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 134 of 203
Found at i:42592652 original size:93 final size:93
Alignment explanation
Indices: 42592539--42592710 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
42592529 CGCCCATAAG
* *
42592539 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42592604 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
42592632 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42592697 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
42592711 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:42592707 original size:46 final size:46
Alignment explanation
Indices: 42592532--42592707 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
42592522 TGTAACCCGC
* * *
42592532 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
42592578 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
42592628 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
42592671 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
42592708 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:42596605 original size:24 final size:24
Alignment explanation
Indices: 42596578--42596638 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
42596568 TAATGCTAAA
*
42596578 TATTAGTATTAATTGATATATAAT
1 TATTAATATTAATTGATATATAAT
42596602 TATTAATATTAATTGATATATAAT
1 TATTAATATTAATTGATATATAAT
*
42596626 TA-TAACATTAATT
1 TATTAATATTAATT
42596639 AAGTGATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 10 0.29
24 25 0.71
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (24 bp):
TATTAATATTAATTGATATATAAT
Found at i:42596968 original size:38 final size:39
Alignment explanation
Indices: 42596900--42596973 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 39
42596890 TAAAAGACTT
** *
42596900 GGATTTTATTTATTTTTAATTTATCCAATT-ATATTCAA
1 GGATTTTATAGATTTATAATTTATCCAATTAATATTCAA
*
42596938 GGATTTTATAGATTTATAATTTTAT-TAATTAATATT
1 GGATTTTATAGATTTATAA-TTTATCCAATTAATATT
42596974 ATATTATGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
38 20 0.67
39 10 0.33
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (39 bp):
GGATTTTATAGATTTATAATTTATCCAATTAATATTCAA
Found at i:42600728 original size:15 final size:15
Alignment explanation
Indices: 42600708--42600736 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42600698 TTCCATAATC
42600708 ATTTTAGCTAATAAA
1 ATTTTAGCTAATAAA
42600723 ATTTTAGCTAATAA
1 ATTTTAGCTAATAA
42600737 TCATCAAACT
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:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (15 bp):
ATTTTAGCTAATAAA
Found at i:42602811 original size:179 final size:181
Alignment explanation
Indices: 42602508--42602870 Score: 676
Period size: 179 Copynumber: 2.0 Consensus size: 181
42602498 GAGAACGTCG
42602508 AAATTATTTGGCTAATGTGATCTTTGCACTAGTGGCTGAGAAACTGGTTCGTAAGGGATGTGAGG
1 AAATTATTTGGCTAATGTGATCTTTGCACTAGTGGCTGAGAAACTGGTTC-TAAGGGATGTGAGG
* *
42602573 CGTTCTTGGCCTATATTAGCATTTCCGTTTCTGGGGACTCTACTGTAAAGGACATCAGAACTGTA
65 CGTTCTTGGCCTATATTAGCATTTCCATTTCTGGGGACTCTACTGCAAAGGACATCAGAACTGTA
42602638 AGGGATTTTTAGGACATCTTCCCTGAGGAGCTACCGGGTTTACCTCTGAATC
130 AGGGATTTTTAGGACATCTTCCCTGAGGAGCTACCGGGTTTACCTCTGAATC
42602690 AAATTATTTGGCTAATGTGATCTTTGCACTAGTGGCTGAGAAACTGG-T-TAAGGGATGTGAGGC
1 AAATTATTTGGCTAATGTGATCTTTGCACTAGTGGCTGAGAAACTGGTTCTAAGGGATGTGAGGC
*
42602753 GTTCTTGGCCTATATTAGCATTTCCATTTCTGGGGACTTTACTGCAAAGGACATCAGAACTGTAA
66 GTTCTTGGCCTATATTAGCATTTCCATTTCTGGGGACTCTACTGCAAAGGACATCAGAACTGTAA
42602818 GGGATTTTTAGGACATCTTCCCTGAGGAGCTACCGGGTTTACCTCTGAATC
131 GGGATTTTTAGGACATCTTCCCTGAGGAGCTACCGGGTTTACCTCTGAATC
42602869 AA
1 AA
42602871 GAAGTGGAAT
Statistics
Matches: 178, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
179 130 0.73
181 1 0.01
182 47 0.26
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (181 bp):
AAATTATTTGGCTAATGTGATCTTTGCACTAGTGGCTGAGAAACTGGTTCTAAGGGATGTGAGGC
GTTCTTGGCCTATATTAGCATTTCCATTTCTGGGGACTCTACTGCAAAGGACATCAGAACTGTAA
GGGATTTTTAGGACATCTTCCCTGAGGAGCTACCGGGTTTACCTCTGAATC
Found at i:42608285 original size:23 final size:23
Alignment explanation
Indices: 42608259--42608305 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
42608249 TGAAATGATG
42608259 ATCAAATGATTTGTTAATTACTA
1 ATCAAATGATTTGTTAATTACTA
42608282 ATCAAATGATTTGTTAATTACTA
1 ATCAAATGATTTGTTAATTACTA
42608305 A
1 A
42608306 CTAAGCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.43
Consensus pattern (23 bp):
ATCAAATGATTTGTTAATTACTA
Found at i:42616062 original size:78 final size:78
Alignment explanation
Indices: 42615933--42616162 Score: 444
Period size: 78 Copynumber: 3.0 Consensus size: 78
42615923 ATATAAGGCT
*
42615933 CGTGTTAGCCTATTGGGTCATAACACCTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
1 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
42615998 CTATCCTAAGTCC
66 CTATCCTAAGTCC
42616011 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
1 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
42616076 CTATCCTAAGTCC
66 CTATCCTAAGTCC
42616089 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAA-TTT
1 CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
42616153 CTATCCTAAG
66 CTATCCTAAG
42616163 GCCTAATTAC
Statistics
Matches: 151, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
77 13 0.09
78 138 0.91
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (78 bp):
CGTGTTAGCCTATTGGGTCATAACACTTATGAAATGTGTTAAAAACACTTATTTTTATTAATTTT
CTATCCTAAGTCC
Found at i:42637356 original size:40 final size:39
Alignment explanation
Indices: 42637281--42637385 Score: 102
Period size: 40 Copynumber: 2.6 Consensus size: 39
42637271 AGGGGTATTG
* * * *
42637281 AAGTACAAATAGGGGACGTATGTGTAATCAGGGGTATCA
1 AAGTACAAATAGGGCACGTATGTGCAACCAAGGGTATCA
* * *
42637320 AAGTACAAGTAGGGTCACGTATGTGCAGCCAAGGGTATCG
1 AAGTACAAATAGGG-CACGTATGTGCAACCAAGGGTATCA
* * *
42637360 AAGTTCAAATAAGGGCAAGCATGTGC
1 AAGTACAAAT-AGGGCACGTATGTGC
42637386 TATAAGGGGT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
39 13 0.25
40 36 0.68
41 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.21
Consensus pattern (39 bp):
AAGTACAAATAGGGCACGTATGTGCAACCAAGGGTATCA
Found at i:42648477 original size:49 final size:49
Alignment explanation
Indices: 42648350--42648713 Score: 573
Period size: 49 Copynumber: 7.6 Consensus size: 49
42648340 CCCTTCGGGA
* * * * *
42648350 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42648397 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42648444 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42648493 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42648542 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42648591 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42648640 CCTATTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42648688 CTTATCAC--ATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
42648714 ATGGGTTTAA
Statistics
Matches: 299, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 65 0.22
48 42 0.14
49 187 0.63
50 4 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42654948 original size:27 final size:28
Alignment explanation
Indices: 42654918--42655000 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
42654908 GGCATAACGG
42654918 TCATTTTACCCCAT-GGGGGTATTTCGA
1 TCATTTTACCCCATCGGGGGTATTTCGA
*
42654945 TCATTTT-CCCCTTCGGGGGGTATTTCGA
1 TCATTTTACCCCATC-GGGGGTATTTCGA
* * * *
42654973 TAATTTTA-CCCTTCGAGGGCATTTCGA
1 TCATTTTACCCCATCGGGGGTATTTCGA
42655000 T
1 T
42655001 AGTTTAACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.10
27 19 0.39
28 25 0.51
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (28 bp):
TCATTTTACCCCATCGGGGGTATTTCGA
Found at i:42654971 original size:28 final size:27
Alignment explanation
Indices: 42654932--42655001 Score: 95
Period size: 28 Copynumber: 2.6 Consensus size: 27
42654922 TTTACCCCAT
* *
42654932 GGGGGTATTTCGATCATTTTCCCCTTC
1 GGGGGTATTTCGATAATTTTACCCTTC
42654959 GGGGGGTATTTCGATAATTTTACCCTTC
1 -GGGGGTATTTCGATAATTTTACCCTTC
* *
42654987 GAGGGCATTTCGATA
1 GGGGGTATTTCGATA
42655002 GTTTAACAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 13 0.34
28 25 0.66
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (27 bp):
GGGGGTATTTCGATAATTTTACCCTTC
Found at i:42661159 original size:24 final size:24
Alignment explanation
Indices: 42661132--42661181 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
42661122 ATTTGTGAAA
**
42661132 TTGTT-AATTTTGAATTCTGTTTTT
1 TTGTTAAATTTT-AATTCCATTTTT
42661156 TTGTTAAATTTTAATTCCATTTTT
1 TTGTTAAATTTTAATTCCATTTTT
42661180 TT
1 TT
42661182 CTGTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.20, C:0.06, G:0.08, T:0.66
Consensus pattern (24 bp):
TTGTTAAATTTTAATTCCATTTTT
Found at i:42662904 original size:16 final size:17
Alignment explanation
Indices: 42662877--42662911 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
42662867 TAAGAGTTGA
42662877 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
42662894 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
42662910 GA
1 GA
42662912 TTGAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:42682900 original size:27 final size:28
Alignment explanation
Indices: 42682862--42682917 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 28
42682852 GCACATTTCA
*
42682862 ATTATGCGTCCATTAGCC-GCATCTGGT
1 ATTATGCGTCCATTACCCAGCATCTGGT
*
