Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 113 of 144
Found at i:34967859 original size:21 final size:21
Alignment explanation
Indices: 34967835--34967876 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
34967825 TCCTATTCTG
*
34967835 CTCCACCTCCCTCGCTGCTGC
1 CTCCACATCCCTCGCTGCTGC
*
34967856 CTCCGCATCCCTCGCTGCTGC
1 CTCCACATCCCTCGCTGCTGC
34967877 TTCTACTCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.55, G:0.17, T:0.24
Consensus pattern (21 bp):
CTCCACATCCCTCGCTGCTGC
Found at i:34981708 original size:15 final size:15
Alignment explanation
Indices: 34981688--34981718 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34981678 CAAATAATAA
*
34981688 TATATATATTTATCT
1 TATATACATTTATCT
34981703 TATATACATTTATCT
1 TATATACATTTATCT
34981718 T
1 T
34981719 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:34981781 original size:22 final size:22
Alignment explanation
Indices: 34981751--34981792 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
34981741 ACTCTAAATT
34981751 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
34981773 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
34981793 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:34982122 original size:25 final size:25
Alignment explanation
Indices: 34982087--34982138 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
34982077 TTTCTAGCTA
34982087 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
34982112 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
34982137 AT
1 AT
34982139 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:34982338 original size:36 final size:38
Alignment explanation
Indices: 34982297--34982372 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
34982287 CTTCAAATAC
* * *
34982297 TAGTTAACTCCTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
34982333 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATA
1 TAGTTAACTCATAAACCTGC-TAAACCCTAAACCATATA
34982372 T
1 T
34982373 CTTAAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
39 17 0.50
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
Found at i:34982799 original size:41 final size:41
Alignment explanation
Indices: 34982550--34982784 Score: 298
Period size: 41 Copynumber: 5.8 Consensus size: 41
34982540 GGTTTATGAC
*
34982550 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*
34982591 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
**
34982632 TTTTAGCGTTGTTTTACCTAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
** *
34982673 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* ** *
34982713 TTTTAGCGGCGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
34982754 TTTTAGTGGCGTTTT-CCTTAAGACGCCGCTA
1 TTTTAGCGGCGTTTTACCTAAAG-CGCCGCTA
34982785 TTGCTCTGTA
Statistics
Matches: 172, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 8 0.05
40 19 0.11
41 140 0.81
42 5 0.03
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:34999082 original size:18 final size:19
Alignment explanation
Indices: 34999061--34999102 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
34999051 AAAAGTAATT
* *
34999061 TAAAAAG-ATAAATAAAGA
1 TAAAAAGTAAAAATAAAAA
34999079 T-AAAAGTAAAAATAAAAA
1 TAAAAAGTAAAAATAAAAA
34999097 TAAAAA
1 TAAAAA
34999103 TTAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
TAAAAAGTAAAAATAAAAA
Found at i:34999090 original size:7 final size:6
Alignment explanation
Indices: 34999070--34999103 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
34999060 TTAAAAAGAT
* *
34999070 AAATAA AGATAA AAGTAA AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
34999104 TAATAATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (6 bp):
AAATAA
Found at i:35005619 original size:20 final size:20
Alignment explanation
Indices: 35005583--35005621 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35005573 TTCACGTTGA
*
35005583 CCCATTTTCTCTATTTTTTG
1 CCCATTTTCGCTATTTTTTG
35005603 CCCATTTCTCGCT-TTTTTT
1 CCCATTT-TCGCTATTTTTT
35005622 ACACTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.28, G:0.05, T:0.59
Consensus pattern (20 bp):
CCCATTTTCGCTATTTTTTG
Found at i:35016135 original size:31 final size:32
Alignment explanation
Indices: 35016097--35016158 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 32
35016087 ACGAGTCAAT
35016097 TCGAAACAAATTCATTCAATAAAATT-TTAAC
1 TCGAAACAAATTCATTCAATAAAATTATTAAC
35016128 TCGAAACAAATTCATTCAATAAAATTATTAA
1 TCGAAACAAATTCATTCAATAAAATTATTAA
35016159 AATAACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (32 bp):
TCGAAACAAATTCATTCAATAAAATTATTAAC
Found at i:35017031 original size:14 final size:16
Alignment explanation
Indices: 35016999--35017033 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35016989 AGTACTTCAA
*
35016999 TTTTTAATACTTAATT
1 TTTTTAACACTTAATT
35017015 TTTTTAACACTT-ATT
1 TTTTTAACACTTAATT
35017030 TTTT
1 TTTT
35017034 CAGTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAACACTTAATT
Found at i:35025939 original size:12 final size:12
Alignment explanation
Indices: 35025922--35025947 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
35025912 CACACGCCCA
35025922 TGTGCTAGGCCG
1 TGTGCTAGGCCG
35025934 TGTGCTAGGCCG
1 TGTGCTAGGCCG
35025946 TG
1 TG
35025948 CCAAACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.23, G:0.42, T:0.27
Consensus pattern (12 bp):
TGTGCTAGGCCG
Found at i:35027103 original size:40 final size:40
Alignment explanation
Indices: 35027002--35027184 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
35026992 AAATTCTCGT
* *
35027002 ACACTAAGTGCCAATACATAGCCGAAGCTATTTC-AATCTCGC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TCAC
* * * *
35027044 ACACTAAGTGACATTCATAGCCGAATCTATCTCGACTCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* * ** *
