 ATTTTACCCTTCGAGGGTATTTCAGTA
*
39020394 ATTTTACCCTTC-AGGGGTATTTC-GATC
1 ATTTTACCCTTCGA-GGGTATTTCAG-TA
39020421 ATTTTACCCTTCGAGGGTATTT-AGGTA
1 ATTTTACCCTTCGAGGGTATTTCA-GTA
*
39020448 ATTTTACCCTTCGAGGCTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTA
39020475 ATTTTA
1 ATTTTA
39020481 TAGCCTTTTC
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
26 2 0.03
27 72 0.94
28 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCAGTA
Found at i:39027277 original size:25 final size:25
Alignment explanation
Indices: 39027249--39027299 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 25
39027239 CCTTCGTGGC
39027249 GAATTCTTTGTAAA-TCCTTTATGGT
1 GAATTCTTTGTAAAGT-CTTTATGGT
39027274 GAATTCTTTGTAAAGTCTTTATGGT
1 GAATTCTTTGTAAAGTCTTTATGGT
39027299 G
1 G
39027300 TATTATCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.47
Consensus pattern (25 bp):
GAATTCTTTGTAAAGTCTTTATGGT
Found at i:39027370 original size:25 final size:25
Alignment explanation
Indices: 39027300--39027387 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
39027290 CTTTATGGTG
* *
39027300 TATTATCTAGG-AAGCCTTTGTTGCA
1 TATTATCT-GGAAAGCCCTTGTAGCA
* * * * *
39027325 TGTAATCTGGAAAGTCTTTGTGGCA
1 TATTATCTGGAAAGCCCTTGTAGCA
*
39027350 TATTA-CTTGGAAAGCCCTTGTAGCG
1 TATTATC-TGGAAAGCCCTTGTAGCA
39027375 TATTATCTGGAAA
1 TATTATCTGGAAA
39027388 ATGTGTAGAG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
24 3 0.06
25 46 0.92
26 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (25 bp):
TATTATCTGGAAAGCCCTTGTAGCA
Found at i:39035251 original size:19 final size:20
Alignment explanation
Indices: 39035227--39035265 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39035217 TTATATTCCG
*
39035227 TAATTAA-TATTTTAAACTT
1 TAATTAATTACTTTAAACTT
39035246 TAATTAATTACTTTAAACTT
1 TAATTAATTACTTTAAACTT
39035266 GATTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATTAATTACTTTAAACTT
Found at i:39036953 original size:24 final size:25
Alignment explanation
Indices: 39036926--39036972 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
39036916 GTAAATAAAA
39036926 AAAATATCTCTA-AAAATTTTCTGG
1 AAAATATCTCTAGAAAATTTTCTGG
* * *
39036950 AAAATCTCTTTAGAGAATTTTCT
1 AAAATATCTCTAGAAAATTTTCT
39036973 CTCTACAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (25 bp):
AAAATATCTCTAGAAAATTTTCTGG
Found at i:39037152 original size:59 final size:62
Alignment explanation
Indices: 39037080--39037197 Score: 152
Period size: 62 Copynumber: 2.0 Consensus size: 62
39037070 AATCACTTTA
* * * *
39037080 ATATTAAATTAATATAAT-ATT-TAT-CAAGAGAAATATTAGATTAAATTTAATACTAAATC
1 ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAAATC
* * *
39037139 ATATTAAAATAATAGAATGCTTATCTACAAGATAAACATTAAATTAAATTTAATACTAA
1 ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAA
39037198 GATAATAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 16 0.33
60 2 0.04
61 2 0.04
62 29 0.59
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.36
Consensus pattern (62 bp):
ATATTAAAATAATAGAATGATTATATACAAGAGAAACATTAAATTAAATTTAATACTAAATC
Found at i:39037223 original size:20 final size:19
Alignment explanation
Indices: 39037176--39037236 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 19
39037166 CAAGATAAAC
39037176 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
*
39037193 ACTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
**
39037213 ATTAAATTAATAAAATAAT
1 ATTAAATTAATAATTTAAT
39037232 ATTAA
1 ATTAA
39037237 GATAAGTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.14
18 2 0.06
19 12 0.34
20 16 0.46
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:39041845 original size:15 final size:15