42682889 ATTATGCGTCCATTACCCATCATCTGGT
1 ATTATGCGTCCATTACCCAGCATCTGGT
42682917 A
1 A
42682918 AGGATCGCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (28 bp):
ATTATGCGTCCATTACCCAGCATCTGGT
Found at i:42683357 original size:16 final size:17
Alignment explanation
Indices: 42683330--42683364 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
42683320 AGAGAGTTGA
42683330 GAGAGAGGATGAGAGAT
1 GAGAGAGGATGAGAGAT
*
42683347 GAGAG-GGATGAGGGAT
1 GAGAGAGGATGAGAGAT
42683363 GA
1 GA
42683365 TTTAAAAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.11
Consensus pattern (17 bp):
GAGAGAGGATGAGAGAT
Found at i:42691461 original size:38 final size:39
Alignment explanation
Indices: 42691400--42691474 Score: 134
Period size: 38 Copynumber: 1.9 Consensus size: 39
42691390 GGCATGGTGG
42691400 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
1 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
*
42691439 GGGA-TGTTTGAGTGATTTTAGGAGGAAAATATGGGA
1 GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGA
42691475 CTGTAGAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 31 0.89
39 4 0.11
ACGTcount: A:0.29, C:0.00, G:0.40, T:0.31
Consensus pattern (39 bp):
GGGAGTGTTGGAGTGATTTTAGGAGGAAAATATGGGATT
Found at i:42715730 original size:40 final size:40
Alignment explanation
Indices: 42715693--42715773 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
42715683 GCTACTCGTT
* *
42715693 CAAATGCCTTCTGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
* *
42715733 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
42715773 C
1 C
42715774 TCGAAAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 34 0.94
41 2 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:42719166 original size:12 final size:12
Alignment explanation
Indices: 42719149--42719173 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42719139 TTTCGTTTTA
42719149 AAATTTAAAATT
1 AAATTTAAAATT
42719161 AAATTTAAAATT
1 AAATTTAAAATT
42719173 A
1 A
42719174 CCTCTGTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTAAAATT
Found at i:42726561 original size:35 final size:35
Alignment explanation
Indices: 42726471--42726562 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 35
42726461 GACGTACCTT
* *
42726471 ATGTTTACTGTCCCAGTGAAC-T-ATCTCTGTTCC
1 ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
* ** * *
42726504 ATGCTTACTGTCCTGGTAGACTTCATCTCTATTTC
1 ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
42726539 ATGTTTACTGTCCCAGTGGACTTC
1 ATGTTTACTGTCCCAGTGGACTTC
42726563 TCTGTTTCAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
33 16 0.35
34 1 0.02
35 29 0.63
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.40
Consensus pattern (35 bp):
ATGTTTACTGTCCCAGTGGACTTCATCTCTATTCC
Found at i:42731401 original size:9 final size:9
Alignment explanation
Indices: 42731372--42731401 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
42731362 TGAACTTTAA
42731372 AATTCGAAT
1 AATTCGAAT
*
42731381 AACTCGAAT
1 AATTCGAAT
42731390 AATTCGAAT
1 AATTCGAAT
42731399 AAT
1 AAT
42731402 AGATTGGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42731531 original size:19 final size:20
Alignment explanation
Indices: 42731483--42731535 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
42731473 TTACAAAAAA
42731483 AAAGATTCAAAATAATTTTC
1 AAAGATTCAAAATAATTTTC
*
42731503 AAAAATTCAAAATAATTTT-
1 AAAGATTCAAAATAATTTTC
*
42731522 TAAGATTCAAAATA
1 AAAGATTCAAAATA
42731536 TTTATAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAGATTCAAAATAATTTTC
Found at i:42731821 original size:23 final size:23
Alignment explanation
Indices: 42731777--42731822 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
42731767 TATTGTAAGC
* ***
42731777 TTTTAATTTGACATGCTTAATTT
1 TTTTAATTTAACATGAAAAATTT
42731800 TTTTAATTTAACATGAAAAATTT
1 TTTTAATTTAACATGAAAAATTT
42731823 CACTCGATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.52
Consensus pattern (23 bp):
TTTTAATTTAACATGAAAAATTT
Found at i:42732100 original size:57 final size:56
Alignment explanation
Indices: 42731995--42732109 Score: 149
Period size: 57 Copynumber: 2.0 Consensus size: 56
42731985 TAATGATTAT
* * *
42731995 AAGTCATCGTTATAGGGCAACCCAAGTAGTAGAATGAACAGTATTGACAGATAGAA
1 AAGTCATCATTATAGGGCAACCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
* * * * *
42732051 AAGTCATCATTGTAGGGCAATCCGAGGTGGTAGAATGACCAGTACTGACAAATAGAA
1 AAGTCATCATTATAGGGCAA-CCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
42732108 AA
1 AA
42732110 AGCCATTGTT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
56 18 0.36
57 32 0.64
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (56 bp):
AAGTCATCATTATAGGGCAACCCAAGTAGTAGAATGAACAGTACTGACAAATAGAA
Found at i:42734324 original size:20 final size:21
Alignment explanation
Indices: 42734301--42734345 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
42734291 TAATATGGTG
* * *
42734301 AAAACTCATTTAACATAAA-A
1 AAAACTAAATTAAAATAAATA
42734321 AAAACTAAATTAAAATAAATA
1 AAAACTAAATTAAAATAAATA
42734342 AAAA
1 AAAA
42734346 TTTATACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAACTAAATTAAAATAAATA
Found at i:42744938 original size:69 final size:70
Alignment explanation
Indices: 42744806--42744938 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
42744796 TAGTTTATTA
* * * * *
42744806 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
42744871 CTTAG
66 CTTAG
42744876 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
42744939 GTTATGTTGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:42748600 original size:30 final size:30
Alignment explanation
Indices: 42748530--42748605 Score: 125
Period size: 30 Copynumber: 2.5 Consensus size: 30
42748520 CTATATTTTA
* *
42748530 GTGGCACACGACTGTGCCACTAACCCGTAC
1 GTGGCACACGGCTGTGCCACTAACCCATAC
42748560 GTGGCACACGGCTGTGCCACTAACCCATAC
1 GTGGCACACGGCTGTGCCACTAACCCATAC
*
42748590 GTGGCACACGGTTGTG
1 GTGGCACACGGCTGTG
42748606 TGGCCAGACT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.18
Consensus pattern (30 bp):
GTGGCACACGGCTGTGCCACTAACCCATAC
Found at i:42751032 original size:22 final size:23
Alignment explanation
Indices: 42750990--42751044 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
42750980 ACAGTGGGTT
*
42750990 TTATTATTAATAATAATATTATTG
1 TTATTATT-ATAATAACATTATTG
*
42751014 TTATTATTAT-ATAACATTATTT
1 TTATTATTATAATAACATTATTG
42751036 TTATTATTA
1 TTATTATTA
42751045 AACCAAATAG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.66
23 2 0.07
24 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (23 bp):
TTATTATTATAATAACATTATTG
Found at i:42756047 original size:41 final size:40
Alignment explanation
Indices: 42755999--42756231 Score: 268
Period size: 41 Copynumber: 5.6 Consensus size: 40
42755989 GTTACATGAT
* *
42755999 GGAATCAGCACTTAGCAACCACCTTATAATTAATGATACGG
1 GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
* * *
42756040 GGAATCAGCACATAGCAACCCCTTTCACAAACAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
* * ** *
42756082 TGGAATCAGCACTTAGCCATCATCTTATAATCAATGATATGG
1 -GGAATCAGCACATAG-CAACCCCTTATAATCAATGATACGG
* *
42756124 GGAATCAGCACATAGCAACCCCTTTCAGAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCCC-TT-ATAATCAATGATACGG
*
42756166 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACATAGCAACC-CCTTATAATCAATGATACGG
42756208 GGAATCAGCACATAGCAACCCCTT
1 GGAATCAGCACATAGCAACCCCTT
42756232 TCATTCAAAG
Statistics
Matches: 160, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
40 10 0.06
41 56 0.35
42 51 0.32
43 37 0.23
44 6 0.04
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (40 bp):
GGAATCAGCACATAGCAACCCCTTATAATCAATGATACGG
Found at i:42756139 original size:84 final size:84
Alignment explanation
Indices: 42755998--42756234 Score: 411
Period size: 84 Copynumber: 2.8 Consensus size: 84
42755988 CGTTACATGA
*
42755998 TGGAATCAGCACTTAGCAACCACCTTATAATTAATGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
42756063 TTCACAAACAAGGATACGG
66 TTCACAAACAAGGATACGG
* * * *
42756082 TGGAATCAGCACTTAGCCATCATCTTATAATCAATGATATGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
* *
42756147 TTCAGAATCAAGGATACGG
66 TTCACAAACAAGGATACGG
42756166 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
1 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
42756231 TTCA
66 TTCA
42756235 TTCAAAGAAT
Statistics
Matches: 142, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 142 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (84 bp):
TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCT
TTCACAAACAAGGATACGG
Found at i:42758698 original size:27 final size:27
Alignment explanation
Indices: 42758668--42758740 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
42758658 GTATATGTAG
*
42758668 GAAGTCCATCAGGACTATCTAACATGA
1 GAAGTCCATCAGGAATATCTAACATGA
* * * *
42758695 GAAGTCCGTCAAGAGTATCTAACGTGA
1 GAAGTCCATCAGGAATATCTAACATGA
*
42758722 AAAGTCCATCAGGAATATC
1 GAAGTCCATCAGGAATATC
42758741 ATGTGGAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (27 bp):
GAAGTCCATCAGGAATATCTAACATGA
Found at i:42762205 original size:206 final size:205
Alignment explanation
Indices: 42761843--42762351 Score: 695
Period size: 206 Copynumber: 2.5 Consensus size: 205
42761833 CTTGGTTATT
* * * * * *
42761843 AAAGTGTATGGCAGGTTTGGATTTTTCCAAAGTTATGGTTTGTCATATGCATAC-ATATAGCCTT
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTA-ATAGCCTT
