Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 85 of 203
Found at i:26930803 original size:26 final size:26
Alignment explanation
Indices: 26930742--26930821 Score: 70
Period size: 26 Copynumber: 3.1 Consensus size: 26
26930732 GCCAACACAC
* * *
26930742 CAATATCGCAGCAGAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTACCAGTAA
* **
26930768 TAATGGCGCAGCAAAGCTACCAGTAA
1 CAATAACGCAGCAAAGCTACCAGTAA
* * * *
26930794 CAATAACGCATCAAGGCTTCCAATAA
1 CAATAACGCAGCAAAGCTACCAGTAA
26930820 CA
1 CA
26930822 GTATATGTGG
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTACCAGTAA
Found at i:26931171 original size:79 final size:79
Alignment explanation
Indices: 26931037--26931210 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 79
26931027 TAATTTTAGT
* * ***
26931037 TATTTCGATAATTTTAC-CTTTCGAGGGTATTTCAATAATTTTACCCTTTGGGGGTATTTCAGTG
1 TATTTCGATAA-TTTACTCTTT-AAGAG-ATTTCAATAATTTTACCCTTCAAGGGTATTTC-GTG
*
26931101 AA-TTTATCCATCAAGGG
62 AATTTTACCCATCAAGGG
* * *
26931118 TATTTTGGTAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTTAATT
1 TATTTCGATAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTGAATT
*
26931183 TTACCCATCGAGGG
66 TTACCCATCAAGGG
26931197 TATTTCGATAATTT
1 TATTTCGATAATTT
26931211 TACCCATCGA
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
78 4 0.05
79 54 0.68
80 8 0.10
81 13 0.16
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (79 bp):
TATTTCGATAATTTACTCTTTAAGAGATTTCAATAATTTTACCCTTCAAGGGTATTTCGTGAATT
TTACCCATCAAGGG
Found at i:26931215 original size:27 final size:27
Alignment explanation
Indices: 26931037--26931221 Score: 162
Period size: 27 Copynumber: 6.9 Consensus size: 27
26931027 TAATTTTAGT
*
26931037 TATTTCGATAATTTTACCTTTCGAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* * *
26931064 TATTTCAATAATTTTACCCTTTGGGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* * *
26931091 TATTTC-AGTGAA-TTTATCCATCAAGGG
1 TATTTCGA-T-AATTTTACCCTTCGAGGG
* * * ** *
26931118 TATTTTGGTAA-TTTACTCTTTAAGAG
1 TATTTCGATAATTTTACCCTTCGAGGG
* *
26931144 -ATTTCAATAATTTTACCCTTCAAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
* *
26931170 TATTTCGTTAATTTTACCCATCGAGGG
1 TATTTCGATAATTTTACCCTTCGAGGG
*
26931197 TATTTCGATAATTTTACCCATCGAG
1 TATTTCGATAATTTTACCCTTCGAG
26931222 TCGCAAGTTG
Statistics
Matches: 126, Mismatches: 27, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.06
26 25 0.20
27 92 0.73
28 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (27 bp):
TATTTCGATAATTTTACCCTTCGAGGG
Found at i:26932075 original size:17 final size:19
Alignment explanation
Indices: 26932039--26932078 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
26932029 AATCTGCAAT
*
26932039 AAGAGAAGAAGAAACCGAA
1 AAGAGAAGAAGAAACAGAA
26932058 AAGA-AAGAAGAAA-AGAA
1 AAGAGAAGAAGAAACAGAA
26932075 AAGA
1 AAGA
26932079 TGAGGGAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.70, C:0.05, G:0.25, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAACAGAA
Found at i:26936061 original size:15 final size:15
Alignment explanation
Indices: 26936041--26936069 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
26936031 TATTTTTTAA
26936041 ATTATTTTTATTTTC
1 ATTATTTTTATTTTC
26936056 ATTATTTTTATTTT
1 ATTATTTTTATTTT
26936070 TTTAGATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTATTTTTATTTTC
Found at i:26939379 original size:13 final size:12
Alignment explanation
Indices: 26939354--26939383 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
26939344 AAATCCATTT
26939354 TTATTTTTTTAA
1 TTATTTTTTTAA
26939366 TTATTTTATTTAA
1 TTATTTT-TTTAA
26939379 TTATT
1 TTATT
26939384 CAATACACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTATTTTTTTAA
Found at i:26952093 original size:23 final size:24
Alignment explanation
Indices: 26952043--26952091 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
26952033 TACTTATCAA
*
26952043 TTTGTTTGGATTTAATTCATTACT
1 TTTGTTTGGATTGAATTCATTACT
*
26952067 TTTGTTT-GATTGAA-TCTTTACT
1 TTTGTTTGGATTGAATTCATTACT
26952089 TTT
1 TTT
26952092 TGAATGACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 10 0.43
23 6 0.26
24 7 0.30
ACGTcount: A:0.18, C:0.08, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTGTTTGGATTGAATTCATTACT
Found at i:26952795 original size:19 final size:19
Alignment explanation
Indices: 26952771--26952824 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
26952761 ATATTCCTTT
26952771 TTCCCTTCCCAATCCCTAA
1 TTCCCTTCCCAATCCCTAA
* * * *
26952790 TTCCCTTTCCGATCTCTAT
1 TTCCCTTCCCAATCCCTAA
26952809 TTCCCCTTCCCTAATC
1 TT-CCCTTCCC-AATC
26952825 TTTAATGACT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 17 0.63
20 7 0.26
21 3 0.11
ACGTcount: A:0.15, C:0.44, G:0.02, T:0.39
Consensus pattern (19 bp):
TTCCCTTCCCAATCCCTAA
Found at i:26953943 original size:17 final size:17
Alignment explanation
Indices: 26953921--26953958 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
26953911 AATTTTCAAG
26953921 AATTCTAAAAAATTAAA
1 AATTCTAAAAAATTAAA
**
26953938 AATTCTTTAAAATTAAA
1 AATTCTAAAAAATTAAA
26953955 AATT
1 AATT
26953959 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (17 bp):
AATTCTAAAAAATTAAA
Found at i:26958370 original size:41 final size:41
Alignment explanation
Indices: 26958313--26958546 Score: 360
Period size: 41 Copynumber: 5.7 Consensus size: 41
26958303 CAAGCTTAGT
*
26958313 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
** * *
26958354 GCCTAGCAGGCTAAGTGCTAGTGAACTGAATCAGGTTAAAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
26958395 GCCTAGCAGGCTAAGTGCCGATGATCTGAATCAGGCTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
26958436 GCCTAGCAGGCTAAGTGCCGGTGAACTGAATCATGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
* *
26958477 GCCTAGCAGGCTAAGTGCCAGTGATCTGAATTAGGTTATAA
1 GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
26958518 GCCTAGCAGGCTAAGTGCCGGTGAATCTG
1 GCCTAGCAGGCTAAGTGCCGGTG-ATCTG
26958547 TTTAAATTAA
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 167 0.97
42 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (41 bp):
GCCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
Found at i:26958755 original size:34 final size:34
Alignment explanation
Indices: 26958717--26958830 Score: 86
Period size: 34 Copynumber: 3.3 Consensus size: 34
26958707 GTTGGATATA
* * *
26958717 TATATGTATGCATTCGACATATGTGGATT-ATAAG
1 TATATATATGCATTCGACACATGTAG-TTGATAAG
* *
26958751 TATATATGTGCATTCGTCACATGTAGTTGATAAG
1 TATATATATGCATTCGACACATGTAGTTGATAAG
* * * * * *
26958785 TATAAATATATGCTTTTGGCATATGTATTTGAAAAG
1 TAT--ATATATGCATTCGACACATGTAGTTGATAAG
26958821 TTATATATAT
1 -TATATATAT
26958831 AAATGCATTC
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
33 2 0.03
34 29 0.45
35 6 0.09
36 24 0.38
37 3 0.05
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (34 bp):
TATATATATGCATTCGACACATGTAGTTGATAAG
Found at i:26960650 original size:43 final size:42
Alignment explanation
Indices: 26960556--26960719 Score: 170
Period size: 43 Copynumber: 3.9 Consensus size: 42
26960546 TAGGGTTACC
* *
26960556 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGATAT
* *
26960598 GAGACTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATAT
1 GAGATTTCGTGTAAGACCATATCTGGGACA-TGGCATCGATAT
* * * *
26960641 GTGATTTCGTGTAAGACCAT-TGCT-GGATTATTAGCATCGATAC
1 GAGATTTCGTGTAAGACCATAT-CTGGGA-CA-TGGCATCGATAT
* * * *
26960684 AAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 GAGATTTCGTGTAAGACCATATCTGGGACATGGCAT
26960720 TGTTACGGTA
Statistics
Matches: 103, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 35 0.34
43 64 0.62
44 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
GAGATTTCGTGTAAGACCATATCTGGGACATGGCATCGATAT
Found at i:26979035 original size:20 final size:21
Alignment explanation
Indices: 26979000--26979041 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
26978990 CTCATTCAGT
*
26979000 TTTTTTATTTCCCATAATAAA
1 TTTTTTATTTCACATAATAAA
*
26979021 TTTTTTATTT-ACATATTAAA
1 TTTTTTATTTCACATAATAAA
26979041 T
1 T
26979042 AATTTTCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTTATTTCACATAATAAA
Found at i:26979369 original size:9 final size:9
Alignment explanation
Indices: 26979355--26979380 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
26979345 TCTTTTTCTA
26979355 TTCATTTCG
1 TTCATTTCG
26979364 TTCATTTCG
1 TTCATTTCG
26979373 TTCATTTC
1 TTCATTTC
26979381 TATTCAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.23, G:0.08, T:0.58
Consensus pattern (9 bp):
TTCATTTCG
Found at i:26988003 original size:27 final size:27
Alignment explanation
Indices: 26987944--26988095 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
26987934 TAAATTGTAC
*
26987944 AGCACTAAGTGTGCGAGTTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
26987972 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
26987999 TGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
26988026 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
26988054 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
26988081 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
26988096 GACTTAATAT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
27 71 0.62
28 43 0.38
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:26988010 original size:55 final size:55
Alignment explanation
Indices: 26987944--26988095 Score: 234
Period size: 55 Copynumber: 2.8 Consensus size: 55
26987934 TAAATTGTAC