35027084 GCACTAAGTGCTATACATAGTTGAAGCTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
*
35027124 ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
*
35027164 ACACTAAGTACCATACATAGC
1 ACACTAAGTGCCATACATAGC
35027185 TGAATTGTCG
Statistics
Matches: 118, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 88 0.75
41 18 0.15
42 12 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
Found at i:35031958 original size:39 final size:40
Alignment explanation
Indices: 35031913--35032044 Score: 176
Period size: 40 Copynumber: 3.3 Consensus size: 40
35031903 GCTCCTCGTT
* * *
35031913 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
35031953 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35031992 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
35032032 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
35032045 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 34 0.43
40 46 0.57
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:35032106 original size:41 final size:41
Alignment explanation
Indices: 35032029--35032106 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35032019 TTAGTATCTC
* * *
35032029 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35032070 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35032107 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35041605 original size:40 final size:40
Alignment explanation
Indices: 35041507--35041769 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
35041497 TCCTCGTTCA
* * * * *
35041507 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
35041546 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35041586 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35041626 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35041666 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
35041706 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35041746 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35041770 CAGCATTCAA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 38 0.19
40 156 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35041778 original size:41 final size:41
Alignment explanation
Indices: 35041701--35041778 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35041691 TTAGTATCTC
* * *
35041701 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35041742 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35041779 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35046958 original size:40 final size:40
Alignment explanation
Indices: 35046854--35047041 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
35046844 CGAATTGTCG
* * *
35046854 CACACTAAGTGCCAATACATAGCTGAAGCTATTTC-AATCTTG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAATC--A
** * *
35046896 CATTCTAAGTTCCATACATAGCCGAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * *
35046936 CACACTAAGTGCCATACTTAGCCAAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
*
35046976 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * *
35047016 CACACTAAGTGTCGTACATAGTCGAA
1 CACACTAAGTGCCATACATAGCCGAA
35047042 TTGTAGTAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 92 0.74
41 19 0.15
42 14 0.11
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
Found at i:35059711 original size:18 final size:18
Alignment explanation
Indices: 35059676--35059789 Score: 97
Period size: 18 Copynumber: 6.3 Consensus size: 18
35059666 CAGTCAGTCA
* * *
35059676 TCAGTAATAATTAGTTAT
1 TCAGTAATAGTCAATTAT
* *
35059694 TCAGTAATGGTCATTTAT
1 TCAGTAATAGTCAATTAT
*
35059712 TCAAT-ATCAGTCAATTAT
1 TCAGTAAT-AGTCAATTAT
*
35059730 TCAGTAGTAGTCAATTAT
1 TCAGTAATAGTCAATTAT
*
35059748 TCAGTAACAGTC-ATTGAT
1 TCAGTAATAGTCAATT-AT
* * *
35059766 TCAATAACAGTCGATTAT
1 TCAGTAATAGTCAATTAT
35059784 TCAGTA
1 TCAGTA
35059790 GCGATCAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
17 5 0.06
18 70 0.89
19 4 0.05
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (18 bp):
TCAGTAATAGTCAATTAT
Found at i:35059798 original size:54 final size:54
Alignment explanation
Indices: 35059690--35059799 Score: 150
Period size: 54 Copynumber: 2.0 Consensus size: 54
35059680 TAATAATTAG
** * * *
35059690 TTATTCAGTAATGGTCATTTATTCAATATCAGTCAATTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
*
35059744 TTATTCAGTAACAGTCATTGATTCAATAACAGTCGATTATTCAGTAGCGA-TCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAG-GAGTCAA
35059798 TT
1 TT
35059800 TTTAGTACAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 48 0.98
55 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.38
Consensus pattern (54 bp):
TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
Found at i:35066400 original size:46 final size:46
Alignment explanation
Indices: 35066350--35066525 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35066340 TGGTTGAGCA
35066350 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35066396 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
35066441 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
35066489 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35066526 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:35066506 original size:93 final size:93
Alignment explanation
Indices: 35066347--35066518 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35066337 GGATGGTTGA
* *
35066347 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35066412 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
35066440 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35066505 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
35066519 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:35068202 original size:15 final size:15
Alignment explanation
Indices: 35068182--35068234 Score: 106
Period size: 15 Copynumber: 3.5 Consensus size: 15
35068172 ATAAATAAAT