* * * * *
42761907 AGGAAATAGACAAATAAGTTCCTA--TT-TGACAAATCAATTTTTATTGAATTATTTGAAACTGT
65 AGGAAAAAGACAAATCAGTTCCTATTTTATGACTAATCAATCTTTATTGAATTATTCGAAACTGT
*
42761969 GTCTGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCA
130 GTATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCA
42762034 TTGTTTGTATC
195 TTGTTTGTATC
* * * *
42762045 AAAGTGAATTGTAGGTTTGGATTTTTCTAAAGGTATTGTCTGCCATGTGCATACTAATATCCTTA
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
* * * *
42762110 GGAAAGAGACAAATCAGTTCTTATTTTTATGACTTATCAGTCTTTATTGAATTATTCGAATA-TG
66 GGAAAAAGACAAATCAGTTCCTA-TTTTATGACTAATCAATCTTTATTGAATTATTCGAA-ACTG
* * *
42762174 TGTATGTCATTGAATTATTCAAATATGATTCAAAACCTTTTTTAAATGTTGATTCAAATATGATC
129 TGTATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATC
42762239 ATTGTTTGTATC
194 ATTGTTTGTATC
* * * *
42762251 AAATTGAATTGCAAGTTTGGATTTTTATAAAGTTATTGTTTGCCATGTGCCTACTAATAGCCTTA
1 AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
*
42762316 GGAAAAAGACAAATCAATTCCTATCTTTATGACTAA
66 GGAAAAAGACAAATCAGTTCCTAT-TTTATGACTAA
42762352 CAGTATCAAA
Statistics
Matches: 266, Mismatches: 34, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
202 73 0.27
203 1 0.00
205 3 0.01
206 188 0.71
207 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (205 bp):
AAAGTGAATTGCAGGTTTGGATTTTTCTAAAGTTATTGTTTGCCATGTGCATACTAATAGCCTTA
GGAAAAAGACAAATCAGTTCCTATTTTATGACTAATCAATCTTTATTGAATTATTCGAAACTGTG
TATGTCATTGAATTATTCAAATATGATTCAAAACATTTTTCAAATGTTGATCCAAATATGATCAT
TGTTTGTATC
Found at i:42762387 original size:11 final size:11
Alignment explanation
Indices: 42762371--42762413 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
42762361 AGCTCCTTTG
42762371 GATTCAAATAT
1 GATTCAAATAT
42762382 GATTCAAATAT
1 GATTCAAATAT
* *
42762393 CATTTAAATAT
1 GATTCAAATAT
*
42762404 GAATCAAATA
1 GATTCAAATA
42762414 CGACAAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.49, C:0.09, G:0.07, T:0.35
Consensus pattern (11 bp):
GATTCAAATAT
Found at i:42774800 original size:20 final size:23
Alignment explanation
Indices: 42774775--42774819 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
42774765 AATTCATGTA
42774775 TTTTTTTAT-TTA-CATA-TTAT
1 TTTTTTTATGTTATCATATTTAT
42774795 TTTTTTTATGTTATCATATTTAT
1 TTTTTTTATGTTATCATATTTAT
42774818 TT
1 TT
42774820 CCATATATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.41
21 3 0.14
22 4 0.18
23 6 0.27
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTTTTTTATGTTATCATATTTAT
Found at i:42780940 original size:38 final size:38
Alignment explanation
Indices: 42780882--42780956 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
42780872 ATCTCAACCA
* *
42780882 CTAGATTCTGATTCTATCAAATTGTAACCGTTTAAAAG
1 CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAAG
* *
42780920 CTAGATTCTAATTTTTTCAAATCGTAACCGTTTAAAA
1 CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAA
42780957 ATATTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.39
Consensus pattern (38 bp):
CTAGATTCTAATTCTATCAAATCGTAACCGTTTAAAAG
Found at i:42781577 original size:86 final size:86
Alignment explanation
Indices: 42781421--42781582 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 86
42781411 TTAAATTCGA
* *
42781421 TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATGAACTCATTAAGAGTAAT
1 TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATAAACTCACTAAGAGTAAT
42781486 AAACTCAACCTCATATGTTAG
66 AAACTCAACCTCATATGTTAG
* * *
42781507 TGAATTCATCAAGATT-GTCTCAATAGGACCACCTAAA-TCTTGGGATATAAATTGACTAAGAGT
1 TGAATTCATCAAG-TTGGTCTCAATAGGACCAACTAAACTC-T-GGATATAAACTCACTAAGAGT
* *
42781570 GA-GAACTCAACCT
63 AATAAACTCAACCT
42781583 TATGCATGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
85 2 0.03
86 44 0.67
87 20 0.30
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (86 bp):
TGAATTCATCAAGTTGGTCTCAATAGGACCAACTAAACTCTGGATATAAACTCACTAAGAGTAAT
AAACTCAACCTCATATGTTAG
Found at i:42783017 original size:26 final size:26
Alignment explanation
Indices: 42782981--42783106 Score: 121
Period size: 26 Copynumber: 4.8 Consensus size: 26
42782971 TCTGTTCATA
42782981 GTCCTTCGACCAACTCAAACTCAAGG
1 GTCCTTCGACCAACTCAAACTCAAGG
**
42783007 GTCCTTCGACCAACTCAAACTTTAGG
1 GTCCTTCGACCAACTCAAACTCAAGG
* * * * * * *
42783033 CTTCTCCGACCCACTAAAACTCGAGT
1 GTCCTTCGACCAACTCAAACTCAAGG
* *
42783059 AT-CGTCTGACCAACTCAAACTCAAGG
1 GTCCTTC-GACCAACTCAAACTCAAGG
42783085 GTCC-TCTGACCAACTCAAACTC
1 GTCCTTC-GACCAACTCAAACTC
42783107 CTAAGGCCTT
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
25 2 0.03
26 77 0.96
27 1 0.01
ACGTcount: A:0.29, C:0.35, G:0.13, T:0.22
Consensus pattern (26 bp):
GTCCTTCGACCAACTCAAACTCAAGG
Found at i:42785255 original size:15 final size:16
Alignment explanation
Indices: 42785226--42785256 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
42785216 TTCTAAGAAG
42785226 CACTTTTGAGACAAAA
1 CACTTTTGAGACAAAA
42785242 CACTTTTG-GACAAAA
1 CACTTTTGAGACAAAA
42785257 GAATTCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (16 bp):
CACTTTTGAGACAAAA
Found at i:42787689 original size:24 final size:24
Alignment explanation
Indices: 42787645--42787716 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
42787635 TATAAAGGAA
*
42787645 AGCTCACAAAGAGC-CTATAACGGGT
1 AGCTC-CAAAGAGCAAT-TAACGGGT
*
42787670 AGCTTCAAAGAGCAATTAACGGGT
1 AGCTCCAAAGAGCAATTAACGGGT
*
42787694 AGCTCCGAAGAGCAATTAACGGG
1 AGCTCCAAAGAGCAATTAACGGG
42787717 CAACACCGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 37 0.88
25 5 0.12
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (24 bp):
AGCTCCAAAGAGCAATTAACGGGT
Found at i:42787725 original size:24 final size:24
Alignment explanation
Indices: 42787677--42787726 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
42787667 GGTAGCTTCA
* * *
42787677 AAGAGCAATTAACGGGTAGCTCCG
1 AAGAGCAATTAACGGGCAACACCG
42787701 AAGAGCAATTAACGGGCAACACCG
1 AAGAGCAATTAACGGGCAACACCG
42787725 AA
1 AA
42787727 TAGCCGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (24 bp):
AAGAGCAATTAACGGGCAACACCG
Found at i:42787792 original size:26 final size:26
Alignment explanation
Indices: 42787758--42787823 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
42787748 AAGCGAGCAC
* *
42787758 TAACAGGAAGCTCACAAAGAGCC-TT
1 TAACGGGAAGCTCACAAAGAGCCATA
*
42787783 TAATCGGGAAGCTCACGAAGAGCCATA
1 TAA-CGGGAAGCTCACAAAGAGCCATA
*
42787810 TAACGGGACGCTCA
1 TAACGGGAAGCTCA
42787824 TAAGAGTTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.09
26 28 0.80
27 4 0.11
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.15
Consensus pattern (26 bp):
TAACGGGAAGCTCACAAAGAGCCATA
Found at i:42792896 original size:41 final size:41
Alignment explanation
Indices: 42792845--42793027 Score: 165
Period size: 41 Copynumber: 4.5 Consensus size: 41
42792835 TTTAAACAGA
* **
42792845 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCAG
1 TTCACCGGCACTT-AGCCTGATAGGCTTATAGCCTAATTCAG
* * *
42792886 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
* * * * *
42792927 TTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
* * * * * *
42792968 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGATAGGCTTATAG-CCTAATTCAG
42793009 TTCACCGGCACTTAGCCTG
1 TTCACCGGCACTTAGCCTG
42793028 CTAGACGTAT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 125 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGATAGGCTTATAGCCTAATTCAG
Found at i:42793054 original size:41 final size:41
Alignment explanation
Indices: 42792880--42793041 Score: 254
Period size: 41 Copynumber: 4.0 Consensus size: 41
42792870 TTATAGTTTA
* * * *
42792880 ATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTGTAG-CCTG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCC-G
*
42792921 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
*
42792962 ATTCAATTCACCGGCATTTAGCCTGCTAGACGTATAGTCCG
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
42793003 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
1 ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTC
42793042 TGAATAATTT
Statistics
Matches: 114, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
41 112 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (41 bp):
ATTCAATTCACCGGCACTTAGCCTGCTAGACGTATAGTCCG
Found at i:42793054 original size:82 final size:82
Alignment explanation
Indices: 42792886--42793059 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 82
42792876 TTTAATTCAG
* * * *
42792886 TTCACCGGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGA
1 TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
*
42792951 CGTATAGTCCGATTCAA
66 CGTATAGTCCGAATCAA
*
42792968 TTCACCGGCATTTAGCCTGCTAGACGTATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAGACGTATAG-CCTGATTCAATTCACCGGCACTTAGCCTGCTAG
*
42793032 ACGTATAGTCTGAAT-AA
65 ACGTATAGTCCGAATCAA
*
42793049 TTTCACTGGCA
1 -TTCACCGGCA
42793060 ATAAATCCGA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
81 2 0.02
82 78 0.95
83 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (82 bp):
TTCACCGGCACTTAGCCTGCTAGACGTATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGA
CGTATAGTCCGAATCAA
Found at i:42802190 original size:15 final size:15
Alignment explanation
Indices: 42802170--42802203 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
42802160 GGTGATGTCA
42802170 TAATCTAAAAAATAT
1 TAATCTAAAAAATAT
42802185 TAATCTAAAAAATAT
1 TAATCTAAAAAATAT
42802200 TAAT