26987944 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTT-GACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* * * *
26987999 TGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
* *
26988054 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
26988096 GACTTAATAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 24 0.27
55 64 0.73
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGATTGACTATGT
Found at i:26988058 original size:82 final size:82
Alignment explanation
Indices: 26987944--26988095 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
26987934 TAAATTGTAC
* *
26987944 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATGTTGCACTAAGT
1 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
26988009 GTGCGAATTGACTATGT
66 GTGCGAATTGACTATGT
* * * *
26988026 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
26988091 GTGCG
66 GTGCG
26988096 GACTTAATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTCGACTATGTAGCACTAAGTGTGCGAATTGACTATATAGCACTAAGT
GTGCGAATTGACTATGT
Found at i:26998070 original size:39 final size:39
Alignment explanation
Indices: 26997906--26998088 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
26997896 TTGAATGCTG
* * * * * * *
26997906 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
26997946 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
26997986 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
26998026 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
26998065 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
26998089 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:26998108 original size:79 final size:80
Alignment explanation
Indices: 26997942--26998123 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
26997932 GCTAAGTGAA
* * * *
26997942 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
26998006 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
26998022 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
26998086 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
26998101 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
26998124 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:26999961 original size:150 final size:150
Alignment explanation
Indices: 26999690--26999989 Score: 600
Period size: 150 Copynumber: 2.0 Consensus size: 150
26999680 AGTGCCGGCG
26999690 AACTCTCAACCTAATGCTAGTAATCAGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGAA
1 AACTCTCAACCTAATGCTAGTAATCAGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGAA
26999755 TGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCGACAAATA
66 TGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCGACAAATA
26999820 CTACCCCCGCACCTACAATA
131 CTACCCCCGCACCTACAATA
26999840 AACTCTCAACCTAATGCTAGTAATCAGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGAA
1 AACTCTCAACCTAATGCTAGTAATCAGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGAA
26999905 TGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCGACAAATA
66 TGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCGACAAATA
26999970 CTACCCCCGCACCTACAATA
131 CTACCCCCGCACCTACAATA
26999990 CCACCGGTAA
Statistics
Matches: 150, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (150 bp):
AACTCTCAACCTAATGCTAGTAATCAGAATGATGAAGCTAGACAAGCATTCTATAGCGTGATGAA
TGATTGGTTTAACCAATACATTCGAACTAATATGGCTGTTCCACAACCTCCATTCCCGACAAATA
CTACCCCCGCACCTACAATA
Found at i:27000718 original size:18 final size:19
Alignment explanation
Indices: 27000687--27000724 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
27000677 CGTGATCGAC
27000687 CCCCTGTGGGTACACGAGG
1 CCCCTGTGGGTACACGAGG
27000706 CCCCTGT-GGTACACGAGG
1 CCCCTGTGGGTACACGAGG
27000724 C
1 C
27000725 ACTTCGGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.16, C:0.34, G:0.34, T:0.16
Consensus pattern (19 bp):
CCCCTGTGGGTACACGAGG
Found at i:27003067 original size:55 final size:55
Alignment explanation
Indices: 27003002--27003111 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
27002992 AATTCGTGAA
*
27003002 GCTCAGAAAGTCGATGATGAATTGGTTGCAAAACGGGCTAAGTGTTTTCCGAACG
1 GCTCAGAAAGTCGATGATGAATTGGTTGCAAAACGGGCTAAGTGTGTTCCGAACG
27003057 GCTCAGAAAGTCGATGATGAATTGGTTGCAAAACGGGCTAAGTGTGTTCCGAACG
1 GCTCAGAAAGTCGATGATGAATTGGTTGCAAAACGGGCTAAGTGTGTTCCGAACG
27003112 AGGAATCGGA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (55 bp):
GCTCAGAAAGTCGATGATGAATTGGTTGCAAAACGGGCTAAGTGTGTTCCGAACG
Found at i:27004731 original size:58 final size:58
Alignment explanation
Indices: 27004657--27004772 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
27004647 CATGTGAATT
*
27004657 TAGTCAATAGGACTTATGTGAGAAAATTCTAAAATGTGATAGGTCAATGTGTGAGGAC
1 TAGTCAATAGGACTTATGTGAGAAAATTCTAAAATGTGATAGGTAAATGTGTGAGGAC
*
27004715 TAGTTAATAGGACTTATGTGAGAAAATTCTAAAATGTGATAGGTAAATGTGTGAGGAC
1 TAGTCAATAGGACTTATGTGAGAAAATTCTAAAATGTGATAGGTAAATGTGTGAGGAC
27004773 CTATTAGTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.30
Consensus pattern (58 bp):
TAGTCAATAGGACTTATGTGAGAAAATTCTAAAATGTGATAGGTAAATGTGTGAGGAC
Found at i:27006309 original size:39 final size:40
Alignment explanation
Indices: 27006105--27006327 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
27006095 TTGAATGCTG
* * * * * *
27006105 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
27006145 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
27006185 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
27006225 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
27006265 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
27006304 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
27006328 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:27006347 original size:79 final size:80
Alignment explanation
Indices: 27006180--27006362 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
27006170 GTGCGAGATA
* * *
27006180 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
27006245 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
27006260 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
27006324 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
27006339 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
27006363 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:27008216 original size:46 final size:46
Alignment explanation
Indices: 27008149--27008667 Score: 801
Period size: 46 Copynumber: 11.5 Consensus size: 46
27008139 TGAGTACTTT
*
27008149 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008195 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACGCTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008241 TGATCAAGTGACAAAGTGATGAGTGGTAGCC-TAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008286 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* * *
27008332 TGATCAAGTGACAAAGTGATGACTGGTAG-CGTAGCTACAC---T-
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* *
27008373 T-ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTGCACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008418 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACAATTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008463 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* *
27008509 TGATAAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACAATTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008554 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
* *
27008600 TGATAAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
*
27008645 TGATC-AGGGAC-AAGTGATAAGTG
1 TGATCAAGTGACAAAGTGATAAGTG
27008668 ATCATACGTA
Statistics
Matches: 433, Mismatches: 31, Indels: 21
0.89 0.06 0.04
Matches are distributed among these distances:
40 25 0.06
41 9 0.02
42 1 0.00
43 12 0.03
44 6 0.01
45 153 0.35
46 227 0.52
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATC
Found at i:27008305 original size:91 final size:91
Alignment explanation
Indices: 27008149--27008667 Score: 854
Period size: 91 Copynumber: 5.8 Consensus size: 91
27008139 TGAGTACTTT
*
27008149 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACACTTATCTGATCAAGTGACAAAGTGA
* *
27008214 TAAGTGGTAGCCTTAGCTACGCTTATC
65 TAAGTGGTAGCTTTAGCTACACTTATC
*
27008241 TGATCAAGTGACAAAGTGATGAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
27008306 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* * *
27008332 TGATCAAGTGACAAAGTGATGACTGGTAGCGTAGCTACAC---T-T-ATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
*
27008392 AAGTGGTAGCTTTAGCTGCACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
*
27008418 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
27008483 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* *
27008509 TGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACAATTATCTGATCAAGTGACAAAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
27008574 AAGTGGTAGCTTTAGCTACACTTATC
66 AAGTGGTAGCTTTAGCTACACTTATC
* * *
27008600 TGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATTTGATC-AGGGAC-AAGTGAT
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
27008663 AAGTG
66 AAGTG
27008668 ATCATACGTA
Statistics
Matches: 406, Mismatches: 16, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
86 79 0.19
87 1 0.00
88 1 0.00
89 13 0.03
90 6 0.01
91 276 0.68
92 30 0.07
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (91 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAAGTGACAAAGTGAT
AAGTGGTAGCTTTAGCTACACTTATC
Found at i:27008629 original size:268 final size:269
Alignment explanation