35068182 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
35068197 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
35068212 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
35068227 TGGGGCAC
1 TGGGGCAC
35068235 GCCCGTGTGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.13, C:0.32, G:0.47, T:0.08
Consensus pattern (15 bp):
TGGGGCACACGGCCG
Found at i:35068240 original size:13 final size:14
Alignment explanation
Indices: 35068182--35068241 Score: 77
Period size: 15 Copynumber: 4.1 Consensus size: 14
35068172 ATAAATAAAT
35068182 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
35068197 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
35068212 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
*
35068227 TGGGG-CACGCCCG
1 TGGGGACACGGCCG
35068240 TG
1 TG
35068242 TGCCCTTATT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
13 9 0.20
15 35 0.80
ACGTcount: A:0.12, C:0.33, G:0.47, T:0.08
Consensus pattern (14 bp):
TGGGGACACGGCCG
Found at i:35087294 original size:30 final size:30
Alignment explanation
Indices: 35087259--35087328 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
35087249 TATTTTTGTC
*
35087259 CACACGGGCATGTGT-CTCAG-CAGTGTGCGA
1 CACACGGGCATGT-TACACAGCCA-TGTGCGA
*
35087289 CACACGGTCATGTTACACAGCCATGTGCGA
1 CACACGGGCATGTTACACAGCCATGTGCGA
*
35087319 CACATGGGCA
1 CACACGGGCA
35087329 AGTGGTCGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 31 0.91
31 2 0.06
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.19
Consensus pattern (30 bp):
CACACGGGCATGTTACACAGCCATGTGCGA
Found at i:35092683 original size:79 final size:80
Alignment explanation
Indices: 35092541--35092721 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
35092531 TACTCGTTCA
* **
35092541 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
35092606 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
35092621 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
35092683 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
35092700 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
35092722 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 58 0.67
80 26 0.30
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:35092723 original size:40 final size:40
Alignment explanation
Indices: 35092520--35092723 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
35092510 CGGAATTTAA
** *
35092520 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35092560 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35092600 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35092639 CCAGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35092679 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35092719 CCGGA
1 CCGGA
35092724 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35097812 original size:42 final size:43
Alignment explanation
Indices: 35097729--35097868 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 43
35097719 TAAATATAAA
* * *
35097729 ACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAG
1 ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
* *
35097772 ACCATGT-TGGGACATTGGCATCGTTAAT-CGATTTCCTGTAAG
1 ACCATGTCTGGGACATTGGCATCG-TAATGAGATTACCTGTAAG
* * ** * * * *
35097814 ACCCTATCTAAGACAGTGG-ATCG-ATATGTGATAACATGTAAG
1 ACCATGTCTGGGACATTGGCATCGTA-ATGAGATTACCTGTAAG
*
35097856 ACCATATCTGGGA
1 ACCATGTCTGGGA
35097869 TATGACATTC
Statistics
Matches: 76, Mismatches: 17, Indels: 9
0.75 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 55 0.72
43 18 0.24
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
Found at i:35103689 original size:26 final size:27
Alignment explanation
Indices: 35103645--35103703 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 27
35103635 TTACCTCGAC
35103645 CCCCTAATAGATAAAATGACTGTTATA
1 CCCCTAATAGATAAAATGACTGTTATA
* * *
35103672 CCCCTAAT-GGTAAAATGACTGTTTTG
1 CCCCTAATAGATAAAATGACTGTTATA
35103698 CCCCTA
1 CCCCTA
35103704 TGTGATGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.31
Consensus pattern (27 bp):
CCCCTAATAGATAAAATGACTGTTATA
Found at i:35110017 original size:28 final size:28
Alignment explanation
Indices: 35109983--35110110 Score: 238
Period size: 28 Copynumber: 4.6 Consensus size: 28
35109973 TAAATTGTAC
* *
35109983 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35110011 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35110039 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35110067 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
35110095 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
35110111 CTTGANNNNN
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 98 1.00
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:35119797 original size:28 final size:28
Alignment explanation
Indices: 35119759--35119812 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
35119749 TAAATTGTAC
35119759 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATGT
*
35119787 AGCACTAAGTGTGCGAGTTTGATTAT
1 AGCACTAAGTGTGCGAGCTTGATTAT
35119813 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATGT
Found at i:35122460 original size:23 final size:22
Alignment explanation
Indices: 35122412--35122460 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
35122402 TCTTCATTGT
*
35122412 TCATGCCAAAGAATTTTACTAT
1 TCATGCCAAAGAATTTTACTAC
*
35122434 TCATGCCAGAG-ATTCTTCACTAC
1 TCATGCCAAAGAATT-TT-ACTAC
35122457 TCAT
1 TCAT
35122461 TCATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 12 0.52
23 8 0.35
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.35
Consensus pattern (22 bp):
TCATGCCAAAGAATTTTACTAC
Found at i:35123640 original size:71 final size:73
Alignment explanation
Indices: 35123565--35123699 Score: 186
Period size: 71 Copynumber: 1.9 Consensus size: 73
35123555 ATACATTATC
* * *