1 TAAT
42802204 AATCAATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TAATCTAAAAAATAT
Found at i:42803487 original size:25 final size:24
Alignment explanation
Indices: 42803440--42803487 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
42803430 AGCAAGCCCA
* *
42803440 GAAAAAAGAAAAAGAAAGAAAAAG
1 GAAAAAAGAAAAACAAAAAAAAAG
*
42803464 GAAAAAAGGAAAACAAAAACAAAA
1 GAAAAAAGAAAAACAAAAA-AAAA
42803488 AAAAAGGTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (24 bp):
GAAAAAAGAAAAACAAAAAAAAAG
Found at i:42810457 original size:9 final size:9
Alignment explanation
Indices: 42810440--42810475 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
42810430 CGAGTTAAAC
42810440 GAATCGAGT
1 GAATCGAGT
* *
42810449 TAGTCGAGT
1 GAATCGAGT
42810458 GAATCGAGT
1 GAATCGAGT
42810467 GAATCGAGT
1 GAATCGAGT
42810476 TATTTGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.31, C:0.11, G:0.33, T:0.25
Consensus pattern (9 bp):
GAATCGAGT
Found at i:42810554 original size:9 final size:9
Alignment explanation
Indices: 42810537--42810573 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
42810527 TGAGTTTTCG
42810537 AATTCGAAT
1 AATTCGAAT
*
42810546 AACTCGAAT
1 AATTCGAAT
42810555 AATTCGAAT
1 AATTCGAAT
42810564 AATTCGAAT
1 AATTCGAAT
42810573 A
1 A
42810574 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:42810656 original size:30 final size:31
Alignment explanation
Indices: 42810622--42810682 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
42810612 AAACTTATTT
* *
42810622 ACTTTTCCCTCAAAACTTTTACCCCT-TCCC
1 ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
*
42810652 ACTTTCCCCCCAAAACTTTTACTCCTCTCCC
1 ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
42810683 CTCCCAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTTTCCCCCCAAAACTTTTACCCCTCTCCC
Found at i:42810972 original size:21 final size:21
Alignment explanation
Indices: 42810943--42810982 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
42810933 TCCCTCAAAC
42810943 TTTTATTCCCCAAAACTTTTTA
1 TTTTATT-CCCAAAACTTTTTA
*
42810965 TTTT-TTCCCTAAACTTTT
1 TTTTATTCCCAAAACTTTT
42810983 ACTTCCTACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTTATTCCCAAAACTTTTTA
Found at i:42811607 original size:5 final size:5
Alignment explanation
Indices: 42811597--42811622 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
42811587 CTCGAAAATT
42811597 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
42811623 CGAATGCTCA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:42812236 original size:19 final size:15
Alignment explanation
Indices: 42812195--42812224 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42812185 TAGATGTTGA
42812195 TCATTCCTGGCTTGG
1 TCATTCCTGGCTTGG
42812210 TCATTCCTGGCTTGG
1 TCATTCCTGGCTTGG
42812225 AATTCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.27, G:0.27, T:0.40
Consensus pattern (15 bp):
TCATTCCTGGCTTGG
Found at i:42819983 original size:24 final size:24
Alignment explanation
Indices: 42819963--42820010 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
42819953 ATTCTAATCG
42819963 ATGTCAAATATATTATGCTAATAA
1 ATGTCAAATATATTATGCTAATAA
* **
42819987 ATGTTAAATATATTACACTAATAA
1 ATGTCAAATATATTATGCTAATAA
42820011 GTACTAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (24 bp):
ATGTCAAATATATTATGCTAATAA
Found at i:42820018 original size:24 final size:24
Alignment explanation
Indices: 42819968--42820019 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
42819958 AATCGATGTC
** **
42819968 AAATATATTATGCTAATAAATGTT
1 AAATATATTACACTAATAAATACT
*
42819992 AAATATATTACACTAATAAGTACT
1 AAATATATTACACTAATAAATACT
42820016 AAAT
1 AAAT
42820020 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATATATTACACTAATAAATACT
Found at i:42824164 original size:20 final size:20
Alignment explanation
Indices: 42824139--42824178 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42824129 CGTAAAATGA
*
42824139 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
42824159 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
42824179 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:42824168 original size:34 final size:35
Alignment explanation
Indices: 42824124--42824190 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
42824114 CAGTAAAATA
*
42824124 TTTTCCGTAAAATGATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
42824158 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
42824191 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:42837443 original size:42 final size:42
Alignment explanation
Indices: 42837396--42837497 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
42837386 TGAGTTTCCA
* * * *
42837396 TTTAACCGTAATGGGTTTCCGTTCAACTCTTTTGAGCTTCAG
1 TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
** * *
42837438 TTTAACCCTTGTGGGTTTCCATTCAGCACTTATGAGCTTCCG
1 TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
* *
42837480 TTCAACCCTCATGGGTTT
1 TTTAACCCTAATGGGTTT
42837498 TTGTTTAGCA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.39
Consensus pattern (42 bp):
TTTAACCCTAATGGGTTTCCATTCAACACTTATGAGCTTCAG
Found at i:42850034 original size:18 final size:18
Alignment explanation
Indices: 42850013--42850047 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42850003 AATCATCCCT
42850013 TAATCATCCCTCATTTCA
1 TAATCATCCCTCATTTCA
**
42850031 TAATCATTTCTCATTTC
1 TAATCATCCCTCATTTC
42850048 TCATTTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATCATCCCTCATTTCA
Found at i:42851573 original size:22 final size:22
Alignment explanation
Indices: 42851529--42851569 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42851519 CAATTTCTCA
* *
42851529 ATCTAATATATATATTTCAATT
1 ATCTAAGATATATAATTCAATT
42851551 ATCTAAGA-ATATAATTCAA
1 ATCTAAGATATATAATTCAA
42851570 ATTACACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (22 bp):
ATCTAAGATATATAATTCAATT
Found at i:42853764 original size:24 final size:24
Alignment explanation
Indices: 42853749--42853798 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
42853739 AATTTATGTA
42853749 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
** *
42853773 AAATATATTATATTAATAAATACT
1 AAATATATTATGCTAATAAATGCT
42853797 AA
1 AA
42853799 CTCTTTTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:42854382 original size:31 final size:31
Alignment explanation
Indices: 42854346--42854408 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
42854336 TTCATCTTTT
42854346 TCAGTCATCCTATACGAGATTGAGGTGGGAA
1 TCAGTCATCCTATACGAGATTGAGGTGGGAA
*
42854377 TCAGTCATCTTATACGAGATTGAGGTGGGAA
1 TCAGTCATCCTATACGAGATTGAGGTGGGAA
42854408 T
1 T
42854409 TATCTTCATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.29
Consensus pattern (31 bp):
TCAGTCATCCTATACGAGATTGAGGTGGGAA
Found at i:42858765 original size:40 final size:39
Alignment explanation
Indices: 42858734--42858943 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
42858724 GGACTAAGAT
* *
42858734 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
42858774 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
42858814 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
42858854 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
42858894 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
42858933 CCGAAGGCATT
1 CCGAAGGCATT
42858944 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:42858897 original size:120 final size:120
Alignment explanation
Indices: 42858681--42858943 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
42858671 TTGAATGCTG
* *
42858681 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
42858745 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
42858801 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
42858864 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
42858920 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42858944 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42858963 original size:79 final size:80
Alignment explanation
Indices: 42858734--42858978 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
42858724 GGACTAAGAT
* * * * * * * ** *
42858734 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
42858797 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
42858814 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
42858879 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
42858894 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
42858958 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
42858972 CCGAAGG
1 CCGAAGG
42858979 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:42866813 original size:40 final size:40
Alignment explanation
Indices: 42866782--42866872 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
42866772 GGACTAAGAT
* *
42866782 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
42866822 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
42866862 CCGAAGGCATT
1 CCGAAGGCATT
42866873 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:42871024 original size:25 final size:23
Alignment explanation
Indices: 42870979--42871024 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
42870969 TTTTTTTTAT
* *
42870979 CTTTTTCATTTTTTATTTCTCAC
1 CTTTTTCATTTATTATGTCTCAC
42871002 CTTTTTCAATTTAATTATGTCTC
1 CTTTTTC-ATTT-ATTATGTCTC
42871025 CAATCTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 4 0.21