Indices: 27008149--27008643 Score: 884
Period size: 268 Copynumber: 1.8 Consensus size: 269
27008139 TGAGTACTTT
*
27008149 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACACTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACAATTATCTGATCAAGTGACAAAGTGA
* * *
27008214 TAAGTGGTAGCCTTAGCTACGCTTATCTGATCAAGTGACAAAGTGATGAGTGGTAGCCTAGCTAC
66 TAAGTGGTAGCCTTAGCTACACTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTAC
* *
27008279 ACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAC
131 AATTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATAAAGTGAC
* *
27008344 AAAGTGATGACTGGTAGCGTAGCTACACTTATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
196 AAAGTGATAACTGGTAGCCTAGCTACACTTATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
27008409 GCACTTATC
261 GCACTTATC
*
27008418 TGATCAAGTGACAAAGTGATAAGTGGTAGCC-TAGCTACAATTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACAATTATCTGATCAAGTGACAAAGTGA
*
27008482 TAAGTGGTAGCTTTAGCTACACTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTAC
66 TAAGTGGTAGCCTTAGCTACACTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTAC
27008547 AATTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATAAAGTGAC
131 AATTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATAAAGTGAC
*
27008612 AAAGTGATAAGTGGTAGCCTAGCTACACTTAT
196 AAAGTGATAACTGGTAGCCTAGCTACACTTAT
27008644 TTGATCAGGG
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
268 184 0.86
269 31 0.14
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (269 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAACTACAATTATCTGATCAAGTGACAAAGTGA
TAAGTGGTAGCCTTAGCTACACTTATCTGATAAAGTGACAAAGTGATAAGTGGTAGCCTAGCTAC
AATTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATAAAGTGAC
AAAGTGATAACTGGTAGCCTAGCTACACTTATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCT
GCACTTATC
Found at i:27013149 original size:20 final size:20
Alignment explanation
Indices: 27013123--27013290 Score: 142
Period size: 20 Copynumber: 8.2 Consensus size: 20
27013113 AATGGGATGT
27013123 AATTGATGCACTTTGGTGCA
1 AATTGATGCACTTTGGTGCA
* * **
27013143 GATTGATGCTCTTTGGTGTG
1 AATTGATGCACTTTGGTGCA
* *
27013163 AATTAATGCACTTTGGTTTG-T
1 AATTGATGCACTTTGG--TGCA
* *
27013184 AATTGATGCACTTCGATGCA
1 AATTGATGCACTTTGGTGCA
27013204 AATTGATGCACTTTGGTGCA
1 AATTGATGCACTTTGGTGCA
* *
27013224 AATCGATGCACTTTAGTGCA
1 AATTGATGCACTTTGGTGCA
* * *
27013244 TAACTGATACACTTTAGTGCA
1 -AATTGATGCACTTTGGTGCA
* *
27013265 TAATGGA-GCATTTTGGTGCA
1 -AATTGATGCACTTTGGTGCA
27013285 ATATTG
1 A-ATTG
27013291 TGATTGTGCA
Statistics
Matches: 118, Mismatches: 25, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
19 3 0.03
20 78 0.66
21 35 0.30
22 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (20 bp):
AATTGATGCACTTTGGTGCA
Found at i:27013213 original size:41 final size:41
Alignment explanation
Indices: 27013123--27013236 Score: 117
Period size: 41 Copynumber: 2.8 Consensus size: 41
27013113 AATGGGATGT
* * * **
27013123 AATTGATGCACTTTGG-TGCAGATTGATGCTCTTTGGTGTG
1 AATTGATGCACTTTGGTTGCAGATTGATGCACTTCGATGCA
* *
27013163 AATTAATGCACTTTGGTTTGTA-ATTGATGCACTTCGATGCA
1 AATTGATGCACTTTGG-TTGCAGATTGATGCACTTCGATGCA
* *
27013204 AATTGATGCACTTTGG-TGCAAATCGATGCACTT
1 AATTGATGCACTTTGGTTGCAGATTGATGCACTT
27013237 TAGTGCATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.05
40 26 0.43
41 29 0.48
42 3 0.05
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (41 bp):
AATTGATGCACTTTGGTTGCAGATTGATGCACTTCGATGCA
Found at i:27013233 original size:61 final size:61
Alignment explanation
Indices: 27013120--27013237 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
27013110 ACTAATGGGA
* * * * ** *
27013120 TGTAATTGATGCACTTTGGTGCAGATTGATGCTCTTTGGTGTGAATTAATGCACTTTGGTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTTGGTT
*
27013181 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCGATGCACTTT
1 TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTT
27013238 AGTGCATAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (61 bp):
TGTAATTGATGCACTTCGATGCAAATTGATGCACTTTGGTGCAAATCAATGCACTTTGGTT
Found at i:27013257 original size:21 final size:20
Alignment explanation
Indices: 27013207--27013269 Score: 83
Period size: 21 Copynumber: 3.1 Consensus size: 20
27013197 CGATGCAAAT
*
27013207 TGATGCACTTTGGTGCA-AA
1 TGATGCACTTTAGTGCATAA
27013226 TCGATGCACTTTAGTGCATAA
1 T-GATGCACTTTAGTGCATAA
*
27013247 CTGATACACTTTAGTGCATAA
1 -TGATGCACTTTAGTGCATAA
27013268 TG
1 TG
27013270 GAGCATTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
19 1 0.03
20 17 0.44
21 20 0.51
22 1 0.03
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (20 bp):
TGATGCACTTTAGTGCATAA
Found at i:27020372 original size:11 final size:11
Alignment explanation
Indices: 27020352--27020381 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
27020342 ATGAAAAGGT
*
27020352 TGATGAATAAA
1 TGATGTATAAA
27020363 TGATGTATAAA
1 TGATGTATAAA
27020374 TGATGTAT
1 TGATGTAT
27020382 CTTATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (11 bp):
TGATGTATAAA
Found at i:27021664 original size:40 final size:40
Alignment explanation
Indices: 27021605--27021683 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
27021595 GTAATGCTTC
27021605 GTAACCCTAATTCAACGACGGAGACGGGTTAGAGGTTTTT
1 GTAACCCTAATTCAACGACGGAGACGGGTTAGAGGTTTTT
*** *
27021645 GTAACCCTAATTTGGCGACGGAGACGGGTTAGGGGTTTT
1 GTAACCCTAATTCAACGACGGAGACGGGTTAGAGGTTTT
27021684 ACATCTACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (40 bp):
GTAACCCTAATTCAACGACGGAGACGGGTTAGAGGTTTTT
Found at i:27030912 original size:24 final size:24
Alignment explanation
Indices: 27030885--27030930 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
27030875 TAAATTTTTT
27030885 TATGATT-AAATTATTGTTATTAAG
1 TATGATTGAAATTATTG-TATTAAG
*
27030909 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
27030931 TATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAG
Found at i:27045684 original size:30 final size:30
Alignment explanation
Indices: 27045650--27045711 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
27045640 CTTAACAAGT
*
27045650 AAATGTCTCTAAAATAATAATAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
*
27045680 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
27045710 AA
1 AA
27045712 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAC
Found at i:27050575 original size:63 final size:63
Alignment explanation
Indices: 27050471--27050642 Score: 200
Period size: 63 Copynumber: 2.7 Consensus size: 63
27050461 TTTTTTTTGT
* * * * * * ****
27050471 CACAAGCATCACAACACGCACACTTATTCCCTGCATTAACACATTTAGCTTTGGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
27050534 CACAAGTACCACAACATACACAATCATTCCCTGCATCAACACACTCAGCACCAGTTTATTTTA
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
* * *
27050597 CACAAGCACCACAGCACGCGCAATCATTCCCTGCATCAACACATTC
1 CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTC
27050643 TTTAGTGATA
Statistics
Matches: 90, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 90 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.25
Consensus pattern (63 bp):
CACAAGCACCACAACACACACAATCATTCCCTGCATCAACACATTCAGCACCAGTTTATTTTA
Found at i:27053987 original size:6 final size:6
Alignment explanation
Indices: 27053978--27054026 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
27053968 TTAATATAAA
*
27053978 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATGATT
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT
27054026 A
1 A
27054027 ATTTATTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (6 bp):
ATAATT
Found at i:27054365 original size:26 final size:26
Alignment explanation
Indices: 27054315--27054366 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
27054305 GATGTTTAAT
*
27054315 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
*
27054341 TATTATTTGAT-TTTAATAATATTTAC
1 TATTATTTGATATTCAATAAT-TTTAC
27054367 ATAATTGTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:27061403 original size:12 final size:12
Alignment explanation
Indices: 27061382--27061427 Score: 60
Period size: 11 Copynumber: 4.0 Consensus size: 12
27061372 GTTTTTCAAA
27061382 AAAAAT-TATTT
1 AAAAATATATTT
27061393 AAAAATATATTT
1 AAAAATATATTT
*
27061405 -AAAATTTATTT
1 AAAAATATATTT
*
27061416 AAATATATATTT
1 AAAAATATATTT
27061428 CTTTCCCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAAAATATATTT
Found at i:27061408 original size:23 final size:23
Alignment explanation
Indices: 27061382--27061427 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
27061372 GTTTTTCAAA
27061382 AAAAATTATTTAAAAATATATTT
1 AAAAATTATTTAAAAATATATTT
* *
27061405 AAAATTTATTTAAATATATATTT
1 AAAAATTATTTAAAAATATATTT
27061428 CTTTCCCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAATTATTTAAAAATATATTT
Found at i:27061418 original size:52 final size:52
Alignment explanation
Indices: 27061315--27061427 Score: 142
Period size: 52 Copynumber: 2.2 Consensus size: 52
27061305 TGAATATATT
*
27061315 AATATATTTGTTCAAAAAAAATATTTTAAAAATATTTAATATATTCATTAAA
1 AATATATTTGTTCAAAAAAAATATTTAAAAAATATTTAATATATTCATTAAA
* *
27061367 AATATGTTT-TTCAAAAAAAATTATTTAAAAATATATTTAA-A-ATTTATTTAAA
1 AATATATTTGTTCAAAAAAAA-TATTTAAAAA-ATATTTAATATATTCA-TTAAA
*
27061419 TATATATTT
1 AATATATTT
27061428 CTTTCCCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
51 15 0.28
52 30 0.57
53 8 0.15
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (52 bp):