Alignment explanation
Indices: 39041825--39041862 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
39041815 AGGATTTGGT
39041825 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
39041840 TTGTTTATTTTATTA
1 TTGTTTATTTTATTA
*
39041855 TTATTTAT
1 TTGTTTAT
39041863 CATTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTGTTTATTTTATTA
Found at i:39041882 original size:13 final size:13
Alignment explanation
Indices: 39041864--39041889 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39041854 ATTATTTATC
39041864 ATTTAAATATATA
1 ATTTAAATATATA
39041877 ATTTAAATATATA
1 ATTTAAATATATA
39041890 TAAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTTAAATATATA
Found at i:39041890 original size:15 final size:15
Alignment explanation
Indices: 39041870--39041901 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
39041860 TATCATTTAA
*
39041870 ATATATAATTTAAAT
1 ATATATAAATTAAAT
39041885 ATATATAAATTAAAT
1 ATATATAAATTAAAT
39041900 AT
1 AT
39041902 TTTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATATATAAATTAAAT
Found at i:39041911 original size:11 final size:11
Alignment explanation
Indices: 39041897--39041923 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
39041887 ATATAAATTA
39041897 AATATTTTAAT
1 AATATTTTAAT
39041908 AATATTTTAAT
1 AATATTTTAAT
39041919 AATAT
1 AATAT
39041924 AGAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATTTTAAT
Found at i:39045909 original size:10 final size:10
Alignment explanation
Indices: 39045882--39045937 Score: 55
Period size: 10 Copynumber: 5.8 Consensus size: 10
39045872 TTGTAAAATT
39045882 TTATAAAAAA
1 TTATAAAAAA
*
39045892 ATAGTAAAAAA
1 TTA-TAAAAAA
*
39045903 TTATAAAATA
1 TTATAAAAAA
*
39045913 -TAT-AGAAA
1 TTATAAAAAA
39045921 -TATAAAAAA
1 TTATAAAAAA
39045930 TTATAAAA
1 TTATAAAA
39045938 TTTTATAAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
8 6 0.16
9 7 0.19
10 15 0.41
11 9 0.24
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:39046204 original size:28 final size:26
Alignment explanation
Indices: 39046147--39046204 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
39046137 TATTAATTTT
* * *
39046147 TTTTTATGATTTTTATAAAATTTTAT
1 TTTTTACGATTTTTATAAAATTCTAA
39046173 TTTTTACGATTTTTATAAAAAATTCTAA
1 TTTTTACGATTTTTAT--AAAATTCTAA
39046201 TTTT
1 TTTT
39046205 AAATAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 15 0.56
28 12 0.44
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (26 bp):
TTTTTACGATTTTTATAAAATTCTAA
Found at i:39046244 original size:18 final size:20
Alignment explanation
Indices: 39046223--39046264 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
39046213 TTTAAATTCT
39046223 TTTATAT-A-TTTATTAAAA
1 TTTATATAATTTTATTAAAA
*
39046241 TTTA-ATAATTTTTTTAAAA
1 TTTATATAATTTTATTAAAA
39046260 TTTAT
1 TTTAT
39046265 GAATTCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 2 0.10
18 5 0.25
19 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTATATAATTTTATTAAAA
Found at i:39046796 original size:21 final size:21
Alignment explanation
Indices: 39046772--39046819 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
39046762 TTTCGAATCG
*
39046772 AGTTGAGTAAAACGAAATTCA
1 AGTTAAGTAAAACGAAATTCA
* * *
39046793 AGTTAAGTGAAATGAAATTTA
1 AGTTAAGTAAAACGAAATTCA
39046814 AGTTAA
1 AGTTAA
39046820 ATCAAATCGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (21 bp):
AGTTAAGTAAAACGAAATTCA
Found at i:39046826 original size:21 final size:21
Alignment explanation
Indices: 39046785--39046826 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39046775 TGAGTAAAAC
* *