35123565 ATTTCATGC-AGATATAATCATAGAAAACAATGAAAATAA-AA-ATATAGATTACATAATATATA
1 ATTTCATGCAAAATATAA-CACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATA
35123627 TATAATAAT
65 TATAATAAT
* **
35123636 ATTTCTTGCAAAATATAACACAGAAAACAATGAATCTAACAATATATAAATTACATAATATATA
1 ATTTCATGCAAAATATAACACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATA
35123700 ACAATATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
71 26 0.47
72 9 0.16
73 20 0.36
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (73 bp):
ATTTCATGCAAAATATAACACAGAAAACAATGAAAATAACAATATATAAATTACATAATATATAT
ATAATAAT
Found at i:35124235 original size:17 final size:17
Alignment explanation
Indices: 35124210--35124242 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35124200 ATAGGGAATA
35124210 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
35124227 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
35124243 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:35124272 original size:24 final size:22
Alignment explanation
Indices: 35124238--35124285 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
35124228 TATGTAATAA
35124238 AATATATAAATGAA-ATATAAAT
1 AATATATAAAT-AACATATAAAT
35124260 AATATGATAAAATAACATATAAAT
1 AATAT-AT-AAATAACATATAAAT
35124284 AA
1 AA
35124286 AAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AATATATAAATAACATATAAAT
Found at i:35127423 original size:27 final size:26
Alignment explanation
Indices: 35127383--35127494 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
35127373 AGGAAGCATC
*
35127383 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
35127410 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
35127437 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
35127465 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
35127491 CTGG
1 CTGG
35127495 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:35127487 original size:54 final size:54
Alignment explanation
Indices: 35127383--35127494 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
35127373 AGGAAGCATC
*
35127383 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
35127437 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
35127491 CTGG
1 CTGG
35127495 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:35146722 original size:501 final size:501
Alignment explanation
Indices: 35145780--35146782 Score: 1997
Period size: 501 Copynumber: 2.0 Consensus size: 501
35145770 CCTGTTTAAT
35145780 TCTATAGTCTTTTCTAGGATACGTTTAAGCTCTCGGTTCGCTACTTCGACTTGGCCACTAGTTTG
1 TCTATAGTCTTTTCTAGGATACGTTTAAGCTCTCGGTTCGCTACTTCGACTTGGCCACTAGTTTG
35145845 AAGGGGATAAGGGGTAGTTGTTCTGTAATGAACTCCGTATCTCTTAAGGATCTTATCGAATTAGG
66 AAGGGGATAAGGGGTAGTTGTTCTGTAATGAACTCCGTATCTCTTAAGGATCTTATCGAATTAGG
35145910 CGTTACAAAAATGAGTACCCCTATCATTGATAATTTCTCTAGGTGTACCAAATCGAGAGAAAAGT
131 CGTTACAAAAATGAGTACCCCTATCATTGATAATTTCTCTAGGTGTACCAAATCGAGAGAAAAGT
*
35145975 TTCTTAAGGAATCGTACTACTACTCTGGCATCATTAGTAGGTAAAGCTTGGGCTTCAACCCATTT
196 TTCTTAAGGAATCGTACTACTACTCTAGCATCATTAGTAGGTAAAGCTTGGGCTTCAACCCATTT
35146040 GGACATATAATCAACAGCTACTAAGATATATTTATTTCTGAATGTACTAGGGAACAGACCCATGA
261 GGACATATAATCAACAGCTACTAAGATATATTTATTTCTGAATGTACTAGGGAACAGACCCATGA
35146105 AGTCGATACCCCAAACGTCAAATATTTCACATGAGAGCATATATGTCTGAGGCATTTCATCACGT
326 AGTCGATACCCCAAACGTCAAATATTTCACATGAGAGCATATATGTCTGAGGCATTTCATCACGT
35146170 TTGGATATATTACCTGTCCTTTGACATTTGTCACAATAAGTAACACACCTGTTGGCATCTTTAAA
391 TTGGATATATTACCTGTCCTTTGACATTTGTCACAATAAGTAACACACCTGTTGGCATCTTTAAA
35146235 TAGAGTGGGCCAATAAAAACCTGATTTGAGGATTTTATGCGCGGTC
456 TAGAGTGGGCCAATAAAAACCTGATTTGAGGATTTTATGCGCGGTC
35146281 TCTATAGTCTTTTCTAGGATACGTTTAAGCTCTCGGTTCGCTACTTCGACTTGGCCACTAGTTTG
1 TCTATAGTCTTTTCTAGGATACGTTTAAGCTCTCGGTTCGCTACTTCGACTTGGCCACTAGTTTG
35146346 AAGGGGATAAGGGGTAGTTGTTCTGTAATGAACTCCGTATCTCTTAAGGATCTTATCGAATTAGG
66 AAGGGGATAAGGGGTAGTTGTTCTGTAATGAACTCCGTATCTCTTAAGGATCTTATCGAATTAGG
35146411 CGTTACAAAAATGAGTACCCCTATCATTGATAATTTCTCTAGGTGTACCAAATCGAGAGAAAAGT
131 CGTTACAAAAATGAGTACCCCTATCATTGATAATTTCTCTAGGTGTACCAAATCGAGAGAAAAGT
35146476 TTCTTAAGGAATCGTACTACTACTCTAGCATCATTAGTAGGTAAAGCTTGGGCTTCAACCCATTT
196 TTCTTAAGGAATCGTACTACTACTCTAGCATCATTAGTAGGTAAAGCTTGGGCTTCAACCCATTT
35146541 GGACATATAATCAACAGCTACTAAGATATATTTATTTCTGAATGTACTAGGGAACAGACCCATGA
261 GGACATATAATCAACAGCTACTAAGATATATTTATTTCTGAATGTACTAGGGAACAGACCCATGA
35146606 AGTCGATACCCCAAACGTCAAATATTTCACATGAGAGCATATATGTCTGAGGCATTTCATCACGT
326 AGTCGATACCCCAAACGTCAAATATTTCACATGAGAGCATATATGTCTGAGGCATTTCATCACGT
35146671 TTGGATATATTACCTGTCCTTTGACATTTGTCACAATAAGTAACACACCTGTTGGCATCTTTAAA
391 TTGGATATATTACCTGTCCTTTGACATTTGTCACAATAAGTAACACACCTGTTGGCATCTTTAAA
35146736 TAGAGTGGGCCAATAAAAACCTGATTTGAGGATTTTATGCGCGGTC
456 TAGAGTGGGCCAATAAAAACCTGATTTGAGGATTTTATGCGCGGTC
35146782 T
1 T
35146783 TATTTCCACC
Statistics
Matches: 501, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
501 501 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (501 bp):
TCTATAGTCTTTTCTAGGATACGTTTAAGCTCTCGGTTCGCTACTTCGACTTGGCCACTAGTTTG
AAGGGGATAAGGGGTAGTTGTTCTGTAATGAACTCCGTATCTCTTAAGGATCTTATCGAATTAGG
CGTTACAAAAATGAGTACCCCTATCATTGATAATTTCTCTAGGTGTACCAAATCGAGAGAAAAGT
TTCTTAAGGAATCGTACTACTACTCTAGCATCATTAGTAGGTAAAGCTTGGGCTTCAACCCATTT
GGACATATAATCAACAGCTACTAAGATATATTTATTTCTGAATGTACTAGGGAACAGACCCATGA
AGTCGATACCCCAAACGTCAAATATTTCACATGAGAGCATATATGTCTGAGGCATTTCATCACGT
TTGGATATATTACCTGTCCTTTGACATTTGTCACAATAAGTAACACACCTGTTGGCATCTTTAAA
TAGAGTGGGCCAATAAAAACCTGATTTGAGGATTTTATGCGCGGTC
Found at i:35151017 original size:20 final size:20
Alignment explanation
Indices: 35150992--35151037 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
35150982 TCAAAAAGTA
*
35150992 GTGGTCCTGACTGGTTTCTT
1 GTGGTCCTAACTGGTTTCTT
35151012 GTGGTCCTAACTGGTTTCTT
1 GTGGTCCTAACTGGTTTCTT
*
35151032 CTGGTC
1 GTGGTC