AATATATTTGTTCAAAAAAAATATTTAAAAAATATTTAATATATTCATTAAA
Found at i:27061752 original size:21 final size:21
Alignment explanation
Indices: 27061726--27061771 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
27061716 AAAATATTTA
* *
27061726 AAAATATTAATATATTAATAT
1 AAAATATAAATATATAAATAT
*
27061747 AAAATATAAATTTATAAATAT
1 AAAATATAAATATATAAATAT
27061768 AAAA
1 AAAA
27061772 AAATGTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATATAAATATATAAATAT
Found at i:27061781 original size:31 final size:32
Alignment explanation
Indices: 27061746--27061807 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
27061736 TATATTAATA
27061746 TAAAATATAAATTTATAAATATAAAA-AAATG
1 TAAAATATAAATTTATAAATATAAAATAAATG
*
27061777 TAAAATATAAATTTATAGATATAAAATAAAT
1 TAAAATATAAATTTATAAATATAAAATAAAT
27061808 TCAATTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
TAAAATATAAATTTATAAATATAAAATAAATG
Found at i:27066704 original size:8 final size:8
Alignment explanation
Indices: 27066687--27066731 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
27066677 CAATTTAAAC
27066687 AAAAAA-A
1 AAAAAAGA
27066694 AAAAAAGA
1 AAAAAAGA
27066702 AAAAAAGA
1 AAAAAAGA
27066710 AAAAAA-A
1 AAAAAAGA
*
27066717 AGAAAAGA
1 AAAAAAGA
*
27066725 AGAAAAG
1 AAAAAAG
27066732 GCTGCTTGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
7 12 0.34
8 23 0.66
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAAAGA
Found at i:27066714 original size:18 final size:18
Alignment explanation
Indices: 27066687--27066730 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
27066677 CAATTTAAAC
27066687 AAAA-AAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
27066704 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
*
27066722 AGAAGAAAA
1 AAAAGAAAA
27066731 GGCTGCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAA
Found at i:27066717 original size:23 final size:23
Alignment explanation
Indices: 27066687--27066731 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
27066677 CAATTTAAAC
27066687 AAAAAAAAAAAAAGAAAAAAAGA
1 AAAAAAAAAAAAAGAAAAAAAGA
* *
27066710 AAAAAAAAGAAAAGAAGAAAAG
1 AAAAAAAAAAAAAGAAAAAAAG
27066732 GCTGCTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAAAGAAAAAAAGA
Found at i:27067890 original size:16 final size:16
Alignment explanation
Indices: 27067848--27067890 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
27067838 TTCTTTCTAG
27067848 TTTTCTATCCATTCAA
1 TTTTCTATCCATTCAA
*
27067864 TTTTCCATCCATTCAA
1 TTTTCTATCCATTCAA
*
27067880 TTTTCTTTCCA
1 TTTTCTATCCA
27067891 CCCTACCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.21, C:0.28, G:0.00, T:0.51
Consensus pattern (16 bp):
TTTTCTATCCATTCAA
Found at i:27071264 original size:20 final size:20
Alignment explanation
Indices: 27071236--27071273 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27071226 GGCTATTACA
*
27071236 TCCAGTTCTACCAATACAAG
1 TCCACTTCTACCAATACAAG
*
27071256 TCCACTTCTACCCATACA
1 TCCACTTCTACCAATACA
27071274 TCTTGTGAGT
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:0.32, C:0.37, G:0.05, T:0.26
Consensus pattern (20 bp):
TCCACTTCTACCAATACAAG
Found at i:27073229 original size:10 final size:10
Alignment explanation
Indices: 27073211--27073239 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
27073201 TTAGTTTTGC
27073211 AAAAA-AAAA
1 AAAAATAAAA
27073220 AAAAATAAAA
1 AAAAATAAAA
27073230 AAAAATAAAA
1 AAAAATAAAA
27073240 TGGACTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:27073231 original size:15 final size:15
Alignment explanation
Indices: 27073211--27073240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27073201 TTAGTTTTGC
27073211 AAAAAAAAAAAAAAT
1 AAAAAAAAAAAAAAT
*
27073226 AAAAAAAAATAAAAT
1 AAAAAAAAAAAAAAT
27073241 GGACTCTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAAAAAAT
Found at i:27075116 original size:15 final size:16
Alignment explanation
Indices: 27075096--27075137 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
27075086 TTGGCCAAAA
*
27075096 ACCGCTGGTTCT-GCT
1 ACCGCTGGTTCTAGCC
27075111 ACCGCTGGTT-TAGCC
1 ACCGCTGGTTCTAGCC
27075126 ACCGCTGGTTCT
1 ACCGCTGGTTCT
27075138 TCTAATGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.10, C:0.33, G:0.26, T:0.31
Consensus pattern (16 bp):
ACCGCTGGTTCTAGCC
Found at i:27077642 original size:15 final size:15
Alignment explanation
Indices: 27077622--27077669 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
27077612 AGACACGGGC
27077622 TGTCACATGGCCGTG
1 TGTCACATGGCCGTG
27077637 TGTCACATGGCC-TG
1 TGTCACATGGCCGTG
* * *
27077651 -GTGACACGGTCGTG
1 TGTCACATGGCCGTG
27077665 TGTCA
1 TGTCA
27077670 TTTGTGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.15, C:0.25, G:0.33, T:0.27
Consensus pattern (15 bp):
TGTCACATGGCCGTG
Found at i:27084207 original size:20 final size:20
Alignment explanation
Indices: 27084184--27084221 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27084174 TTCTACTCTG
*
27084184 TTCTGTTTTACTCTATTCTA
1 TTCTGATTTACTCTATTCTA
27084204 TTCTGATTTACTCTATTC
1 TTCTGATTTACTCTATTC
27084222 AGTTCAGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.21, G:0.05, T:0.58
Consensus pattern (20 bp):
TTCTGATTTACTCTATTCTA
Found at i:27089005 original size:27 final size:25
Alignment explanation
Indices: 27088953--27089002 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27088943 GATAGGAGAA
27088953 AGAAATTTCTCTCTAATCTATGGTG
1 AGAAATTTCTCTCTAATCTATGGTG
27088978 AGAAATTTCTCTCTAATCTATGGTG
1 AGAAATTTCTCTCTAATCTATGGTG
27089003 TGAATGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (25 bp):
AGAAATTTCTCTCTAATCTATGGTG
Found at i:27089579 original size:69 final size:69
Alignment explanation
Indices: 27089445--27089869 Score: 341
Period size: 69 Copynumber: 6.2 Consensus size: 69
27089435 CATTCGTGTC
* ** * * * * * * * * *
27089445 ATATTAAGGTTTGCAGGTGAAGTGCCGTAACCTCTAAAACAGTTAGCGAGATCAATGCTCTCAAC
1 ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
27089510 TATA
66 TATA
* * * * *
27089514 ATATTAAGGTTCGTAGGCAAAGAGCTGAAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
27089579 TATA
66 TATA
* * * * *
27089583 ATATTGAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGAAAATCTCCTAGC
1 ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
** *
27089648 CGTC
66 TATA
* * * * * * *
27089652 ATATGAAGGTTCGCAGGCAAAGAGCCGCAATCTCCAAAACAATTAGCAAGAGTAAAGGTGCCAGC
1 ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
* *
27089717 TTTC
66 TATA
* * *
27089721 ATATTAAGGTTCACAGGCGAAGAG-TCGCAACCTCCAAAATAATTAGCGAA-AGCAAAGCTCCCA
1 ATATTAAGGTTCGCAGGCAAAGAGCT-GCAACCTCCAAAACAATTAGC-AAGAGCAAAGCTCCCA
* *
27089784 GCTATC
64 ACTATA
* * ** ** * * * * ** *
27089790 ATATTAAGATTCACAGGTGAAGAGCCACAACCTTCAAAATAGTTAGCTAGAGCAAAGCTGTCAAT
1 ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
*
27089855 TGTA
66 TATA
27089859 ATATTAAGGTT
1 ATATTAAGGTT
27089870 TGTAGACGAA
Statistics
Matches: 290, Mismatches: 62, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
68 1 0.00
69 287 0.99
70 2 0.01
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (69 bp):
ATATTAAGGTTCGCAGGCAAAGAGCTGCAACCTCCAAAACAATTAGCAAGAGCAAAGCTCCCAAC
TATA
Found at i:27089698 original size:138 final size:138
Alignment explanation
Indices: 27089514--27089869 Score: 383
Period size: 138 Copynumber: 2.6 Consensus size: 138
27089504 CTCAACTATA
* * *
27089514 ATATTAAGGTTCGTAGGCAAAGAGCTGAAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
1 ATATTAAGGTTCGCAGGCAAAGAGCCGCAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
* * *
27089579 TATAATATTGAGGTTCGCAGGCAAAGAG-CTGCAACCTCCAAAACAATTAGC-AAGAGAAAATCT
66 TATAATATTAAGGTTCACAGGCAAAGAGTC-GCAACCTCCAAAACAATTAGCGAA-AGAAAAGCT
* *
27089642 CCTAGCCGTC
129 CCCAGCCATC
* * * * * * * * *
27089652 ATATGAAGGTTCGCAGGCAAAGAGCCGCAATCTCCAAAACAATTAGCAAGAGTAAAGGTGCCAGC
1 ATATTAAGGTTCGCAGGCAAAGAGCCGCAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
* * * * *
27089717 TTTCATATTAAGGTTCACAGGCGAAGAGTCGCAACCTCCAAAATAATTAGCGAAAGCAAAGCTCC
66 TATAATATTAAGGTTCACAGGCAAAGAGTCGCAACCTCCAAAACAATTAGCGAAAGAAAAGCTCC
*
27089782 CAGCTATC
131 CAGCCATC
* * ** * * ** *
27089790 ATATTAAGATTCACAGGTGAAGAGCCACAACCTTCAAAATAGTTAGCTAGAGCAAAGCTGTCAAT
1 ATATTAAGGTTCGCAGGCAAAGAGCCGCAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
*
27089855 TGTAATATTAAGGTT
66 TATAATATTAAGGTT
27089870 TGTAGACGAA
Statistics
Matches: 175, Mismatches: 41, Indels: 4
0.80 0.19 0.02
Matches are distributed among these distances:
138 172 0.98
139 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (138 bp):
ATATTAAGGTTCGCAGGCAAAGAGCCGCAACCTTCAAAATAGTTAGCAAGAGCAAAGCTCCCAAC
TATAATATTAAGGTTCACAGGCAAAGAGTCGCAACCTCCAAAACAATTAGCGAAAGAAAAGCTCC
CAGCCATC
Found at i:27099658 original size:250 final size:250
Alignment explanation
Indices: 27099217--27099715 Score: 980
Period size: 250 Copynumber: 2.0 Consensus size: 250
27099207 TTATCATAAG
*
27099217 AAAATTTCCAATCCATATGTAATATTATTTAAATTAATATGCATATATTATTTCTTGTATTTTGG
1 AAAATTTCCAATCCATATGTAATATTATTTAAATTAATATGCATATATTATTTCATGTATTTTGG
*
27099282 TTTTCCTCGTATACAATATTCACTTTAAATTTCATTTTGATATTATTATTTTATATATAGAATTT
66 TTTTCCTCATATACAATATTCACTTTAAATTTCATTTTGATATTATTATTTTATATATAGAATTT
27099347 ATTTTTTTATCTTCATTTTTGATTTATTTTAAACTCATATATGTATATTGTTTATTTTAAAATTT
131 ATTTTTTTATCTTCATTTTTGATTTATTTTAAACTCATATATGTATATTGTTTATTTTAAAATTT
27099412 TACACATATAACTCATTTTTTTTATATTGATAATTCGTTTATTCTTTGAATGTCT
196 TACACATATAACTCATTTTTTTTATATTGATAATTCGTTTATTCTTTGAATGTCT