39046785 GAAATTCAAGTTAAGTGAAAT
1 GAAATTCAAGTTAAATCAAAT
*
39046806 GAAATTTAAGTTAAATCAAAT
1 GAAATTCAAGTTAAATCAAAT
39046827 CGAGTGACAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.31
Consensus pattern (21 bp):
GAAATTCAAGTTAAATCAAAT
Found at i:39050517 original size:18 final size:18
Alignment explanation
Indices: 39050481--39050519 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39050471 GACTTTTGAC
*
39050481 AGACATAATCCCTAGTCT
1 AGACATAATCCATAGTCT
39050499 AGACATAATCACATA-TCT
1 AGACATAATC-CATAGTCT
39050517 AGA
1 AGA
39050520 GATATACTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.41, C:0.23, G:0.10, T:0.26
Consensus pattern (18 bp):
AGACATAATCCATAGTCT
Found at i:39054932 original size:263 final size:261
Alignment explanation
Indices: 39054467--39054988 Score: 830
Period size: 263 Copynumber: 2.0 Consensus size: 261
39054457 ACTTAGTCCG
* *
39054467 CCGAGTACTCTCTAAGAGGAGGTTAGTGGCACCAATGAGTCTCTTAAATAATATGCTCTAAGAGT
1 CCGAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
* * *
39054532 TTATATAAGGTGGGCTCGCACAATCCAGAAGATATATAAGGAAAATCTCCTGACATTATTTGTTA
66 TTATATAAGATGGGCTCGCACAATCCAGAAGATATATAAGGAAAATCTACTGACAGTATTTGTTA
* * * *
39054597 ACCCATTGCATCCTATGATTGGCGACACTTATCCAGACATCTCATATAGTTCCCTCACATCAAAT
131 ACCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCAAAT
* * * *
39054662 CCAATAATGTTCCTAGCTAACATTCACCACTCTACCCTTTGCACCTATGAAGTAGAGTGCTTGAC
196 CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTTGAC
39054727 A
261 A
*
39054728 CCGAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTCAATAATATGCTCCAAGAGT
1 CCGAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
* * *
39054793 TTATATAAGATGGGCTTGCACAATCCCTAGAAGATATATAAGGAAGATCTATTGATC-GTATTTG
66 TTATATAAGATGGGCTCGCACAAT-CC-AGAAGATATATAAGGAAAATCTACTGA-CAGTATTTG
*
39054857 TTAATCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCA
128 TTAACCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCA
* *
39054922 ACTCCAATAATGGTCCTAGCTAAAATTCACCACTTTACCCTCTACACCTATGAAGTAGAGTGCTT
193 AATCCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTT
39054987 GA
258 GA
39054989 TGGTTAGGGT
Statistics
Matches: 238, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
261 84 0.35
262 2 0.01
263 151 0.63
264 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (261 bp):
CCGAGTACTCTCTAAGAGGAGGTCAGTGGCACCAATGAGTCTCTTAAATAATATGCTCCAAGAGT
TTATATAAGATGGGCTCGCACAATCCAGAAGATATATAAGGAAAATCTACTGACAGTATTTGTTA
ACCCATTGCATCCTAGGATTGGCGACACCTATCCAAACATCTCACATAGTTCCCTCACATCAAAT
CCAATAATGGTCCTAGCTAAAATTCACCACTCTACCCTCTACACCTATGAAGTAGAGTGCTTGAC
A
Found at i:39070628 original size:97 final size:97
Alignment explanation
Indices: 39070462--39070649 Score: 340
Period size: 97 Copynumber: 1.9 Consensus size: 97
39070452 AGGAATTATT
*
39070462 TGTATATGTGAAATTAAAATTTTAGGCTCCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
39070527 GACATTACGTCTAGCACGCTTGATGTTTCACC
66 GACATTACGTCTAGCACGCTTGATGTTTCACC
* *
39070559 TGTATATATGAAATTAAAATTTTAGGCTTCGAGCCTAACATGTTTATTAACAGTGAAGTAATCCA
1 TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
*
39070624 GACATTACGTCTAGCAGGCTTGATGT
66 GACATTACGTCTAGCACGCTTGATGT
39070650 CGTTGAAACA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
97 87 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (97 bp):
TGTATATATGAAATTAAAATTTTAGGCTCCGAGCCTAACAGGTTTATTAACAGTGAAGTAATCCA
GACATTACGTCTAGCACGCTTGATGTTTCACC
Found at i:39070678 original size:41 final size:41
Alignment explanation
Indices: 39070621--39070844 Score: 358
Period size: 41 Copynumber: 5.5 Consensus size: 41
39070611 GTGAAGTAAT
* *