25 8 0.42
ACGTcount: A:0.17, C:0.20, G:0.02, T:0.61
Consensus pattern (23 bp):
CTTTTTCATTTATTATGTCTCAC
Found at i:42874136 original size:34 final size:34
Alignment explanation
Indices: 42874089--42874198 Score: 105
Period size: 34 Copynumber: 3.2 Consensus size: 34
42874079 ATATGTGTTT
*
42874089 ATATGTGAACTGTGTTAATGTGTGGACCGTGTAA
1 ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
* ** * ** **
42874123 ATATGCGAGCTGTGACAATGTGCGTG-TTGTGTTT
1 ATATGCGAACTGTGTTAATGTGTG-GACCGTGTAA
* *
42874157 ATAAGCAAACTGTGTTAATGTGTGGACCGTGTAA
1 ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
42874191 ATATGCGA
1 ATATGCGA
42874199 CATATGACAA
Statistics
Matches: 53, Mismatches: 21, Indels: 4
0.68 0.27 0.05
Matches are distributed among these distances:
33 1 0.02
34 51 0.96
35 1 0.02
ACGTcount: A:0.26, C:0.11, G:0.29, T:0.34
Consensus pattern (34 bp):
ATATGCGAACTGTGTTAATGTGTGGACCGTGTAA
Found at i:42874156 original size:68 final size:68
Alignment explanation
Indices: 42874082--42874213 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 68
42874072 TATACATATA
* ** *
42874082 TGTGTTTATATGTGAACTGTGTTAATGTGTGGACCGTGTAAATATGCGAGC-TGTGACAATGTGC
1 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGA-CATATGACAATGTGC
42874146 GTGT
65 GTGT
42874150 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGC
1 TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGC
42874214 TGGCTGTGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 1 0.02
68 58 0.98
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (68 bp):
TGTGTTTATAAGCAAACTGTGTTAATGTGTGGACCGTGTAAATATGCGACATATGACAATGTGCG
TGT
Found at i:42874348 original size:34 final size:34
Alignment explanation
Indices: 42874310--42874417 Score: 110
Period size: 34 Copynumber: 3.2 Consensus size: 34
42874300 TATGACAATG
* *
42874310 TGCGAGTTGTGTTTATATGCTAGCTATGTTTATA
1 TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
** * *
42874344 TGCGAGTTGTGCATATATGCAAGTTGTGTTTACA
1 TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
* * * *
42874378 TACGAGCTATGTTTATAT-ATGAGTTGTGTTTATA
1 TGCGAGTTGTGTTTATATGCT-AGTTGTGTTTATA
42874412 TGCGAG
1 TGCGAG
42874418 CTAGCTTTGT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.43
Consensus pattern (34 bp):
TGCGAGTTGTGTTTATATGCTAGTTGTGTTTATA
Found at i:42874390 original size:17 final size:17
Alignment explanation
Indices: 42874319--42874420 Score: 60
Period size: 17 Copynumber: 6.0 Consensus size: 17
42874309 GTGCGAGTTG
* *
42874319 TGTTTATATGCTAGCTA
1 TGTTTATATACGAGCTA
* * *
42874336 TGTTTATATGCGAGTTG
1 TGTTTATATACGAGCTA
** * * * *
42874353 TGCATATATGCAAGTTG
1 TGTTTATATACGAGCTA
*
42874370 TGTTTACATACGAGCTA
1 TGTTTATATACGAGCTA
* * *
42874387 TGTTTATATATGAGTTG
1 TGTTTATATACGAGCTA
*
42874404 TGTTTATATGCGAGCTA
1 TGTTTATATACGAGCTA
42874421 GCTTTGTCAA
Statistics
Matches: 64, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 64 1.00
ACGTcount: A:0.25, C:0.10, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTTTATATACGAGCTA
Found at i:42874390 original size:51 final size:51
Alignment explanation
Indices: 42874314--42874414 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
42874304 ACAATGTGCG
* * * *
42874314 AGTTGTGTTTATATGCTAGCTATGTTTATATGCGAGTTGTGCATATATGCA
1 AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGCA
* **
42874365 AGTTGTGTTTACATACGAGCTATGTTTATATATGAGTTGTGTTTATATGC
1 AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGC
42874415 GAGCTAGCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.24, C:0.09, G:0.23, T:0.45
Consensus pattern (51 bp):
AGTTGTGTTTACATACGAGCTATGTTTATATACGAGTTGTGCATATATGCA
Found at i:42878287 original size:50 final size:50
Alignment explanation
Indices: 42878061--42878286 Score: 233
Period size: 50 Copynumber: 4.5 Consensus size: 50
42878051 ACATGCGAAA
** * * *
42878061 GCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTGTAC--TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGGTGCCAAT
* * * * ** * *
42878110 GTCATATCCCAGATATGTTCTTACATGGGAGTTCTTATATCGGTGTCC-AT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTG-CCAAT
* ** * *
42878160 GCCATGTCCCAGACATAGTCTTACGGGGGACCTCTCATCTCGTTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
42878210 GCCATGTCCCAGACATGGTCTTACATGCGACCTCTCCTCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
42878260 GCCATGTCCCAGACATGGTCTTACATG
1 GCCATGTCCCAGACATGGTCTTACATG
42878287 CCAATGCCAT
Statistics
Matches: 143, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 32 0.22
50 108 0.76
51 2 0.01
ACGTcount: A:0.20, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:42878289 original size:32 final size:32
Alignment explanation
Indices: 42878253--42878318 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
42878243 CTCCTCTCGG
* *
42878253 TGCCAATGCCATGTCCCAGACATGGTCTTACA
1 TGCCAATGCCATATCCCAGACATGGTATTACA
42878285 TGCCAATGCCATATCCCAGACATGGTATTACA
1 TGCCAATGCCATATCCCAGACATGGTATTACA
42878317 TG
1 TG
42878319 GGATCTCTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (32 bp):
TGCCAATGCCATATCCCAGACATGGTATTACA
Found at i:42884035 original size:24 final size:24
Alignment explanation
Indices: 42884004--42884055 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 24
42883994 TGCTGGACTG
42884004 ATATTTTTCTATGAAAGTAGACTCA
1 ATATTTTTCTATGAAAGTAGA-TCA
42884029 ATATTTTTCTATGAAAGTAGATCA
1 ATATTTTTCTATGAAAGTAGATCA
42884053 ATA
1 ATA
42884056 AGCTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (24 bp):
ATATTTTTCTATGAAAGTAGATCA
Found at i:42884062 original size:25 final size:25
Alignment explanation
Indices: 42884009--42884062 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
42883999 GACTGATATT
**
42884009 TTTCTATGAAAGTAGACTCAATATT
1 TTTCTATGAAAGTAGACTCAATAGC
42884034 TTTCTATGAAAGTAGA-TCAATAAGC
1 TTTCTATGAAAGTAGACTCAAT-AGC
42884059 TTTC
1 TTTC
42884063 ATTCTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (25 bp):
TTTCTATGAAAGTAGACTCAATAGC
Found at i:42885030 original size:50 final size:50
Alignment explanation
Indices: 42884791--42885087 Score: 247
Period size: 50 Copynumber: 5.8 Consensus size: 50
42884781 GCTAATAACA
* ** * * *
42884791 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** **
42884840 TGCCAATGCCATATCCCAAATATGTTCTTACATGGGAGTTCTCATAGCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
42884890 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** *
42884940 TGCCAATGCCATGTCCCATACATGGTCTTACATGAAACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
42884990 TGCCAACGCCATGTCCTAGACATGGTCTTCCATGGGACCTCTTATAATCTCATTGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTC---TCATCTC---GG
* * *
42885046 TCCCAATGCCATGTCCCAGACATGGTATTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42885088 TTACCCAAAT
Statistics
Matches: 195, Mismatches: 45, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.19
50 115 0.59
53 6 0.03
56 36 0.18
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:42900178 original size:12 final size:12
Alignment explanation
Indices: 42900161--42900185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42900151 TCCTGAAGTG
42900161 ACAAATAAATAA
1 ACAAATAAATAA
42900173 ACAAATAAATAA
1 ACAAATAAATAA
42900185 A
1 A
42900186 AGAAACTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
ACAAATAAATAA
Found at i:42911930 original size:15 final size:16
Alignment explanation
Indices: 42911912--42911941 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
42911902 GTTTTTTTTT
42911912 TTATTTTTTA-ATAAC
1 TTATTTTTTATATAAC
42911927 TTATTTTTTATATAA
1 TTATTTTTTATATAA
42911942 AAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (16 bp):
TTATTTTTTATATAAC
Found at i:42912142 original size:131 final size:134
Alignment explanation
Indices: 42911985--42912231 Score: 371
Period size: 131 Copynumber: 1.9 Consensus size: 134
42911975 ATTTTATATA
* * *
42911985 TATATATTATTATATTAAATATATTTTATCTTTTAAAAACATC-ACTTATTTTTTATAT-TTTTC
1 TATATATCATTATATTAAATATATTTTAT-TTTTAAAAACATCAACTAATTTTTTATATATATT-
* *
42912048 TTTATATAT-AATTTTTTATGTAAAATA-TT-TTTTTCACT-TACATTGTGGATGTAATGAAAAT
64 TTTATATATAAATTTTATATGTAAAATATTTATTTTTCA-TATACATTATGGATGTAATGAAAAT
42912109 ATATTGT
128 ATATTGT
*
42912116 TATATATCATTATTTTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
1 TATATATCATTATATTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
42912181 TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGAT
66 TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGAT
42912232 ATGATAAATT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
130 13 0.12
131 50 0.48
132 20 0.19
133 3 0.03
134 18 0.17
ACGTcount: A:0.36, C:0.06, G:0.04, T:0.54
Consensus pattern (134 bp):
TATATATCATTATATTAAATATATTTTATTTTTAAAAACATCAACTAATTTTTTATATATATTTT
TATATATAAATTTTATATGTAAAATATTTATTTTTCATATACATTATGGATGTAATGAAAATATA
TTGT
Found at i:42912186 original size:14 final size:13
Alignment explanation
Indices: 42912165--42912198 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
42912155 ATCAACTAAT
42912165 TTTTTATATAT-A
1 TTTTTATATATAA
42912177 TTTTTATATATAA
1 TTTTTATATATAA
*
42912190 ATTTTATAT
1 TTTTTATAT
42912199 GTAAAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTATATATAA
Found at i:42912203 original size:13 final size:13
Alignment explanation
Indices: 42912166--42912203 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