27099467 AAAATTTCCAATCCATATGTAATATTATTTAAATTAATATGCATATATTATTTCATGTATTTTGG
1 AAAATTTCCAATCCATATGTAATATTATTTAAATTAATATGCATATATTATTTCATGTATTTTGG
27099532 TTTTCCTCATATACAATATTCACTTTAAATTTCATTTTGATATTATTATTTTATATATAGAATTT
66 TTTTCCTCATATACAATATTCACTTTAAATTTCATTTTGATATTATTATTTTATATATAGAATTT
27099597 ATTTTTTTATCTTCATTTTTGATTTATTTTAAACTCATATATGTATATTGTTTATTTTAAAATTT
131 ATTTTTTTATCTTCATTTTTGATTTATTTTAAACTCATATATGTATATTGTTTATTTTAAAATTT
27099662 TACACATATAACTCATTTTTTTTATATTGATAATTCGTTTATTCTTTGAATGTC
196 TACACATATAACTCATTTTTTTTATATTGATAATTCGTTTATTCTTTGAATGTC
27099716 GATATTATTA
Statistics
Matches: 247, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
250 247 1.00
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.54
Consensus pattern (250 bp):
AAAATTTCCAATCCATATGTAATATTATTTAAATTAATATGCATATATTATTTCATGTATTTTGG
TTTTCCTCATATACAATATTCACTTTAAATTTCATTTTGATATTATTATTTTATATATAGAATTT
ATTTTTTTATCTTCATTTTTGATTTATTTTAAACTCATATATGTATATTGTTTATTTTAAAATTT
TACACATATAACTCATTTTTTTTATATTGATAATTCGTTTATTCTTTGAATGTCT
Found at i:27104384 original size:9 final size:10
Alignment explanation
Indices: 27104353--27104387 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
27104343 AAAATCAATC
*
27104353 AAAAAATCCA
1 AAAAAATTCA
27104363 AAAAAATTCA
1 AAAAAATTCA
27104373 AAAAAATT-A
1 AAAAAATTCA
27104382 AAAAAA
1 AAAAAA
27104388 AAAAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.29
10 17 0.71
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (10 bp):
AAAAAATTCA
Found at i:27104396 original size:8 final size:8
Alignment explanation
Indices: 27104381--27104410 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
27104371 CAAAAAAATT
27104381 AAAA-AAA
1 AAAAGAAA
27104388 AAAAGAAA
1 AAAAGAAA
27104396 AAAAGAAA
1 AAAAGAAA
27104404 AAAAGAA
1 AAAAGAA
27104411 GGGAAATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 4 0.18
8 18 0.82
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:27105345 original size:15 final size:15
Alignment explanation
Indices: 27105318--27105355 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
27105308 TTGAGTTAGA
27105318 AAAAATATGAAAAA-T
1 AAAAA-ATGAAAAAGT
*
27105333 GAAAAATGAAAAAGT
1 AAAAAATGAAAAAGT
27105348 AAAAAATG
1 AAAAAATG
27105356 GATAGGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAAAAATGAAAAAGT
Found at i:27106711 original size:86 final size:87
Alignment explanation
Indices: 27106563--27106804 Score: 351
Period size: 86 Copynumber: 2.8 Consensus size: 87
27106553 GATGAAACTA
* * *
27106563 TAAGTCCTAGCTCCCTGTACAGCAGTGGAATAGGCGGAAGATTGTAAATCCTAGCTTCCTGACCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCCCTGACCA
*
27106628 GCAACGGAATAGGTGGAAGA-C
66 GCAACAGAATAGGTGGAAGATC
* * *
27106649 TATGTCCTAACTCCCTGAACAGCAGTGGAATATGCAGAAGATTGTAAATCCTAGCTCCCTGACCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCCCTGACCA
** *
27106714 GCTGCAGAATAGGTGGAAGATTG
66 GCAACAGAATAGGTGGAAGA-TC
* * *
27106737 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGGAGAAGATTGTAAGTCCTAGCTCCCTGAGCA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCCCTGACCA
27106802 GCA
66 GCA
27106805 GTGGAGCAGG
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 76 0.55
88 61 0.45
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (87 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGCAGAAGATTGTAAATCCTAGCTCCCTGACCA
GCAACAGAATAGGTGGAAGATC
Found at i:27106822 original size:44 final size:44
Alignment explanation
Indices: 27106563--27106809 Score: 293
Period size: 44 Copynumber: 5.7 Consensus size: 44
27106553 GATGAAACTA
* *
27106563 TAAGTCCTAGCTCCCTGTACAGCAGTGGAATAGGCGGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * ** *
27106607 TAAATCCTAGCTTCCTGACCAGCAACGGAATAGGTGGAAGA--C
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * **
27106649 TATGTCCTAACTCCCTGAACAGCAGTGGAATATGCAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
* * * **
27106693 TAAATCCTAGCTCCCTGACCAGCTGCAGAATAGGTGGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
27106737 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGG-GAGAAGATTG
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTG-GAAGATTG
*
27106781 TAAGTCCTAGCTCCCTGAGCAGCAGTGGA
1 TAAGTCCTAGCTCCCTGAACAGCAGTGGA
27106810 GCAGGTTGAA
Statistics
Matches: 165, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
42 31 0.19
43 1 0.01
44 133 0.81
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (44 bp):
TAAGTCCTAGCTCCCTGAACAGCAGTGGAATAGGTGGAAGATTG
Found at i:27106909 original size:88 final size:88
Alignment explanation
Indices: 27106804--27107129 Score: 483
Period size: 88 Copynumber: 3.7 Consensus size: 88
27106794 CCTGAGCAGC
* * *
27106804 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGATAACAAAGCAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA
27106869 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * *
27106892 AATGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA
* *
27106957 CAAGCCTTGTCTCCCTCGATTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * * *
27106980 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCAACGGCGAAGCAAATCTAAGACA
1 AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA
27107045 CAAGCCTTGCCTCCCTCGGTTGT
66 CAAGCCTTGCCTCCCTCGGTTGT
* * * * *
27107068 AGTGGAGCTGGTTGAAGATAGCATG-TCTTACCTTCCTGCATCGACAGTGAAGTAGATCGAAG
1 AGTGGAGCAGGTTGAAGATAGCA-GATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAG
27107130 CCAATGGTCC
Statistics
Matches: 211, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
88 210 1.00
89 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (88 bp):
AGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGCGAAGCAGATCGAAGACA
CAAGCCTTGCCTCCCTCGGTTGT
Found at i:27106922 original size:44 final size:44
Alignment explanation
Indices: 27106806--27107012 Score: 133
Period size: 44 Copynumber: 4.7 Consensus size: 44
27106796 TGAGCAGCAG
* *
27106806 TGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTAC-ATCGATAA
1 TGGAGCAGGTTGAAGATAGCAGATCTTGCCTCCCT-CGATTG-TAA
*** * * * * *
27106851 CAAAGCAGATCGAAGACA-CA-AGCCTTGCCTCCCTCGGTTGTAA
1 TGGAGCAGGTTGAAGATAGCAGA-TCTTGCCTCCCTCGATTGTAA
*
27106894 TGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCT-GCATTG-ACA
1 TGGAGCAGGTTGAAGATAGCAGATCTTGCCTCCCTCG-ATTGTA-A
* * * * * *
27106938 -GCGAAGCAGATCGAAGACA-CA-AGCCTTGTCTCCCTCGATTGTAG
1 TG-G-AGCAGGTTGAAGATAGCAGA-TCTTGCCTCCCTCGATTGTAA
27106982 TGGAGCAGGTTGAAGATAGCAGATCTTGCCT
1 TGGAGCAGGTTGAAGATAGCAGATCTTGCCT
27107013 TCCTACATCA
Statistics
Matches: 117, Mismatches: 31, Indels: 29
0.66 0.18 0.16
Matches are distributed among these distances:
43 33 0.28
44 55 0.47
45 29 0.25
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.24
Consensus pattern (44 bp):
TGGAGCAGGTTGAAGATAGCAGATCTTGCCTCCCTCGATTGTAA
Found at i:27112429 original size:20 final size:20
Alignment explanation
Indices: 27112406--27112446 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27112396 TTTGAATTGT
* *
27112406 TGCTAAACTATTTCATTGCA
1 TGCTAAACCATCTCATTGCA
27112426 TGCTAAACCATCTCATTGCA
1 TGCTAAACCATCTCATTGCA
27112446 T
1 T
27112447 TTTTCATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (20 bp):
TGCTAAACCATCTCATTGCA
Found at i:27119614 original size:11 final size:13
Alignment explanation
Indices: 27119594--27119625 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
27119584 AATAAATTAA
27119594 TAAAATATCAT-T
1 TAAAATATCATAT
27119606 TAAAA-ATCATAT
1 TAAAATATCATAT
27119618 TAAAATAT
1 TAAAATAT
27119626 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:27127998 original size:285 final size:285
Alignment explanation
Indices: 27127488--27128023 Score: 957
Period size: 285 Copynumber: 1.9 Consensus size: 285
27127478 TCCCATTCAC
*
27127488 CACATTAACTCTCCTTCTCTCACCTTCCTTGTTTCTCCATATGGCAAGTCACAGTGTAATAATAG
1 CACATTAACTCTCCTTCTCTCACCTTCCTTATTTCTCCATATGGCAAGTCACAGTGTAATAATAG
*
27127553 CAATTATGGTCAACTTATGAGTTTTTGTGCATTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
66 CAATTATGGTCAACTTATGAGTTTTTGTGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
*
27127618 TTTTTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTTTATTGATTTTGTAC
131 TTTTTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCTATTGATTTTGTAC
*
27127683 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCGCATATTTGTAGCTTTAGCTATAA
196 TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTTTAGCTATAA
27127748 TTAATATATCACACTTTTTTATTCG
261 TTAATATATCACACTTTTTTATTCG
* *
27127773 CACATTAACTCTTCTTCTCTCACCTTTCTTATTTCTCCATATGAG-AAGTCACAGTGTAATAATA
1 CACATTAACTCTCCTTCTCTCACCTTCCTTATTTCTCCATATG-GCAAGTCACAGTGTAATAATA
27127837 GCAATTATGGTCAACTTATGAGTTTTTGTGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTT
65 GCAATTATGGTCAACTTATGAGTTTTTGTGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTT
* * * *
27127902 ATTTTTGGATCACTTTGATTTTTTCAACCTTTTCTCACTCATAATTCTTTTCTATTGATTTTGTG
130 ATTTTTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCTATTGATTTTGTA
*
27127967 CTTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTTTAGCTT
195 CTTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTT
27128024 AACCATTATC
Statistics
Matches: 239, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
285 238 1.00
286 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.48
Consensus pattern (285 bp):
CACATTAACTCTCCTTCTCTCACCTTCCTTATTTCTCCATATGGCAAGTCACAGTGTAATAATAG
CAATTATGGTCAACTTATGAGTTTTTGTGCACTAATGATCAAGTGTTTCTATTTTTGTGACCTTA