39070621 CCAGACATTACGTCTAGCAGGCTTGATGTCGTTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
39070662 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
39070703 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
39070744 CCAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
39070785 CCAAACTTTACGTCTAGTAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * *
39070826 TCAGACTTTATGTCTAGCA
1 CCAGACATTACGTCTAGCA
39070845 AGCTATGTGT
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 172 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.25
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:39070876 original size:123 final size:123
Alignment explanation
Indices: 39070622--39070876 Score: 332
Period size: 123 Copynumber: 2.1 Consensus size: 123
39070612 TGAAGTAATC
* * * * *
39070622 CAGACATTACGTCTAGCAGGCTTGATGTCGTTGAAACATACCAGACATTACGTCTAGCAGGCTTG
1 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCTTG
* * * *
39070687 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATAC
66 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGATGCCGGTCAAACAAAA
* *
39070745 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAAACTTTACGTCTAGTAGGCTTG
1 CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCTTG
* * * * * *
39070810 ATGCCGGTGAAACATATCAGACTTTATGTCTAGCAAGCTATG-TGTCGGTCTACCAAAA
66 ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCT-TGATGCCGGTCAAACAAAA
*
39070868 CAGGCTTTA
1 CAGACTTTA
39070877 AGCCTAGTAG
Statistics
Matches: 113, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
123 111 0.98
124 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (123 bp):
CAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAACATACCAAACATTACGTCTAGCAGGCTTG
ATGCCGGTGAAACATACCAGACATTACGTCTAGCAAGCTTGATGCCGGTCAAACAAAA
Found at i:39070884 original size:82 final size:82
Alignment explanation
Indices: 39070634--39070889 Score: 271
Period size: 82 Copynumber: 3.1 Consensus size: 82
39070624 GACATTACGT
* * * * * *
39070634 CTAGCAGGCTTGATGTCGTTGAAACATACCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAA
* * * * * *
39070699 CATACCAGACATTACGT
66 CAAAACAAACTTTAAGC
* *
39070716 CTAGCAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTGAAA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAA
* * * *
39070781 CATACCAAACTTTACGT
66 CAAAACAAACTTTAAGC
* * * *
39070798 CTAGTAGGCTTGATGCCGGTGAAACATATCAGACTTTATGTCTAGCAAGCTATG-TGTCGGTCTA
1 CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCT-TGATGCCGGTCAA
* **
39070862 CCAAAACAGGCTTTAAGC
65 ACAAAACAAACTTTAAGC
39070880 CTAGTAGGCT
1 CTAGTAGGCT
39070890 AAGTGCCGGT
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
82 152 0.99
83 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (82 bp):
CTAGTAGGCTTGATGCCGGTGAAACATACCAGACTTTACGTCTAGCAAGCTTGATGCCGGTCAAA
CAAAACAAACTTTAAGC
Found at i:39078897 original size:41 final size:41
Alignment explanation
Indices: 39078862--39079048 Score: 275
Period size: 41 Copynumber: 4.6 Consensus size: 41
39078852 GTGAAGTAAT
39078862 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
39078903 CCAGACATTACGTCTAGTAGGCTTGATGCTGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
39078944 CCAGACTTTACGTCTTGCAGGCTTGATGCCGGTGAAACATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* *
39078985 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAATATA
1 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
39079026 TCATACTTTATGTCTAGGAGGCT
1 CCAGACATTACGTCTAGCAGGCT
39079049 AAGTGCCGGT
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 131 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (41 bp):
CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:39079058 original size:41 final size:41
Alignment explanation
Indices: 39079013--39079101 Score: 97
Period size: 41 Copynumber: 2.2 Consensus size: 41
39079003 AGGCTTGATA
* * * * * *
39079013 CCGGTGAAATATATCATACTTTATGTCTAGGAGGCTAAGTG
1 CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
* * *
39079054 CCGGTGTACTAAAACAAATTTTAAGCCTAGCAGGCTAAGTG
1 CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
39079095 CCGGTGA
1 CCGGTGA
39079102 TATTGTTTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (41 bp):
CCGGTGAAATAAAACAAACTTTAAGCCTAGCAGGCTAAGTG
Found at i:39079087 original size:123 final size:123
Alignment explanation
Indices: 39078862--39079089 Score: 271
Period size: 123 Copynumber: 1.9 Consensus size: 123
39078852 GTGAAGTAAT
* * *
39078862 CCAGACATTACGTCTAGCAGGCTTGATGCCGGTGAAACATACCAGACATTACGTCTAGTAGGCTT
1 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* * * * * * *
39078927 GATGCTGGTGAAACATACCAGACTTTACGTCTTGCAGGCTTGATGCCGGTGAAACATA
66 GATGCCGGTGAAACAAAACAAACTTTAAGCCTAGCAGGCTTGATGCCGGTGAAACATA
* * * * *
39078985 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAATATATCATACTTTATGTCTAGGAGGCTA
1 CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
* *
39079050 -AGTGCCGGTG-TACTAAAACAAATTTTAAGCCTAGCAGGCT
66 GA-TGCCGGTGAAAC-AAAACAAACTTTAAGCCTAGCAGGCT
39079090 AAGTGCCGGT
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
122 3 0.03
123 83 0.97
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.26
Consensus pattern (123 bp):
CCAGACATTACGTCTAGCAGGCTTGATACCGGTGAAACATACCAGACATTACGTCTAGGAGGCTA
GATGCCGGTGAAACAAAACAAACTTTAAGCCTAGCAGGCTTGATGCCGGTGAAACATA
Found at i:39083937 original size:37 final size:37
Alignment explanation
Indices: 39083881--39084013 Score: 144
Period size: 37 Copynumber: 3.6 Consensus size: 37
39083871 TAGGACATAG
*
39083881 GTTTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAA
1 GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
* * * * *
39083918 GTTTAGCTCAGACGGGTAACCTGAT-ATGTGTTAATA
1 GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
* *
39083954 TTATTAGCTC-GAACAAGTAACCTAATGTTGTTTTAAAA
1 GT-TTAGCTCAG-ACGAGTAACCTAATGTTGTTTTAAAA
* *
39083992 GTTTAGCTCGGATGAGTAACCT
1 GTTTAGCTCAGACGAGTAACCT
39084014 GATATGTGTT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
36 10 0.13
37 56 0.74
38 10 0.13
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (37 bp):
GTTTAGCTCAGACGAGTAACCTAATGTTGTTTTAAAA
Found at i:39084011 original size:74 final size:74
Alignment explanation
Indices: 39083883--39084040 Score: 253
Period size: 74 Copynumber: 2.1 Consensus size: 74
39083873 GGACATAGGT
* * *
39083883 TTAGCTCAAACGAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGGGTAACCTGATATGTG
1 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
39083948 TTAATATTA
66 TTAATATTA
* *
39083957 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCGGATGAGTAACCTGATATGTG
1 TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
*
39084022 TTTATATTA
66 TTAATATTA
*
39084031 TTAGATCGAA
1 TTAGCTCGAA
39084041 TAAGCAATTG
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (74 bp):
TTAGCTCGAACAAGTAACCTAATGTTGTTTTAAAAGTTTAGCTCAGACGAGTAACCTGATATGTG
TTAATATTA
Found at i:39091833 original size:19 final size:19
Alignment explanation
Indices: 39091795--39091833 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
39091785 AAATAGTGAG
*
39091795 AATTTATTTTCTGAGTATA
1 AATTTATTTTCTGAGAATA
39091814 AATTCTATTTTCTG-GAATA
1 AATT-TATTTTCTGAGAATA
39091833 A
1 A
39091834 CAATTCTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (19 bp):