35151038 ATAAACTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.07, C:0.22, G:0.28, T:0.43
Consensus pattern (20 bp):
GTGGTCCTAACTGGTTTCTT
Found at i:35162139 original size:41 final size:40
Alignment explanation
Indices: 35162030--35162205 Score: 144
Period size: 41 Copynumber: 4.3 Consensus size: 40
35162020 GATATCTCGC
* * ** *
35162030 ACACTAAGTGCCAAAGCATAGCTAAAGCTATTACAATCTCGT
1 ACACTAAGTGCCATA-TATAGCCGAAGCTATT-CAATCACGT
* ** * *
35162072 ACACTAAGTGCC-TTTCATAGTTGAAGCTATATCAGTCCCGT
1 ACACTAAGTGCCATAT-ATAGCCGAAGCTAT-TCAATCACGT
35162113 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCAC--
1 ACACTAAGTGCCATATATAGCCGAAGCTATT-C-AATCACGT
** *
35162153 ACACTAAGTGCTTTATATAGCCGAAGCTATCTCAAT-ACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTAT-TCAATCACGT
35162193 ACACTAAGTGCCA
1 ACACTAAGTGCCA
35162206 AACATAATCA
Statistics
Matches: 110, Mismatches: 16, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 41 0.37
41 45 0.41
42 19 0.17
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCAATCACGT
Found at i:35162170 original size:40 final size:40
Alignment explanation
Indices: 35162113--35162205 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
35162103 TCAGTCCCGT
35162113 ACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAAT-CAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCT-C-AATACAC
** *
35162153 ACACTAAGTGCTTTATATAGCCGAAGCTATCTCAATACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACAC
35162193 ACACTAAGTGCCA
1 ACACTAAGTGCCA
35162206 AACATAATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACAC
Found at i:35162679 original size:29 final size:29
Alignment explanation
Indices: 35162615--35162680 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 29
35162605 TTTTCATTTA
* *
35162615 TTTCACAATTTAACCCCTCAATTTACATG
1 TTTCTCAATTTAACCCCTCAATATACATG
* * *
35162644 TTTCTCAATTTAATCCCT-AATATGCATT
1 TTTCTCAATTTAACCCCTCAATATACATG
35162672 TTTACTCAA
1 TTT-CTCAA
35162681 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 10 0.32
29 21 0.68
ACGTcount: A:0.30, C:0.24, G:0.03, T:0.42
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATATACATG
Found at i:35164811 original size:22 final size:22
Alignment explanation
Indices: 35164783--35164844 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
35164773 ATTTAAAATA
*
35164783 TATATTTATCAATCAATTTAAT
1 TATATTTATCAATCAATTTAAG
*
35164805 TATATTTCAT-AATTAATTTAAG
1 TATATTT-ATCAATCAATTTAAG
* *
35164827 TA-ATATATCAAACAATTT
1 TATATTTATCAATCAATTT
35164845 TATAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 19 0.58
23 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATTTATCAATCAATTTAAG
Found at i:35165861 original size:24 final size:24
Alignment explanation
Indices: 35165834--35165879 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
35165824 ATATATATTA
** *
35165834 AAAAATATGTAAATATCAAATAAT
1 AAAAATAAATAAATATAAAATAAT
*
35165858 AAAATTAAATAAATATAAAATA
1 AAAAATAAATAAATATAAAATA
35165880 TTCATCAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATAAATAAATATAAAATAAT
Found at i:35167412 original size:14 final size:14
Alignment explanation
Indices: 35167393--35167421 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35167383 ATAGGTGAAG
35167393 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
35167407 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
35167421 T
1 T
35167422 CTTTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TTAGAGTTTCAAGA
Found at i:35172518 original size:26 final size:26
Alignment explanation
Indices: 35172479--35172551 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 26
35172469 TTCCCTTACT
*
35172479 TTTATT-TATTTATTTATTTTTATTA
1 TTTATTATTTTTATTTATTTTTATTA
35172504 TTTATTATTTTTA-TTATATTTTATTA
1 TTTATTATTTTTATTTAT-TTTTATTA
35172530 TATT-TTA-TTTTATTTTATTTTT
1 T-TTATTATTTTTA-TTTATTTTT
35172552 CTTCTTACTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 15 0.36
26 21 0.50
27 6 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (26 bp):
TTTATTATTTTTATTTATTTTTATTA
Found at i:35172528 original size:5 final size:5
Alignment explanation
Indices: 35172478--35172550 Score: 68
Period size: 5 Copynumber: 15.8 Consensus size: 5
35172468 CTTCCCTTAC
* * *
35172478 TTTTA -TTTA -TTTA -TTTA TTTT- TATTA -TTTA TTAT- TTTTA TTATA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
35172522 TTTTA TTATA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
35172551 TCTTCTTACT
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
4 21 0.38
5 35 0.62
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:35172594 original size:15 final size:15
Alignment explanation
Indices: 35172574--35172602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35172564 ATTCTCATTG
35172574 TTAGTTTTATTATTC
1 TTAGTTTTATTATTC
35172589 TTAGTTTTATTATT
1 TTAGTTTTATTATT
35172603 ACTTTTTGTT
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:0.07, T:0.69
Consensus pattern (15 bp):
TTAGTTTTATTATTC
Found at i:35172732 original size:21 final size:21
Alignment explanation
Indices: 35172690--35172754 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
35172680 TCGGATGTTC
*
35172690 ATTATT-CTCTT-TTAGTTATT
1 ATTATTACTCTTATTA-TTTTT
35172710 ATTATTACTCTTATTATTTTT
1 ATTATTACTCTTATTATTTTT
*
35172731 ATTTATTA-TTTTATTATTTTT
1 A-TTATTACTCTTATTATTTTT
35172752 ATT
1 ATT
35172755 GTCATTCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 23 0.57
22 9 0.22
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTATTACTCTTATTATTTTT
Found at i:35172870 original size:14 final size:14
Alignment explanation
Indices: 35172848--35172881 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35172838 TTTGGTTTTC
35172848 TATTATTATTATTT
1 TATTATTATTATTT
*
35172862 TATTGTTATTATTTT
1 TATTATTATTA-TTT
35172877 TATTA
1 TATTA