TTTTTGGATCACTTTGACTTTTTCAACATTTTCTCACTCATAATGCTTTTCTATTGATTTTGTAC
TTTTCCACTCGTTTTGACTTTTTCTAAAATTTTCTTTATTCACATATTTGTAGCTTTAGCTATAA
TTAATATATCACACTTTTTTATTCG
Found at i:27131030 original size:40 final size:40
Alignment explanation
Indices: 27130823--27131014 Score: 348
Period size: 40 Copynumber: 4.8 Consensus size: 40
27130813 CATTTGAATG
27130823 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
27130863 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
27130903 ACATCCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
27130943 ACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
27130983 ATATCCGGGCTAAGACCCGAGGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
27131015 TTGTGGTTAT
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:27146328 original size:27 final size:27
Alignment explanation
Indices: 27146289--27146466 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
27146279 TTATTGAGCC
* * *
27146289 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
27146316 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
27146343 CGCACACTTAGTGCCACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** * *
27146371 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
27146398 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
27146425 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAGTC-AACT
*
27146452 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
27146467 GTACAATTTA
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 102 0.80
28 26 0.20
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:27146428 original size:82 final size:81
Alignment explanation
Indices: 27146310--27146465 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
27146300 TGCTATATAA
* *
27146310 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCCACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
27146375 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
27146392 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
27146456 CCCTTAGTGC
65 CACTTAGTGC
27146466 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:27158715 original size:14 final size:14
Alignment explanation
Indices: 27158696--27158722 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
27158686 CATTTCTTGG
27158696 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
27158710 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
27158723 ACTGGACCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:27158810 original size:22 final size:22
Alignment explanation
Indices: 27158768--27158812 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
27158758 TTATTAACCC
*
27158768 AAATTAAATTGTATATAAATTA
1 AAATTAAATTATATATAAATTA
*
27158790 AAATT-AATTATATTATGAATTA
1 AAATTAAATTATA-TATAAATTA
27158812 A
1 A
27158813 TACATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (22 bp):
AAATTAAATTATATATAAATTA
Found at i:27159856 original size:30 final size:30
Alignment explanation
Indices: 27159822--27159878 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
27159812 ATTAAGAGAG
27159822 AAGTGATGGCTAAATATTGCAAGGGTTCAA
1 AAGTGATGGCTAAATATTGCAAGGGTTCAA
27159852 AAGTGATGGCTAAATATTGCAAGGGTT
1 AAGTGATGGCTAAATATTGCAAGGGTT
27159879 TAAATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (30 bp):
AAGTGATGGCTAAATATTGCAAGGGTTCAA
Found at i:27162514 original size:30 final size:30
Alignment explanation
Indices: 27162457--27162518 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
27162447 GCTTTTTGAA
* *
27162457 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
*
27162487 AATATTTATAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
27162517 AA
1 AA
27162519 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.48, C:0.10, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:27173605 original size:22 final size:22
Alignment explanation
Indices: 27173561--27173611 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
27173551 AATAGAAAAT
*
27173561 TGAAAGAAAAACTAAATACAAA
1 TGAAAGCAAAACTAAATACAAA
*
27173583 TGAAAGCAAAATTAAA-ACTAAA
1 TGAAAGCAAAACTAAATAC-AAA
*
27173605 TAAAAGC
1 TGAAAGC
27173612 TAAGTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 23 0.92
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (22 bp):
TGAAAGCAAAACTAAATACAAA
Found at i:27182713 original size:61 final size:61
Alignment explanation
Indices: 27182627--27182741 Score: 144
Period size: 61 Copynumber: 1.9 Consensus size: 61
27182617 AATGTATGTT
* * *
27182627 TTGAGTTTTATAAGTTGAAATAAATTGCATAAATTATATATATATTTAGCCGAATATATATG
1 TTGAGTTTTATAAGTTGAAATAAATTGAATAAATTACATATAT-GTTAGCCGAATATATATG
* * *
27182689 TTGAG-TTTGTAAGTTG-AATGAAATTTAATGAATTACATATATGTTAGCCGAAT
1 TTGAGTTTTATAAGTTGAAAT-AAATTGAATAAATTACATATATGTTAGCCGAAT
27182742 GTATGTATTG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
60 13 0.28
61 28 0.61
62 5 0.11
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (61 bp):
TTGAGTTTTATAAGTTGAAATAAATTGAATAAATTACATATATGTTAGCCGAATATATATG
Found at i:27187743 original size:2 final size:2
Alignment explanation
Indices: 27187736--27187761 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27187726 TCCACTCGCT
27187736 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
27187762 CTCAACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:27199085 original size:23 final size:24
Alignment explanation
Indices: 27199040--27199086 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
27199030 TATTTTAAGT
* *
27199040 TTAATCTTAATTAAATTTGATTAA
1 TTAATCTTAATCAAATTTAATTAA
*
27199064 TTAAT-TTAATCAAGTTTAATTAA
1 TTAATCTTAATCAAATTTAATTAA
27199087 GCTTTAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
TTAATCTTAATCAAATTTAATTAA
Found at i:27203319 original size:68 final size:68
Alignment explanation
Indices: 27203202--27203373 Score: 227
Period size: 68 Copynumber: 2.5 Consensus size: 68
27203192 TATAAGACTA
* * *
27203202 TAAGACCATAGTTAGGCTATGGCAACATATGAAGTCCGCCAGGACAGTAAACATGTCATCATATA
1 TAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGACAGGACAGTAAACATGGCATCATATA
27203267 GTG
66 GTG
* * * * * * *
27203270 TAAGACCATAGCTGGGTTATGGAAACATATGAATTCTGACATGATAGTAAACATGGCATCATATA
1 TAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGACAGGACAGTAAACATGGCATCATATA
27203335 GTG
66 GTG
* * *
27203338 TAAGACTATAGTTGGGCTATGGCAATATATGTAGTC
1 TAAGACCATAGTTGGGCTATGGCAACATATGAAGTC
27203374 TGCCAAGACA
Statistics
Matches: 87, Mismatches: 17, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
68 87 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (68 bp):
TAAGACCATAGTTGGGCTATGGCAACATATGAAGTCCGACAGGACAGTAAACATGGCATCATATA
GTG
Found at i:27210414 original size:22 final size:23
Alignment explanation
Indices: 27210381--27210433 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
27210371 ACCCCTTAAC
* *
27210381 TAACATTACCAAT-TCATAATT-
1 TAACATTCCCAATCTCAAAATTA
27210402 TAGACATTCCCAATCTCAAAATTA
1 TA-ACATTCCCAATCTCAAAATTA
27210426 TAACATTC
1 TAACATTC
27210434 AATCCAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 2 0.07
22 10 0.37
23 13 0.48
24 2 0.07
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.34
Consensus pattern (23 bp):
TAACATTCCCAATCTCAAAATTA
Found at i:27212655 original size:21 final size:21
Alignment explanation
Indices: 27212631--27212685 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
27212621 GTTTGCTTTT
*
27212631 AGTTTAGCTCTTATGAGCTTC
1 AGTTTAACTCTTATGAGCTTC
* * *
27212652 AG-TTAACTCATATGAGTTTT
1 AGTTTAACTCTTATGAGCTTC
*
27212672 AGTTTAACCCTTAT
1 AGTTTAACTCTTAT
27212686 AGGTTTCCGT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (21 bp):
AGTTTAACTCTTATGAGCTTC
Found at i:27228123 original size:50 final size:50
Alignment explanation
Indices: 27228068--27228193 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
27228058 CATTGAGGTT
* * * *
27228068 ATGAGAGGTCCCATGTAAGATCATATCTAGG-ACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCATGTAAGACCATATCT-GGAACATGGCATAGACACCAAG
* * * * *
27228118 ATGAGAGGCCCCTTGTAAGACCATGTCTGGAACATGGCATAGACACCGAT
1 ATGAGAGGTCCCATGTAAGACCATATCTGGAACATGGCATAGACACCAAG
**
27228168 ATGAGAACTCCCATGTAAGACCATAT
1 ATGAGAGGTCCCATGTAAGACCATAT
27228194 ATGGGATATG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
49 2 0.03
50 59 0.97
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATATCTGGAACATGGCATAGACACCAAG
Found at i:27244285 original size:40 final size:40
Alignment explanation
Indices: 27244194--27244363 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
27244184 TCCTCGTTCA
* * * * *
27244194 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
27244233 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27244273 AATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
27244313 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
27244353 AAGGCCTTCGG
1 AATGCCTTCGG
27244364 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:27244376 original size:40 final size:40
Alignment explanation
Indices: 27244192--27244416 Score: 195
Period size: 40 Copynumber: 5.7 Consensus size: 40
27244182 GCTCCTCGTT
* * * * * *
27244192 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
27244232 C-AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
27244271 CGAATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * *
27244311 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * ** *
27244351 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