AATTTATTTTCTGAGAATA
Found at i:39098641 original size:6 final size:6
Alignment explanation
Indices: 39098623--39098651 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
39098613 AGAAAAACTT
39098623 TCTTTC T-TTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
39098652 ATGTTAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (6 bp):
TCTTTC
Found at i:39104983 original size:17 final size:17
Alignment explanation
Indices: 39104961--39104993 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
39104951 CACTAACATG
*
39104961 AAAATGTAATGACAATA
1 AAAATGCAATGACAATA
39104978 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
39104994 GTGTCCTTAT
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:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:39105451 original size:18 final size:18
Alignment explanation
Indices: 39105419--39105457 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
39105409 CATTTTTATT
** *
39105419 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
39105437 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
39105455 TTC
1 TTC
39105458 TGCAGTAGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:39116886 original size:27 final size:28
Alignment explanation
Indices: 39116842--39116895 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
39116832 CTTGGAGTCA
** *
39116842 GTAGTCCACCGGGATAG-TAAACAAGGG
1 GTAGTCCACAAGGATAGTTAAAAAAGGG
*
39116869 GTAGTCCACAAGGTTAGTTAAAAAAGG
1 GTAGTCCACAAGGATAGTTAAAAAAGG
39116896 AAAATCACCG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.37, C:0.15, G:0.30, T:0.19
Consensus pattern (28 bp):
GTAGTCCACAAGGATAGTTAAAAAAGGG
Found at i:39117568 original size:20 final size:18
Alignment explanation
Indices: 39117543--39117581 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
39117533 TTACATGATT
*
39117543 TTCATGTATATTTATATTAA
1 TTCATGT-TAATT-TATTAA
39117563 TTCATGTTAATTTATTAA
1 TTCATGTTAATTTATTAA
39117581 T
1 T
39117582 GTTTGTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
TTCATGTTAATTTATTAA
Found at i:39124934 original size:70 final size:70
Alignment explanation
Indices: 39124821--39124962 Score: 248
Period size: 70 Copynumber: 2.0 Consensus size: 70
39124811 GTAGGTACCA
* * *
39124821 AAGTTATAGTATTTACCGATCATGCTGCCATTAAGTGCTTACTCACGAAGAAAGATGCTAAACTG
1 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
39124886 AGGCT
66 AGGCT
*
39124891 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCATGAAGAAAGATGCTAAACCG
1 AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
39124956 AGGCT
66 AGGCT
39124961 AA
1 AA
39124963 TTCAATGGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (70 bp):
AAGTTATAGTATTTACCGATCATGCTACCATTAAGTACTTACTCACGAAGAAAGATGCTAAACCG
AGGCT
Found at i:39126562 original size:19 final size:19
Alignment explanation
Indices: 39126531--39126573 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
39126521 AAAAAAATTT
* *
39126531 ATTTTTAGTTTTATTTTTC
1 ATTTTTAGTTTTATCTTTA
39126550 ATTTTTA-TCTTTATCTTTA
1 ATTTTTAGT-TTTATCTTTA
39126569 ATTTT
1 ATTTT
39126574 AATTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.72
Consensus pattern (19 bp):
ATTTTTAGTTTTATCTTTA
Found at i:39126581 original size:11 final size:11
Alignment explanation
Indices: 39126565--39126602 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
39126555 TATCTTTATC
39126565 TTTAATTTTAA
1 TTTAATTTTAA
39126576 TTTAATTTTAA
1 TTTAATTTTAA
39126587 TCTTTAATTTTAA
1 --TTTAATTTTAA
39126600 TTT
1 TTT
39126603 GTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 14 0.56
13 11 0.44