42912156 TCAACTAATT
*
42912166 TTTTATATAT-AT
1 TTTTATATATAAA
42912178 TTTTATATATAAA
1 TTTTATATATAAA
*
42912191 TTTTATATGTAAA
1 TTTTATATATAAA
42912204 ATATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (13 bp):
TTTTATATATAAA
Found at i:42916020 original size:26 final size:26
Alignment explanation
Indices: 42915987--42916039 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
42915977 AAAAGTTGGG
42915987 GTAATTGTGTAAATTTGAAAAATTAA
1 GTAATTGTGTAAATTTGAAAAATTAA
42916013 GTAATTGTGTAAATTTGAAAAATTAA
1 GTAATTGTGTAAATTTGAAAAATTAA
42916039 G
1 G
42916040 GGGTATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (26 bp):
GTAATTGTGTAAATTTGAAAAATTAA
Found at i:42916523 original size:21 final size:21
Alignment explanation
Indices: 42916437--42916589 Score: 92
Period size: 21 Copynumber: 7.3 Consensus size: 21
42916427 TCGTGTTTAC
* * * *
42916437 TTTCCGTTTAGCTCTCACGAG
1 TTTCTGTTTAACTCTTATGAG
* *
42916458 TTTTTGTTTAACTCATATGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
42916479 TTTCCGTTTAGCTCTTTTGAG
1 TTTCTGTTTAACTCTTATGAG
* *
42916500 TTTCTGTTTAACCCTTATGGG
1 TTTCTGTTTAACTCTTATGAG
* * * *
42916521 TTTCCGTTCAGCTCTTAAGAG
1 TTTCTGTTTAACTCTTATGAG
* * *
42916542 CTTCTGTTCAACCCTTAT-ACG
1 TTTCTGTTTAACTCTTATGA-G
* **
42916563 TTTTTGTTTGGCTCTTATGAG
1 TTTCTGTTTAACTCTTATGAG
*
42916584 CTTCTG
1 TTTCTG
42916590 GTCAGCCTTC
Statistics
Matches: 95, Mismatches: 35, Indels: 4
0.71 0.26 0.03
Matches are distributed among these distances:
20 1 0.01
21 93 0.98
22 1 0.01
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCTTATGAG
Found at i:42916556 original size:42 final size:42
Alignment explanation
Indices: 42916437--42916559 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
42916427 TCGTGTTTAC
* * * * *
42916437 TTTCCGTTTAGCTCTCACGAGTTTTTGTTTAACTCATATGAG
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
** *
42916479 TTTCCGTTTAGCTCTTTTGAGTTTCTGTTTAACCCTTATGGG
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
* * *
42916521 TTTCCGTTCAGCTCTTAAGAGCTTCTGTTCAACCCTTAT
1 TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTAT
42916560 ACGTTTTTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 69 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
TTTCCGTTTAGCTCTTAAGAGTTTCTGTTTAACCCTTATGAG
Found at i:42918409 original size:50 final size:53
Alignment explanation
Indices: 42918301--42918428 Score: 138
Period size: 56 Copynumber: 2.4 Consensus size: 53
42918291 ATTTGGGTAA
* *
42918301 AGAGATCCCATGTAAGACTATGTCTGGGACATGACATTGGCATCATTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCA-TGAGA--ATG
***
42918357 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCA-C-TGAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATGAGAATG
*
42918407 AGAGGTTCCC-CGTAAGACCATG
1 AGAGG-TCCCATGTAAGACCATG
42918429 AGAACTCCCA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
50 19 0.29
51 4 0.06
53 4 0.06
55 1 0.02
56 37 0.57
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATGAGAATG
Found at i:42918790 original size:17 final size:17
Alignment explanation
Indices: 42918766--42918805 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
42918756 CCAATATTGA
42918766 AAAATCCACTTTAAGTC
1 AAAATCCACTTTAAGTC
*
42918783 AGAATCCACTTTAAGTC
1 AAAATCCACTTTAAGTC
42918800 AAAATC
1 AAAATC
42918806 AATATTAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (17 bp):
AAAATCCACTTTAAGTC
Found at i:42920504 original size:50 final size:51
Alignment explanation
Indices: 42920440--42920573 Score: 175
Period size: 50 Copynumber: 2.6 Consensus size: 51
42920430 ACTTTTATCA
* *
42920440 TTCGATACACGTAGTAGCCTTCATATAGTACTACACACGTGATC-AAG-TT
1 TTCGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
* * *
42920489 TTACGGTTCACGTAGTAGCCTTTACATAGTACTACACACGTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
*
42920541 TTCGGTACACATAGTAGCCTTCACT-TAGTACTA
1 TTCGGTACACGTAGTAGCCTTCA-TATAGTACTA
42920574 GCCTTTACAC
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
49 2 0.03
50 37 0.51
51 29 0.40
52 4 0.06
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TTCGGTACACGTAGTAGCCTTCATATAGTACTACACACGTGACCAAAGCTT
Found at i:42920581 original size:68 final size:68
Alignment explanation
Indices: 42920504--42920641 Score: 240
Period size: 68 Copynumber: 2.0 Consensus size: 68
42920494 GTTCACGTAG
* *
42920504 TAGCCTTTACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAG
1 TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
42920569 TAC
66 TAC
* *
42920572 TAGCCTTTACACAGTACTATACACGTGACCAAAGCTTGTCGGTACACATTGTAGCCTTCACTTAG
1 TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
42920637 TAC
66 TAC
42920640 TA
1 TA
42920642 CACATGTGAC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 66 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (68 bp):
TAGCCTTTACACAGTACTACACACGTGACCAAAGCTTGTCGGTACACATAGTAGCCTTCACTTAG
TAC
Found at i:42925102 original size:40 final size:39
Alignment explanation
Indices: 42925071--42925280 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
42925061 GGACTAAGAT
* *
42925071 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
42925111 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
42925151 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
42925191 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
42925231 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
42925270 CCGAAGGCATT
1 CCGAAGGCATT
42925281 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:42925234 original size:120 final size:120
Alignment explanation
Indices: 42925018--42925280 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
42925008 TTGAATGCTG
* *
42925018 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
42925082 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
42925138 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
42925201 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
42925257 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42925281 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42925300 original size:79 final size:80
Alignment explanation
Indices: 42925071--42925315 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
42925061 GGACTAAGAT
* * * * * * * ** *
42925071 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
42925134 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
42925151 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
42925216 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
42925231 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
42925295 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
42925309 CCGAAGG
1 CCGAAGG
42925316 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:42931130 original size:33 final size:33
Alignment explanation
Indices: 42931093--42931161 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
42931083 TGTCCCAGAC
42931093 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
1 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
42931126 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
1 ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
42931159 ATG
1 ATG
42931162 CCATATCCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.19, C:0.17, G:0.25, T:0.39
Consensus pattern (33 bp):
ATGGTCTTACATGGGATGTTTCTTGTACTGCCA
Found at i:42931280 original size:50 final size:50
Alignment explanation
Indices: 42931154--42931350 Score: 198
Period size: 49 Copynumber: 3.8 Consensus size: 50
42931144 TTTCTTGTAC
* * * ** *
42931154 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
** *
42931204 TGCC-ATGCCATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
* *
42931253 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATGTTCTCAATGA
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCA---TATC---GA
* * * *
42931309 TGCCAATGTCATGTCCCAGGCATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCT
42931351 TTACCCAAAT
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
49 40 0.33
50 40 0.33
53 4 0.03
56 39 0.32
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCGA
Found at i:42940118 original size:19 final size:19
Alignment explanation
Indices: 42940094--42940134 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
42940084 TATTTTAAAG
42940094 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
42940113 TTATTTAGGTAGATAAATC
1 TTATTTAGGTAGATAAATC
42940132 TTA
1 TTA
42940135 GAATAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.15, T:0.44
Consensus pattern (19 bp):
TTATTTAGGTAGATAAATC
Found at i:42941151 original size:49 final size:47
Alignment explanation
Indices: 42941088--42941213 Score: 150
Period size: 46 Copynumber: 2.7 Consensus size: 47
42941078 AATTATAAAA
*
42941088 TCAAATAATTATTTCAAATATCACAATTATTTTTACATGTGAAATATT
1 TCAAAAAATTATTTCAAATATCA-AATTATTTTTACATGTGAAATATT
** *
42941136 TCAAAAAAATTATTTCAAATAT--TTTTATTTTTATATGTGAAATATT
1 TC-AAAAAATTATTTCAAATATCAAATTATTTTTACATGTGAAATATT
* *
42941182 TCAAATAATTAATTCAAATATCAATATT-TTTT
1 TCAAAAAATTATTTCAAATATCAA-ATTATTTT
42941214 CACCTGCATT
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
45 17 0.26
46 23 0.35
47 4 0.06
48 4 0.06
49 18 0.27
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (47 bp):
TCAAAAAATTATTTCAAATATCAAATTATTTTTACATGTGAAATATT
Found at i:42941210 original size:45 final size:45