27244392 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGA
27244417 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 36 0.23
40 112 0.70
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:27261023 original size:18 final size:18
Alignment explanation
Indices: 27260990--27261042 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
27260980 ATTCACCTAA
*
27260990 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
27261009 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
*
27261027 ACCCAACCTAACCCAA
1 ACCCAACCCAACCCAA
27261043 CCCAATCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.42, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:27261123 original size:25 final size:25
Alignment explanation
Indices: 27261095--27261149 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
27261085 AATTTCAATT
* *
27261095 ATGTGTTAATTTCAAA-ACTTATTTA
1 ATGTGGTAA-TTCAAAGACTTATGTA
*
27261120 ATGTTGGTGATTCAAAGACTTATGTA
1 ATG-TGGTAATTCAAAGACTTATGTA
27261146 ATGT
1 ATGT
27261150 TTTTAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (25 bp):
ATGTGGTAATTCAAAGACTTATGTA
Found at i:27261184 original size:9 final size:9
Alignment explanation
Indices: 27261170--27261254 Score: 100
Period size: 9 Copynumber: 9.4 Consensus size: 9
27261160 GTAGTGATTC
27261170 AATTCGGTT
1 AATTCGGTT
*
27261179 AATTCGGGT
1 AATTCGGTT
*
27261188 AATTCGGGT
1 AATTCGGTT
*
27261197 AATTCTGTT
1 AATTCGGTT
27261206 AATTCGGTT
1 AATTCGGTT
*
27261215 ACTTCAGG-T
1 AATTC-GGTT
*
27261224 AATTCAGTT
1 AATTCGGTT
*
27261233 AATTCGGAT
1 AATTCGGTT
27261242 AATTCGGTT
1 AATTCGGTT
27261251 AATT
1 AATT
27261255 TTTAACCAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 1 0.02
9 61 0.95
10 2 0.03
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27263240 original size:26 final size:26
Alignment explanation
Indices: 27263211--27263264 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
27263201 TTTTTATAAT
*
27263211 TTTTAAATATAATTTTT-ATTTATTTA
1 TTTT-AATATAATTTTTAAATTATTTA
**
27263237 TTTTTTTATAATTTTTAAATTATTTA
1 TTTTAATATAATTTTTAAATTATTTA
27263263 TT
1 TT
27263265 AATATGGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTTAATATAATTTTTAAATTATTTA
Found at i:27275144 original size:26 final size:24
Alignment explanation
Indices: 27275115--27275186 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 24
27275105 CTAAACCAAA
*
27275115 AAACTATAAAAATATTTAAAAATCCT
1 AAACT-TAAAAATA-TTAAAAACCCT
*
27275141 AAACCTTAATAATATT-AAAACCCT
1 AAA-CTTAAAAATATTAAAAACCCT
*
27275165 AAACCTAAAAATATTAAAAACC
1 AAACTTAAAAATATTAAAAACC
27275187 TTAACCCTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 10 0.25
24 16 0.40
25 2 0.05
26 10 0.25
27 2 0.05
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (24 bp):
AAACTTAAAAATATTAAAAACCCT
Found at i:27275181 original size:23 final size:24
Alignment explanation
Indices: 27275121--27275192 Score: 92
Period size: 23 Copynumber: 3.0 Consensus size: 24
27275111 CAAAAAACTA
27275121 TAAAAATATTTAAAAATCCTAAACCT
1 TAAAAATA-TTAAAAA-CCTAAACCT
* *
27275147 TAATAATATTAAAACCCTAAACC-
1 TAAAAATATTAAAAACCTAAACCT
*
27275170 TAAAAATATTAAAAACCTTAACC
1 TAAAAATATTAAAAACCTAAACC
27275193 CTAGGAGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 20 0.49
24 8 0.20
25 6 0.15
26 7 0.17
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAAATATTAAAAACCTAAACCT
Found at i:27275195 original size:24 final size:24
Alignment explanation
Indices: 27275121--27275195 Score: 80
Period size: 24 Copynumber: 3.1 Consensus size: 24
27275111 CAAAAAACTA
* *
27275121 TAAAAATATTTAAAAATCCTAAACCT
1 TAAAAATA-TTAAAAA-CCTTAACCC
* * *
27275147 TAATAATATT-AAAACCCTAAACC
1 TAAAAATATTAAAAACCTTAACCC
27275170 TAAAAATATTAAAAACCTTAACCC
1 TAAAAATATTAAAAACCTTAACCC
27275194 TA
1 TA
27275196 GGAGAGAGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
23 14 0.35
24 17 0.43
25 2 0.05
26 7 0.17
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAAATATTAAAAACCTTAACCC
Found at i:27282960 original size:9 final size:9
Alignment explanation
Indices: 27282946--27282993 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
27282936 ATTCAATACT
27282946 TTAATTCGG
1 TTAATTCGG
*
27282955 TTAATTCAG
1 TTAATTCGG
*
27282964 TTAATTAGG
1 TTAATTCGG
**
27282973 TTAATTTAG
1 TTAATTCGG
*
27282982 TTAATCCGG
1 TTAATTCGG
27282991 TTA
1 TTA
27282994 TTTTTTTATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (9 bp):
TTAATTCGG
Found at i:27282969 original size:18 final size:18
Alignment explanation
Indices: 27282946--27282993 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
27282936 ATTCAATACT
27282946 TTAATTCGGTTAATTCAG
1 TTAATTCGGTTAATTCAG
* *
27282964 TTAATTAGGTTAATTTAG
1 TTAATTCGGTTAATTCAG
*
27282982 TTAATCCGGTTA
1 TTAATTCGGTTA
27282994 TTTTTTTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.29, C:0.08, G:0.17, T:0.46
Consensus pattern (18 bp):
TTAATTCGGTTAATTCAG
Found at i:27297946 original size:25 final size:25
Alignment explanation
Indices: 27297912--27297963 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
27297902 GATACTTGTC
*
27297912 CACCTAAGTATCAATGGAAGTTATT
1 CACCTAAGTATCAATAGAAGTTATT
*
27297937 CACCTAAGTATCGATAGAAGTTATT
1 CACCTAAGTATCAATAGAAGTTATT
27297962 CA
1 CA
27297964 GACTTCAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (25 bp):
CACCTAAGTATCAATAGAAGTTATT
Found at i:27298707 original size:19 final size:19
Alignment explanation
Indices: 27298669--27298707 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27298659 TTTAATTGGG
* *
27298669 AAATTAATTTTTTTTATTT
1 AAATTAATTTATTATATTT
*
27298688 AAATTAATTTATTATGTTT
1 AAATTAATTTATTATATTT
27298707 A
1 A
27298708 TTTTGAGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
AAATTAATTTATTATATTT
Found at i:27302640 original size:18 final size:18
Alignment explanation
Indices: 27302606--27302644 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27302596 TACAAGCCAA
27302606 TATTTTTTAATGATTTTT
1 TATTTTTTAATGATTTTT
*
27302624 TATTTGTTT-ATGTTTTTT
1 TATTT-TTTAATGATTTTT
27302642 TAT
1 TAT
27302645 CGTAATAGAA
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:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (18 bp):
TATTTTTTAATGATTTTT
Found at i:27304594 original size:31 final size:30
Alignment explanation
Indices: 27304537--27304611 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 30
27304527 TTTCGTTAAA
* *
27304537 AAAAGTTATAATTTAATCACTTAATTATTC
1 AAAAGTTTTTATTTAATCACTTAATTATTC
27304567 AAAAGTTTTTATTTAAATCA-TTGAATTATTC
1 AAAAGTTTTTATTT-AATCACTT-AATTATTC
*
27304598 AAAAATTTTTATTT
1 AAAAGTTTTTATTT
27304612 TTTTTAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 14 0.35
31 26 0.65
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (30 bp):
AAAAGTTTTTATTTAATCACTTAATTATTC
Found at i:27305608 original size:16 final size:15
Alignment explanation
Indices: 27305581--27305610 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
27305571 ATATTATTAA
27305581 AAATTAAATGAAATC
1 AAATTAAATGAAATC
27305596 AAATTATAATGAAAT
1 AAATTA-AATGAAAT
27305611 TAATATTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (15 bp):
AAATTAAATGAAATC
Found at i:27306011 original size:27 final size:27
Alignment explanation
Indices: 27305981--27306105 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
27305971 AGGAAGGGTA
27305981 TCTCATAGGCGGCACCAAAGGTGCCTT
1 TCTCATAGGCGGCACCAAAGGTGCCTT
* * * *
27306008 TCTCATGGGCGGCACCGATGGTGCCAT
1 TCTCATAGGCGGCACCAAAGGTGCCTT
* * *
27306035 TCCCATGGGCGGCACCAAAGGTGCATT
1 TCTCATAGGCGGCACCAAAGGTGCCTT
* *
27306062 T-TCCATAGGCGGCACCGAATGTGCCTT
1 TCT-CATAGGCGGCACCAAAGGTGCCTT
* *
27306089 TCCCATAAGCGGCACCA
1 TCTCATAGGCGGCACCA
27306106 CTTATGTCAT
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.21, C:0.31, G:0.27, T:0.21
Consensus pattern (27 bp):
TCTCATAGGCGGCACCAAAGGTGCCTT
Found at i:27306073 original size:54 final size:54
Alignment explanation
Indices: 27305984--27306105 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
27305974 AAGGGTATCT
*
27305984 CATAGGCGGCACCAAAGGTGCCTTTCTCATGGGCGGCACCG-ATGGTGCCATTCC
1 CATAGGCGGCACCAAAGGTGCCTTTCTCATAGGCGGCACCGAAT-GTGCCATTCC
* * *
27306038 CATGGGCGGCACCAAAGGTGCATTT-TCCATAGGCGGCACCGAATGTGCCTTTCC
1 CATAGGCGGCACCAAAGGTGCCTTTCT-CATAGGCGGCACCGAATGTGCCATTCC
*
27306092 CATAAGCGGCACCA
1 CATAGGCGGCACCA
27306106 CTTATGTCAT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
53 1 0.02
54 57 0.95
55 2 0.03
ACGTcount: A:0.21, C:0.31, G:0.28, T:0.20
Consensus pattern (54 bp):
CATAGGCGGCACCAAAGGTGCCTTTCTCATAGGCGGCACCGAATGTGCCATTCC
Found at i:27306354 original size:3 final size:3
Alignment explanation
Indices: 27306346--27306375 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
27306336 GTTTTAGTTG
27306346 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
27306376 GTTTTTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:27313889 original size:318 final size:317
Alignment explanation
Indices: 27313270--27314206 Score: 1775
Period size: 318 Copynumber: 3.0 Consensus size: 317
27313260 GAAAAAAAAG
*
27313270 TTAGTAAAATACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
1 TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
27313335 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
66 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
27313400 ATTTAGTGTGTTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
131 ATTTAGTGTGTTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