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:39126586 original size:6 final size:6
Alignment explanation
Indices: 39126528--39126602 Score: 64
Period size: 6 Copynumber: 12.3 Consensus size: 6
39126518 TTTAAAAAAA
* * * * *
39126528 TTTATT TTTAGT TTTATT TTTCAT TTTTAT CTTT-AT CTTTAAT TTTAA-
1 TTTAAT TTTAAT TTTAAT TTTAAT TTTAAT -TTTAAT -TTTAAT TTTAAT
39126576 TTTAAT TTTAAT CTTTAAT TTTAAT TT
1 TTTAAT TTTAAT -TTTAAT TTTAAT TT
39126603 GTTTATGTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
5 5 0.08
6 44 0.73
7 11 0.18
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.69
Consensus pattern (6 bp):
TTTAAT
Found at i:39126594 original size:13 final size:13
Alignment explanation
Indices: 39126562--39126600 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
39126552 TTTTATCTTT
39126562 ATCTTTAATTTTA
1 ATCTTTAATTTTA
39126575 A--TTTAATTTTA
1 ATCTTTAATTTTA
39126586 ATCTTTAATTTTA
1 ATCTTTAATTTTA
39126599 AT
1 AT
39126601 TTGTTTATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
13 13 0.54
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (13 bp):
ATCTTTAATTTTA
Found at i:39129766 original size:50 final size:50
Alignment explanation
Indices: 39129694--39129859 Score: 224
Period size: 50 Copynumber: 3.3 Consensus size: 50
39129684 GGGAATGAGA
* *
39129694 TCCCATGTAAGACCATGCCTGGGACATGGTGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
* **
39129744 TCCCATGTAAGACCATTTCTGGGACATGGCGTTGGCACTAAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
** * * * **
39129794 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
39129844 TCCCATGTAAGACCAT
1 TCCCATGTAAGACCAT
39129860 ATCCGGGGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 99 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:39130146 original size:12 final size:12
Alignment explanation
Indices: 39130129--39130167 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
39130119 ATGAGTTATT
39130129 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
39130141 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
39130153 TAAGTGAGTAAG
1 TAAGTAAGCAAG
39130165 TAA
1 TAA
39130168 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:39137275 original size:25 final size:25
Alignment explanation
Indices: 39137246--39137360 Score: 135
Period size: 25 Copynumber: 4.6 Consensus size: 25
39137236 TTCGCCATAC
39137246 AGGCTTTCCAGATAACATG-CTACAA
1 AGGCTTTCCAGATAACATGTC-ACAA
*
39137271 AGGCTTTCTAGATAACATG-CGACAA
1 AGGCTTTCCAGATAACATGTC-ACAA
*
39137296 AGGCTATCCAGATAACATGTCACAA
1 AGGCTTTCCAGATAACATGTCACAA
* * *
39137321 AGGTTTTCCGGATAATATGTCACAA
1 AGGCTTTCCAGATAACATGTCACAA
* *
39137346 ACGCTTTCCAAATAA
1 AGGCTTTCCAGATAA
39137361 TATGAGATAA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
25 76 0.99
26 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.25
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGTCACAA
Found at i:39137361 original size:25 final size:25
Alignment explanation
Indices: 39137246--39137377 Score: 133
Period size: 25 Copynumber: 5.3 Consensus size: 25
39137236 TTCGCCATAC
*
39137246 AGGCTTTCCAGATAACATGCTACAA
1 AGGCTTTCCAGATAACATGCGACAA
*
39137271 AGGCTTTCTAGATAACATGCGACAA
1 AGGCTTTCCAGATAACATGCGACAA
*
39137296 AGGCTATCCAGATAACATGTC-ACAA
1 AGGCTTTCCAGATAACATG-CGACAA
* * *
39137321 AGGTTTTCCGGATAATATGTC-ACAA
1 AGGCTTTCCAGATAACATG-CGACAA
* * * * *
39137346 ACGCTTTCCAAATAATATGAGATAA
1 AGGCTTTCCAGATAACATGCGACAA
39137371 AGGCTTT
1 AGGCTTT
39137378 TTAGTTACCA
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
25 89 0.99
26 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (25 bp):
AGGCTTTCCAGATAACATGCGACAA
Done.