Alignment explanation
Indices: 42941088--42941212 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 45
42941078 AATTATAAAA
42941088 TCAAATAATTATTTCAAATATCACAATTATTTTTACATGTGAAATATT
1 TCAAATAATTATTTCAAATAT--CAA-TATTTTTACATGTGAAATATT
* *** *
42941136 TCAAAAAAATTATTTCAAATATTTTTATTTTTATATGTGAAATATT
1 TC-AAATAATTATTTCAAATATCAATATTTTTACATGTGAAATATT
*
42941182 TCAAATAATTAATTCAAATATCAATATTTTT
1 TCAAATAATTATTTCAAATATCAATATTTTT
42941213 TCACCTGCAT
Statistics
Matches: 66, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
45 24 0.36
46 22 0.33
48 2 0.03
49 18 0.27
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.46
Consensus pattern (45 bp):
TCAAATAATTATTTCAAATATCAATATTTTTACATGTGAAATATT
Found at i:42945234 original size:15 final size:15
Alignment explanation
Indices: 42945214--42945242 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42945204 AAATGTTTCA
42945214 TTAAATATATTCAGT
1 TTAAATATATTCAGT
42945229 TTAAATATATTCAG
1 TTAAATATATTCAG
42945243 CAGTAGTACT
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:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
TTAAATATATTCAGT
Found at i:42945447 original size:13 final size:13
Alignment explanation
Indices: 42945429--42945453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42945419 AAATCTGTTT
42945429 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
42945442 TGAGTGCTGCTC
1 TGAGTGCTGCTC
42945454 TTGTTAAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:42947017 original size:16 final size:16
Alignment explanation
Indices: 42946996--42947034 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
42946986 ATTTTTGTTA
42946996 TAAGAATATTGATTAT
1 TAAGAATATTGATTAT
42947012 TAAGAATATTGATTAT
1 TAAGAATATTGATTAT
42947028 TAAGAAT
1 TAAGAAT
42947035 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (16 bp):
TAAGAATATTGATTAT
Found at i:42947175 original size:17 final size:18
Alignment explanation
Indices: 42947155--42947188 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
42947145 ATTATTAAGA
*
42947155 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAAATATAT
42947172 ATTTTAATTAAAATATA
1 ATTTTAATTAAAATATA
42947189 AATCCAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTAATTAAAATATAT
Found at i:42947337 original size:20 final size:20
Alignment explanation
Indices: 42947312--42947366 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
42947302 TGCTGATGTA
42947312 TTTTGCTATTGTTTTCATCG
1 TTTTGCTATTGTTTTCATCG
* * *
42947332 TTTTGCTGTTGTGTTTTATTG
1 TTTTGCTATTGT-TTTCATCG
* *
42947353 TTTTACTATCGTTT
1 TTTTGCTATTGTTT
42947367 CGTTATTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.09, C:0.11, G:0.16, T:0.64
Consensus pattern (20 bp):
TTTTGCTATTGTTTTCATCG
Found at i:42960344 original size:36 final size:36
Alignment explanation
Indices: 42960293--42960412 Score: 109
Period size: 36 Copynumber: 3.3 Consensus size: 36
42960283 AATACCAACT
* * *
42960293 AAACACACCAGATGCTCAGAAGAATTAGTCCATCCG
1 AAACACACCAAATGCTCAGAAGAATTAATCCATCAG
* ** *
42960329 AAACACACCAAATGCTCATTAA-AGCTAATCCATCTG
1 AAACACACCAAATGCTCA-GAAGAATTAATCCATCAG
* * * *
42960365 AAACACACC-AGTAGCTCCGAAGATTTAATCCAACAG
1 AAACACACCAAAT-GCTCAGAAGAATTAATCCATCAG
42960401 AAACACACCAAA
1 AAACACACCAAA
42960413 ATAGAGAGTA
Statistics
Matches: 66, Mismatches: 14, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
35 4 0.06
36 59 0.89
37 3 0.05
ACGTcount: A:0.43, C:0.28, G:0.12, T:0.17
Consensus pattern (36 bp):
AAACACACCAAATGCTCAGAAGAATTAATCCATCAG
Found at i:42961859 original size:3 final size:3
Alignment explanation
Indices: 42961853--42961884 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
42961843 TTATAATAAT
42961853 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
42961885 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:42962721 original size:25 final size:25
Alignment explanation
Indices: 42962673--42962721 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
42962663 CATAATTGAA
* *
42962673 ATGAAATGAATTGATTTTGTATATT
1 ATGAAATGAATTGATTATGAATATT
42962698 ATGAAAT-ATATTGATTATGAATAT
1 ATGAAATGA-ATTGATTATGAATAT
42962722 ATGTGTATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 20 0.95
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (25 bp):
ATGAAATGAATTGATTATGAATATT
Found at i:42963895 original size:49 final size:49
Alignment explanation
Indices: 42963807--42963900 Score: 127
Period size: 49 Copynumber: 1.9 Consensus size: 49
42963797 TCAAAAAGGC
* * *
42963807 ATAAATAGTGATAAGAGTATAGAAAATGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTATAGAAAATGAAAAACCAAGTTTAGCAATGT
* *
42963856 ATAAATAGTGATAAGAGTGTA-AACAGTGAAAAACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTATAGAA-AATGAAAAACCAAGTTTAGCA
42963901 TTGCATAGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 2 0.05
49 37 0.95
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.24
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGAAAATGAAAAACCAAGTTTAGCAATGT
Found at i:42976856 original size:10 final size:10
Alignment explanation
Indices: 42976841--42976871 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
42976831 CAAATTTCTA
42976841 TTTCTTTTTT
1 TTTCTTTTTT
*
42976851 TTTCTTATTT
1 TTTCTTTTTT
42976861 TTTCTTTTTT
1 TTTCTTTTTT
42976871 T
1 T
42976872 GCCGATTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:42982289 original size:44 final size:44
Alignment explanation
Indices: 42982227--42982312 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
42982217 AGATAAGAAT
* *
42982227 TGGTAACTTCAATTTGCTCCACTGCAACTTCAAGG-AGATAAGGC
1 TGGTAACTTAAATCTGCTCCACTGCAACTTC-AGGAAGATAAGGC
*
42982271 TGGTGACTTAAATCTGCTCCACTGCAACTTCAGGAAGATAAG
1 TGGTAACTTAAATCTGCTCCACTGCAACTTCAGGAAGATAAG
42982313 ATCTGCCATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
43 3 0.08
44 35 0.92
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (44 bp):
TGGTAACTTAAATCTGCTCCACTGCAACTTCAGGAAGATAAGGC
Found at i:42982491 original size:143 final size:143
Alignment explanation
Indices: 42982241--42983315 Score: 1387
Period size: 143 Copynumber: 7.5 Consensus size: 143
42982231 AACTTCAATT
* * * *
42982241 TGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGACTTAAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * * *
42982306 AGATAAGATCTGCCATAGTTTGTAGCTTTAATCTGTTCCACTGCAGCGCTAGGGAAATAAAATCC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
*
42982371 GCTGTCTTCAGTC
131 ACTGTCTTCAGTC
* * * *
42982384 TACTCCGCTGTAAATTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* ** * * *
42982449 AGATAATATCCACCATAATTTTTAGCTTTAATCTATTCCACTGCAACGCCAGGGAAATAAGATCT
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
* *
42982514 GCTATCTTCAGTC
131 ACTGTCTTCAGTC
* * * * * * * *
42982527 TGCTTCGCTGCAAATTCAGGGAGACAAGGCTGGTGGTTTCAATCTACTCTACTGCAACTTTAGAA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
42982592 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
42982657 ACTGTCTTCAGTC
131 ACTGTCTTCAGTC
* *
42982670 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGTTTCAATCTGCTCCACTACAACTTCAGGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * * * * * *
42982735 AGATAATATCTGCCAAAATTTGTAGCTTTAATTTGTTCCACTACAACACTAGGGAAATAAGATTC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
* * *
42982800 GCTATCTTTAGTC
131 ACTGTCTTCAGTC
* * * * *
42982813 TGCTCTGTTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCACTGCAACTTTACGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * *
42982878 AGATAAAAT-TCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGAGAAATAAGATC
66 AGATAAGATCT-GCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATC
* *
42982942 TACCGTCTTCAGTC
130 CACTGTCTTCAGTC
*
42982956 TGCTCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * * * *
42983021 AGATAAGATCTGCCATGATTTGTAGCTTTAATCTGTTCCACTGCAATGCTAGGGAGATAAGATTC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
42983086 ACTGTCTTCAGTC
131 ACTGTCTTCAGTC
* * * *
42983099 TGTTTCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * ** * ** * * *
42983164 AGATAAGATCTGTCATGATTTGTAGAGTTAATCTATTCCACTATAACTCCAGGGAGATCAGATCC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
* *
42983229 ACTATCTTTAGTC
131 ACTGTCTTCAGTC
* * * * * * * * *
42983242 TGCTCTGCTGTAACTTTAGGGTGATAAGGCTGGTGGCTTCAATATGCTGCACTGCGACTTTAAGA
1 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
*
42983307 AGATGAGAT
66 AGATAAGAT
42983316 TTGCTGTAAT
Statistics
Matches: 808, Mismatches: 122, Indels: 4
0.87 0.13 0.00
Matches are distributed among these distances:
142 1 0.00
143 806 1.00
144 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (143 bp):
TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATCC
ACTGTCTTCAGTC
Found at i:42983047 original size:429 final size:429
Alignment explanation
Indices: 42982241--42983310 Score: 1539
Period size: 429 Copynumber: 2.5 Consensus size: 429
42982231 AACTTCAATT
* * *
42982241 TGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGACTTAAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * * * *
42982306 AGATAAGATCTGCCATAGTTTGTAGCTTTAATCTGTTCCACTGCAGCGCTAGGGAAATAAAATCC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACTAGGGAAATAAGATCC
* * * * *
42982371 GCTGTCTTCAGTCTACTCCGCTGTAAATTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
131 GCTATCTTTAGTCTGCTCTGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