35172882 GTACTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:35175547 original size:25 final size:24
Alignment explanation
Indices: 35175519--35175567 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
35175509 CCCTTAACCT
35175519 AAGCCCCATTATAACCTCTTAAAGA
1 AAGCCCCATTATAACCT-TTAAAGA
35175544 AAGCCCCATTATAACCTTTAAAGA
1 AAGCCCCATTATAACCTTTAAAGA
35175568 CCTCTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (24 bp):
AAGCCCCATTATAACCTTTAAAGA
Found at i:35180456 original size:18 final size:18
Alignment explanation
Indices: 35180424--35180492 Score: 63
Period size: 20 Copynumber: 3.8 Consensus size: 18
35180414 AAATGATAAT
35180424 AATAT-ATAG-ATAAAAA
1 AATATAATAGTATAAAAA
35180440 AATATAATAGTATAAAAA
1 AATATAATAGTATAAAAA
* *
35180458 ATGACATAATAATATAAAATA
1 A--ATATAATAGTATAAAA-A
*
35180479 ATTATAATA-TATAA
1 AATATAATAGTATAA
35180493 TACGAAAGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 5 0.11
17 4 0.09
18 13 0.30
19 6 0.14
20 14 0.32
21 2 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
AATATAATAGTATAAAAA
Found at i:35180601 original size:20 final size:20
Alignment explanation
Indices: 35180578--35180635 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
35180568 ACATTAGTAT
35180578 ATAAATAATAATGTAAAATA
1 ATAAATAATAATGTAAAATA
* *
35180598 AT-AATAATTAGTGAAAAATA
1 ATAAATAA-TAATGTAAAATA
*
35180618 ATAATATAATAATATAAA
1 ATAA-ATAATAATGTAAA
35180636 TATACATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 5 0.17
20 14 0.47
21 7 0.23
22 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (20 bp):
ATAAATAATAATGTAAAATA
Found at i:35187821 original size:79 final size:81
Alignment explanation
Indices: 35187685--35187869 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
35187675 TTGAATGATG
*
35187685 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35187749 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * * **
35187764 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
35187826 TTTGTGCGAATTACTATA
64 TTTGTGCGAATTACTATA
* *
35187844 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35187870 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:35187883 original size:40 final size:39
Alignment explanation
Indices: 35187686--35187888 Score: 191
Period size: 40 Copynumber: 5.1 Consensus size: 39
35187676 TGAATGATGT
* * *
35187686 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAA
* *
35187726 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-A
35187766 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
* *
35187804 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAA
* ** *
35187845 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATAA
35187885 CCGG
1 CCGG
35187889 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 14, Indels: 20
0.80 0.08 0.12
Matches are distributed among these distances:
39 38 0.27
40 89 0.64
41 12 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAA
Found at i:35187891 original size:79 final size:79
Alignment explanation
Indices: 35187738--35187902 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 79
35187728 GGACTAAGAT
* **
35187738 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
35187803 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
35187817 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
35187879 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
35187896 CCGAAGG
1 CCGAAGG
35187903 TACGTGATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.04
79 47 0.63
80 25 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:35195647 original size:80 final size:79
Alignment explanation
Indices: 35195425--35195684 Score: 244
Period size: 79 Copynumber: 3.3 Consensus size: 79
35195415 TTGAATGATG
* * * * * *
35195425 TCCGGGCTAAGTCCCGAAGGCT--TTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGG-TAATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCA
*
35195487 TTTGTGCGAGATACTAAT
63 TTTGTGCGAG-TACTAAA
* * * * * *
35195505 TCCGGGCTAAG-CCCGCAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGTAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
35195569 GTGCGAGTTACTAAA
66 GTGCGAG-TACTAAA
*
35195584 TCCGGGTTAAGTCCCGAAGGTAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGTAATTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
** *
35195648 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
* *
35195664 TCC-GGTTAAATTCCGAAGGTA
1 TCCGGGTTAAGTCCCGAAGGTA
35195685 CGTGATTTGG
Statistics
Matches: 151, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 75 0.50
80 73 0.48
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGTAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:35195663 original size:40 final size:40
Alignment explanation
Indices: 35195425--35195649 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
35195415 TTGAATGATG
* * * *
35195425 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35195465 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
35195505 TCCGGGCTAAG-CCCGCAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35195544 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
35195584 TCCGGGTTAAGTCCCGAAGGTAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35195625 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35195650 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 115 0.72
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35203463 original size:80 final size:79
Alignment explanation
Indices: 35203232--35203489 Score: 256
Period size: 79 Copynumber: 3.3 Consensus size: 79
35203222 TTGAATGATG
* * * * * * * *
35203232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CTGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
35203295 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* * * *
35203312 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