27313465 TATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTA
196 TATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTA
27313530 TTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCTGAATTTTTAAAATAT
261 TTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCTGAATTTTTAAAATAT
27313587 TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
1 TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
27313652 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
66 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
* * * *
27313717 ATTTAGTGTGTTTTTTTAAATTAATTTAGTGTAAAAAAAATCCTTATTCCTACCATTTGCTCGTA
131 ATTTAGTGTG-TTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTA
*** *
27313782 TTATTTTCCCAAATTTTATTACGTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATT
195 TTATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATT
27313847 ATTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCTGAATTTTTAAAATAT
260 ATTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCTGAATTTTTAAAATAT
27313905 TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
1 TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
27313970 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
66 AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
27314035 ATTTAGTGTGTTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
131 ATTTAGTGTGTTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
27314100 TATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTA
196 TATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTA
*
27314165 TTTCAGTACATTTTGTTTGAAATATTTGTATTAATTATTTCT
261 TTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCT
27314207 NNNNNNNNNN
Statistics
Matches: 601, Mismatches: 18, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
317 292 0.49
318 309 0.51
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (317 bp):
TTAGTAAAACACTCTTACTTCGGCCATTTGTTCGTATTTTTTTCTCCGTATTTTATTACTTTAAA
AAATATCATAATTTCTAATTTTATAATTTTACATTATCTCAGTGCATTATGTTTGAAATTTATTA
ATTTAGTGTGTTTTTTAAATAAATTTAGTGTAAAAAAAACCCTTATTCCTGCCCTTTGCTCGTAT
TATTTTCTTGAATTTTATTACTTTCAATAAAAAATATTATTTTCGTATTTTATTATTTTATATTA
TTTCAGTACATTTTGTTTGAAATATTTGTATTATTTATTTCTGAATTTTTAAAATAT
Found at i:27318414 original size:3 final size:3
Alignment explanation
Indices: 27318406--27318480 Score: 71
Period size: 3 Copynumber: 24.3 Consensus size: 3
27318396 AAACTAATAC
* *
27318406 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AACCT AATT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA--T AA-T AAT
* * *
27318454 -TT AAT AAT AAT AAA AAT AAC AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27318481 GGACTAAATT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 1 0.02
3 53 0.90
4 2 0.03
5 3 0.05
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27320857 original size:9 final size:9
Alignment explanation
Indices: 27320840--27320877 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
27320830 AAAAATGGTA
27320840 AGAATTGAG
1 AGAATTGAG
*
27320849 AGAACTGAG
1 AGAATTGAG
*
27320858 AGAGTTGAG
1 AGAATTGAG
27320867 AGAATTGAG
1 AGAATTGAG
27320876 AG
1 AG
27320878 TTTAGAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.03, G:0.37, T:0.18
Consensus pattern (9 bp):
AGAATTGAG
Found at i:27321873 original size:16 final size:17
Alignment explanation
Indices: 27321852--27321885 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
27321842 AAGTCAATAC
27321852 ACATCTTGTC-ACTTCA
1 ACATCTTGTCTACTTCA
*
27321868 ACATCTTTTCTACTTCA
1 ACATCTTGTCTACTTCA
27321885 A
1 A
27321886 GACGTTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.41
Consensus pattern (17 bp):
ACATCTTGTCTACTTCA
Found at i:27322313 original size:25 final size:26
Alignment explanation
Indices: 27322285--27322335 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
27322275 GATTTAGAGT
*
27322285 GCTTTCCGACATGCGATTGC-TCCGC
1 GCTTTCCGACACGCGATTGCTTCCGC
27322310 GCTTTCCGACACGCGATTGCTTCCGC
1 GCTTTCCGACACGCGATTGCTTCCGC
27322336 TCCAAAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.12, C:0.37, G:0.24, T:0.27
Consensus pattern (26 bp):
GCTTTCCGACACGCGATTGCTTCCGC
Found at i:27334248 original size:5 final size:5
Alignment explanation
Indices: 27334238--27334263 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
27334228 AAAATGCATC
27334238 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
27334264 GAATAAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:27334351 original size:16 final size:16
Alignment explanation
Indices: 27334330--27334360 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27334320 GTAGGGAGGA
*
27334330 ACAAAAGAATAAAACG
1 ACAAAAGAAAAAAACG
27334346 ACAAAAGAAAAAAAC
1 ACAAAAGAAAAAAAC
27334361 ATCTTTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.13, G:0.10, T:0.03
Consensus pattern (16 bp):
ACAAAAGAAAAAAACG
Found at i:27337104 original size:34 final size:34
Alignment explanation
Indices: 27337061--27337127 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
27337051 AAACATGTTA
27337061 CTTTTAGCACTTATCATGAATAGAATAATTACCC
1 CTTTTAGCACTTATCATGAATAGAATAATTACCC
27337095 CTTTTAGCACTTATCATGAATAGAATAATTACC
1 CTTTTAGCACTTATCATGAATAGAATAATTACC
27337128 TTACTAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (34 bp):
CTTTTAGCACTTATCATGAATAGAATAATTACCC
Found at i:27345338 original size:14 final size:14
Alignment explanation
Indices: 27345319--27345356 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
27345309 GCTCAATGAA
27345319 TTTTTTTTCTTTCCT
1 TTTTTTTTCTTT-CT
27345334 TTTTTTTTCTTTCT
1 TTTTTTTTCTTTCT
27345348 TCTTTTTTT
1 T-TTTTTTT
27345357 AGAACAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTTTTCTTTCT
Found at i:27348959 original size:32 final size:33
Alignment explanation
Indices: 27348915--27348976 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
27348905 TCGTGTGGCC
27348915 TTTTTTATTTTTTAAGTAAAATAAACAAACCGT
1 TTTTTTATTTTTTAAGTAAAATAAACAAACCGT
**
27348948 TTTTTTA-TTTTTATTTAAAATAAACAAAC
1 TTTTTTATTTTTTAAGTAAAATAAACAAAC
27348977 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTTTTATTTTTTAAGTAAAATAAACAAACCGT
Found at i:27352015 original size:19 final size:18
Alignment explanation
Indices: 27351989--27352031 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
27351979 ATTAGAATGT
*
27351989 AAAAATTAAATTAAAAAC
1 AAAAATTAAAATAAAAAC
*
27352007 AAAATATTAAAATAAAAAT
1 AAAA-ATTAAAATAAAAAC
27352026 AAAAAT
1 AAAAAT
27352032 GGCTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATTAAAATAAAAAC
Found at i:27352850 original size:20 final size:21
Alignment explanation
Indices: 27352811--27352851 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
27352801 CTTGCATGGT
27352811 ATGATTTTGAATTATGTTTTTA
1 ATGATTTT-AATTATGTTTTTA
*
27352833 ATGATTTT-ATTTTGTTTTT
1 ATGATTTTAATTATGTTTTT
27352852 GAGGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
22 8 0.44
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (21 bp):
ATGATTTTAATTATGTTTTTA
Found at i:27356314 original size:4 final size:4
Alignment explanation
Indices: 27356305--27356347 Score: 86
Period size: 4 Copynumber: 10.8 Consensus size: 4
27356295 TGAAGGATAA
27356305 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
27356348 ATCTACATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:27357035 original size:16 final size:15
Alignment explanation
Indices: 27356995--27357048 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 15
27356985 TCGTTATGTT
27356995 TGTTCGCCATTTGGATG
1 TGTTCGCCATTT--ATG
*
27357012 -GTTTGCCATTTATG
1 TGTTCGCCATTTATG
27357026 TTGTTCGCCA--TATG
1 -TGTTCGCCATTTATG
27357040 TGTTCGCCA
1 TGTTCGCCA
27357049 ATGCATGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 9 0.27
14 7 0.21
16 17 0.52
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (15 bp):
TGTTCGCCATTTATG
Found at i:27357725 original size:19 final size:18
Alignment explanation
Indices: 27357683--27357724 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
27357673 TAAAATTTGA
*
27357683 AATTTTATAAATATTTTC
1 AATTTTAGAAATATTTTC
27357701 AATTTTAGAAATTATTTT-
1 AATTTTAGAAA-TATTTTC
27357719 AATTTT
1 AATTTT
27357725 TTTGTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
AATTTTAGAAATATTTTC
Found at i:27359244 original size:21 final size:21
Alignment explanation
Indices: 27359207--27359252 Score: 51
Period size: 21 Copynumber: 2.1 Consensus size: 21
27359197 ACAAAGTTTT
27359207 TTTTTATTTGATTTTTT-TCTAA
1 TTTTTATTT-ATTTTTTGT-TAA
27359229 TTTTTATTT-TTATTTTGTTAA
1 TTTTTATTTATT-TTTTGTTAA
27359250 TTT
1 TTT
27359253 GCTATTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
20 2 0.09
21 10 0.45
22 10 0.45
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (21 bp):
TTTTTATTTATTTTTTGTTAA
Found at i:27362545 original size:9 final size:9
Alignment explanation
Indices: 27362531--27362555 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
27362521 AAAGACTATC
27362531 CATTTAGCA
1 CATTTAGCA
27362540 CATTTAGCA
1 CATTTAGCA
27362549 CATTTAG
1 CATTTAG
27362556 TCATATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (9 bp):
CATTTAGCA
Found at i:27377485 original size:9 final size:9
Alignment explanation
Indices: 27377471--27377496 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
27377461 TCTTTCTTTC
27377471 TTTATTTTA
1 TTTATTTTA
27377480 TTTATTTTA
1 TTTATTTTA
27377489 TTTATTTT
1 TTTATTTT
27377497 GCTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Done.