* * * *
42982436 TGCAACTTCAGGAAGATAATATCCACCATAATTTTTAGCTTTAATCTATTCCACTGCAACGCCAG
196 TGCAACTTTAAGAAGATAAAATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAG
* * * *
42982501 GGAAATAAGATCTGCTATCTTCAGTCTGCTTCGCTGCAAATTCAGGGAGACAAGGCTGGTGGTTT
261 AGAAATAAGATCTACCATCTTCAGTCTGCTTCGCTGCAAATTCAGGGAGACAAGGCTGGTGGCTT
* *
42982566 CAATCTACTCTACTGCAACTTTAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCC
326 CAATCTACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCC
42982631 ACTGCAACGCCAGGGAAATAAGATCCACTGTCTTCAGTC
391 ACTGCAACGCCAGGGAAATAAGATCCACTGTCTTCAGTC
* * *
42982670 TGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGTTTCAATCTGCTCCACTACAACTTCAGGA
1 TGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * * *
42982735 AGATAATATCTGCCAAAATTTGTAGCTTTAATTTGTTCCACTACAACACTAGGGAAATAAGATTC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACTAGGGAAATAAGATCC
* * * *
42982800 GCTATCTTTAGTCTGCTCTGTTGCAACTTCAGGGAGATAAGGTTGGTGGCTTCAATCTGCTCCAC
131 GCTATCTTTAGTCTGCTCTGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
* * *
42982865 TGCAACTTTACGAAGATAAAATTCACCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAG
196 TGCAACTTTAAGAAGATAAAATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAG
* * *
42982930 AGAAATAAGATCTACCGTCTTCAGTCTGC-TCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCT
261 AGAAATAAGATCTACCATCTTCAGTCTGCTTC-GCTGCAAATTCAGGGAGACAAGGCTGGTGGCT
* * *
42982994 TCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATGATTTGTAGCTTTAATCTGTTC
325 TCAATCTACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTC
* * * *
42983059 CACTGCAATGCTAGGGAGATAAGATTCACTGTCTTCAGTC
390 CACTGCAACGCCAGGGAAATAAGATCCACTGTCTTCAGTC
* * *
42983099 TGTTTCGCTGCAACTTCAAGGAGATAAGGCTAGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
1 TGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
* * ** * * * * * *
42983164 AGATAAGATCTGTCATGATTTGTAGAGTTAATCTATTCCACTATAACTCCAGGGAGATCAGATCC
66 AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACTAGGGAAATAAGATCC
* * * *
42983229 ACTATCTTTAGTCTGCTCTGCTGTAACTTTAGGGTGATAAGGCTGGTGGCTTCAATATGCTGCAC
131 GCTATCTTTAGTCTGCTCTGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
*
42983294 TGCGACTTTAAGAAGAT
196 TGCAACTTTAAGAAGAT
42983311 GAGATTTGCT
Statistics
Matches: 564, Mismatches: 76, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
428 2 0.00
429 562 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (429 bp):
TGCTCCGCTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGA
AGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTACAACACTAGGGAAATAAGATCC
GCTATCTTTAGTCTGCTCTGCTGTAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCAC
TGCAACTTTAAGAAGATAAAATCCACCATAATTTGTAGCTTTAATCTATTCCACTGCAACGCCAG
AGAAATAAGATCTACCATCTTCAGTCTGCTTCGCTGCAAATTCAGGGAGACAAGGCTGGTGGCTT
CAATCTACTCCACTGCAACTTCAGAAAGATAAGATCTGCCATAATTTGTAGCTTTAATCTGTTCC
ACTGCAACGCCAGGGAAATAAGATCCACTGTCTTCAGTC
Found at i:42983156 original size:44 final size:45
Alignment explanation
Indices: 42982948--42983170 Score: 141
Period size: 44 Copynumber: 4.8 Consensus size: 45
42982938 GATCTACCGT
* ** * *
42982948 CTTCAGTCTGCTCTGCTGCAACTTCAGGGAGATAAGGCT-GGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTCAGTGG
*
42982992 CTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAGATCTGCCATGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAG-GCT--CA-G---TG--G
* * * * ** * *
42983046 CTTTAATCTGTTCCACTGCAA-TGCTAGGGAGATAAGATTCACTGT
1 CTTCAATCTGCTCCACTGCAACTTC-AAGGAGATAAGGCTCAGTGG
* * * *
42983091 CTTCAGTCTGTTTCGCTGCAACTTCAAGGAGATAAGGCT-AGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTCAGTGG
42983135 CTTCAATCTGCTCCACTGCAACTTC-AGGAAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAG
42983171 ATCTGTCATG
Statistics
Matches: 136, Mismatches: 28, Indels: 30
0.70 0.14 0.15
Matches are distributed among these distances:
43 5 0.04
44 60 0.44
45 30 0.22
46 2 0.01
47 2 0.01
49 1 0.01
51 2 0.01
52 2 0.01
53 3 0.02
54 27 0.20
55 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGGCTCAGTGG
Found at i:42989520 original size:30 final size:30
Alignment explanation
Indices: 42989486--42989544 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
42989476 CGGCTCAATG
* *
42989486 ATGTTGGACATAAGCCTATCTCTCAAAAGC
1 ATGTTGGACATAAGCCTATCCCACAAAAGC
42989516 ATGTTGGACATAAGCCTATCCCACAAAAG
1 ATGTTGGACATAAGCCTATCCCACAAAAG
42989545 AATTCTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (30 bp):
ATGTTGGACATAAGCCTATCCCACAAAAGC
Found at i:42991384 original size:39 final size:39
Alignment explanation
Indices: 42991312--42991419 Score: 141
Period size: 40 Copynumber: 2.7 Consensus size: 39
42991302 CCGAATGTAA
42991312 TAAATATATTTTTTTA-TTTTTTATTTTTAAAAATA-TTT
1 TAAA-ATATTTTTTTATTTTTTTATTTTTAAAAATATTTT
42991350 TAAACATATTTTTTTATTTTTTTTATTTTT-AAAATATTTT
1 TAAA-ATATTTTTTTA-TTTTTTTATTTTTAAAAATATTTT
*
42991390 TAAAATAATTTTTTTAATTTTTTAATTTTT
1 TAAAAT-ATTTTTTT-ATTTTTTTATTTTT
42991420 TTAGTTTTTA
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
38 15 0.24
39 8 0.13
40 39 0.62
41 1 0.02
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (39 bp):
TAAAATATTTTTTTATTTTTTTATTTTTAAAAATATTTT
Found at i:42991390 original size:12 final size:12
Alignment explanation
Indices: 42991374--42991402 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
42991364 TATTTTTTTT
42991374 ATTTTTAAAAT-
1 ATTTTTAAAATA
42991385 ATTTTTAAAATA
1 ATTTTTAAAATA
42991397 ATTTTT
1 ATTTTT
42991403 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTTTAAAATA
Found at i:42991409 original size:9 final size:9
Alignment explanation
Indices: 42991395--42991433 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
42991385 ATTTTTAAAA
42991395 TAATTTTTT
1 TAATTTTTT
42991404 TAA-TTTTT
1 TAATTTTTT
42991412 TAATTTTTT
1 TAATTTTTT
*
42991421 TAGTTTTTAT
1 TAATTTTT-T
42991431 TAA
1 TAA
42991434 AAAATGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 8 0.31
9 15 0.58
10 3 0.12
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TAATTTTTT
Found at i:42991417 original size:17 final size:17
Alignment explanation
Indices: 42991395--42991428 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42991385 ATTTTTAAAA
42991395 TAATTTTTTTAATTTTT
1 TAATTTTTTTAATTTTT
*
42991412 TAATTTTTTTAGTTTTT
1 TAATTTTTTTAATTTTT
42991429 ATTAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (17 bp):
TAATTTTTTTAATTTTT
Found at i:42993094 original size:50 final size:53
Alignment explanation
Indices: 42992997--42993093 Score: 130
Period size: 50 Copynumber: 1.9 Consensus size: 53
42992987 ATTTTAAGAT
*
42992997 AAATAGATACACACATAATATTAAATTTAAATATCTTAAAAGTAAAAATGAAC
1 AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAATGAAC
* * *
42993050 AAATAGATA-A-A-ATAATATTAAACTTAGATAT-TTTAGAGTAAAAA
1 AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAA
42993094 AAATGATAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
49 11 0.28
50 18 0.45
51 1 0.03
52 1 0.03
53 9 0.22
ACGTcount: A:0.57, C:0.06, G:0.07, T:0.30
Consensus pattern (53 bp):
AAATAGATACACACATAATATTAAACTTAAATATCTTAAAAGTAAAAATGAAC
Found at i:43003769 original size:18 final size:18
Alignment explanation
Indices: 43003743--43003785 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
43003733 CTGCATCTCT
*
43003743 TCATCATATGTAAGTGGG
1 TCATTATATGTAAGTGGG
*
43003761 TCATTATATGTGAGTGGG
1 TCATTATATGTAAGTGGG
43003779 TCATTAT
1 TCATTAT
43003786 CTTCCTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (18 bp):
TCATTATATGTAAGTGGG
Found at i:43009634 original size:20 final size:21
Alignment explanation
Indices: 43009590--43009637 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
43009580 GAACATGTTA
43009590 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
43009612 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
43009632 ATTTTT
1 ATTTTT
43009638 GACAGATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:43011428 original size:14 final size:14
Alignment explanation
Indices: 43011409--43011438 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43011399 AGTAAGAGAG
*
43011409 GAGAGAAGAGTTGT
1 GAGAGAAGAGATGT
43011423 GAGAGAAGAGATGT
1 GAGAGAAGAGATGT
43011437 GA
1 GA
43011439 ATGAGGGACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.43, T:0.17
Consensus pattern (14 bp):
GAGAGAAGAGATGT
Found at i:43018876 original size:111 final size:111
Alignment explanation
Indices: 43018682--43018907 Score: 416
Period size: 111 Copynumber: 2.0 Consensus size: 111
43018672 TCCATGATGA
*
43018682 GGAACATTCGTAATAACTCTTTGTACCTTTCCTATGCTTCATACAGGGACTCATCATCCATTTGT
1 GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
*
43018747 TGGAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
66 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
* *
43018793 GGAACTTTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTTT
1 GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
43018858 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
66 TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
43018904 GGAA
1 GGAA
43018908 ATACTTCATG
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 111 1.00
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (111 bp):
GGAACATTCGTAATAACTCTTTGTACCTTTCCCATGCTTCATACAGGGACTCATCATCCATTTGT
TGAAAGGCAGTGATCTCATTCCTCAACTTGGCATTCTTGCTCGGCG
Done.