35203376 GTGCGAGTTACTAAA
66 GTGCGAG-TACTAAA
*
35203391 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
** *
35203455 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
* *
35203471 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35203490 TACGTGATTT
Statistics
Matches: 155, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
78 1 0.01
79 76 0.49
80 76 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:35203470 original size:40 final size:40
Alignment explanation
Indices: 35203232--35203456 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
35203222 TTGAATGATG
* * * *
35203232 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
35203272 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
35203312 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35203351 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35203391 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
35203432 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35203457 AACGAGTAGC
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35211412 original size:48 final size:48
Alignment explanation
Indices: 35211350--35211466 Score: 225
Period size: 48 Copynumber: 2.4 Consensus size: 48
35211340 TATATATGTG
35211350 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
35211398 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
35211446 TGCGGTAAAGCCGAATGGCTA
1 TGTGGTAAAGCCGAATGGCTA
35211467 GTGATTCGGC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 68 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:35211738 original size:37 final size:37
Alignment explanation
Indices: 35211639--35211741 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
35211629 GGAAATATAT
*
35211639 TCCGGGTAAGACCCGATGACTACGTCTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35211676 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35211713 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35211742 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35215160 original size:81 final size:81
Alignment explanation
Indices: 35215061--35215325 Score: 413
Period size: 81 Copynumber: 3.3 Consensus size: 81
35215051 ATTACCAAAG
*
35215061 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
35215126 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
35215142 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
35215207 TACAGAATTACCGTTT
66 TACAGAATTACCGTTT
* *** ** * *
35215223 TACCCTCGATTTATAGAATTATTGTTTTACCCTCGATTTATAGAATTATTATTTTACCCTTGATT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
**
35215288 TACAGAATTACTATTT
66 TACAGAATTACCGTTT
* *
35215304 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
35215326 TAAAATACCC
Statistics
Matches: 169, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 169 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGACT
TACAGAATTACCGTTT
Found at i:35215327 original size:27 final size:27
Alignment explanation
Indices: 35215061--35215325 Score: 368
Period size: 27 Copynumber: 9.8 Consensus size: 27
35215051 ATTACCAAAG
*
35215061 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
35215088 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35215115 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
35215142 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
35215169 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35215196 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* ***
35215223 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
35215250 TACCCTCGATTTATAGAATTATTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35215277 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
35215304 TACCCTTGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
35215326 TAAAATACCC
Statistics
Matches: 220, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 220 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:35215334 original size:27 final size:27
Alignment explanation
Indices: 35215277--35215663 Score: 225
Period size: 27 Copynumber: 14.3 Consensus size: 27
35215267 ATTATTATTT
* * * ***
35215277 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTTGATTTATAAAATTACCAAAA
* *
35215304 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
35215331 TACCCTT-AGTTTATAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* *
35215358 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAA
* * * * *
35215385 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
35215411 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* *
35215438 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* *
35215465 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
* * * **
35215492 TACCAC-TGGTTTGTGAAATTACTGAAA
1 TACC-CTTGATTTATAAAATTACCAAAA
**
35215519 TACCCTCAATTTATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
35215546 TACCCCTGATTTACAAAGTTA-CAGAAA
1 TACCCTTGATTTATAAAATTACCA-AAA
* * *
35215573 TACTCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACCA-AAA
* * * **
35215602 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACCAAAA
* * *
35215629 TACCCTT-AGTTTGTAGATTTACCAAAA
1 TACCCTTGA-TTTATAAAATTACCAAAA
*
35215656 CACCCTTG
1 TACCCTTG
35215664 TAGGATGAAA
Statistics
Matches: 288, Mismatches: 57, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
26 24 0.08
27 238 0.83
28 9 0.03
29 17 0.06
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACCAAAA
Found at i:35215351 original size:54 final size:53
Alignment explanation
Indices: 35215304--35215550 Score: 264
Period size: 54 Copynumber: 4.6 Consensus size: 53
35215294 ATTACTATTT
* * * *
35215304 TACCCTTGATTTACAAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATACCC-TAGTTTGTAAAATTACTAAAA
* * * *
35215358 TACCCTCGA-TCAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAAA
1 TACCCTTGATTTA-TAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAA
* * * *
35215411 TACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACTAAAA
* * * * *
35215465 TACCCCT-AGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAA
1 TACCCTTGA-TTTATAAAATTACCAAAATACC-CTAGTTTGTAAAATTACTAAAA
**
35215519 TACCCTCAATTTATAAAATTACCAAAATACCC
1 TACCCTTGATTTATAAAATTACCAAAATACCC
35215551 CTGATTTACA
Statistics
Matches: 163, Mismatches: 24, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
53 44 0.27
54 118 0.72
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (53 bp):
TACCCTTGATTTATAAAATTACCAAAATACCCTAGTTTGTAAAATTACTAAAA
Found at i:35215512 original size:81 final size:79
Alignment explanation
Indices: 35215318--35215552 Score: 292
Period size: 81 Copynumber: 2.9 Consensus size: 79
35215308 CTTGATTTAC
* * * **
35215318 AAAATTACTAAAATACCCTTAGTTTATAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCC-TGGTTTGTAAAATTACCAAAATACCCTAG-TTTGTAAAATTACCAA
35215383 AATA-CCCTAGTCTGT
64 AATACCCCTAGTCTGT
*
35215398 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCAAAATA-CCCTAGTTTGTAAAATTACCAA
*
35215463 AATACCCCTAGTTTGT
64 AATACCCCTAGTCTGT
* * ** * *
35215479 AAAATTACCAAAATACCACTGGTTTGTGAAATTACTGAAATACCCTCAATTTATAAAATTACCAA
1 AAAATTACTAAAATACC-CTGGTTTGTAAAATTACCAAAATACCCT-AGTTTGTAAAATTACCAA
35215544 AATACCCCT
64 AATACCCCT
35215553 GATTTACAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 9
0.86 0.09 0.06
Matches are distributed among these distances:
80 59 0.43
81 77 0.57
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (79 bp):
AAAATTACTAAAATACCCTGGTTTGTAAAATTACCAAAATACCCTAGTTTGTAAAATTACCAAAA
TACCCCTAGTCTGT
Found at i:35215724 original size:27 final size:27
Alignment explanation
Indices: 35215694--35215785 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
35215684 ACCCCTATTA
*
35215694 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
35215721 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
35215748 GGTAAAGTGACCGTAGTAG-CCCTGTAT
1 GGTAAAATGACCGTA-AAGCCCCTGTAG
35215775 GGTAAAATGAC
1 GGTAAAATGAC
35215786 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.33, C:0.20, G:0.28, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:35216631 original size:25 final size:25
Alignment explanation
Indices: 35216593--35216662 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
35216583 AGGAAGTGCT
* *
35216593 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCA
* * *
35216618 AAAAGGGTTTTGCCCTACTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTACCA
*
35216643 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
35216663 ATTAAAAGAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCA
Found at i:35216675 original size:24 final size:24
Alignment explanation
Indices: 35216643--35216689 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
35216633 TACTTTATCA
**
35216643 AAAAGGGCTTTGCC-CCAGTTATT
1 AAAAGGGCTAGGCCTCCAGTTATT
35216666 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTAGGCCTCCAGTTAT
35216690 ATGATAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 7 0.35
25 8 0.40
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTAGGCCTCCAGTTATT
Found at i:35220378 original size:30 final size:30
Alignment explanation
Indices: 35220344--35220405 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
35220334 ATTCCCGAGC
35220344 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
1 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
* * * *
35220374 TTAGGGGCAAAATTGTAATTTTGCCAAAGT
1 TTAGGGGCAAAAGTGTAAATATGCAAAAGT
35220404 TT
1 TT
35220406 GAGTTAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (30 bp):
TTAGGGGCAAAAGTGTAAATATGCAAAAGT
Found at i:35224065 original size:48 final size:48
Alignment explanation
Indices: 35223994--35224136 Score: 223
Period size: 48 Copynumber: 3.0 Consensus size: 48
35223984 AGTCGGGAGT
35223994 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
1 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
* * * *
35224042 CTCGCACCCTAAGTGCCGATATCATGGACCGAAGCCAAGTTAATGTAA
1 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
* * *
35224090 CTCGCACCCGATGTGTCAATATCATGGCCCGAAGCCAAATCAATGTA
1 CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTA
35224137 TTCCCTAATG
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (48 bp):
CTCGCACCCTAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGTAA
Found at i:35225655 original size:33 final size:33
Alignment explanation
Indices: 35225612--35225678 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
35225602 ACTCTGACAG
*
35225612 TAAAGCTAGCCGATATACTACTGGCCTTATTCT
1 TAAAGCTAGCCGATATACTACTGGCCCTATTCT
* *
35225645 TAAAGTTAGCCGATATGCTACTGGCCCTATTCT
1 TAAAGCTAGCCGATATACTACTGGCCCTATTCT
35225678 T
1 T
35225679 TCAATGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (33 bp):
TAAAGCTAGCCGATATACTACTGGCCCTATTCT
Found at i:35232903 original size:46 final size:46
Alignment explanation
Indices: 35232845--35233050 Score: 197
Period size: 46 Copynumber: 4.4 Consensus size: 46
35232835 TGATATGTGC
* *
35232845 GCCAGTGGAAGACATGTCTGGGACATGCATCCGCCATATTGCGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCCGCCATATTGTGAAA
* * *
35232891 GCCAGTATAAGACATGTCTGGGACATGCAT-CGGC-T-TTGAGACAAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCCGCCATATTGTG--AA-A
* * *
35232937 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGTG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCCG-C-C-ATAT-TGTGAAA
* * *
35232985 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGAAA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCCGCCATATTGTGAAA
*
35233031 GCTAGTGTAAGACCATGTCT
1 GCCAGTGTAAGA-CATGTCT
35233051 AAGACATGGC
Statistics
Matches: 133, Mismatches: 14, Indels: 25
0.77 0.08 0.15
Matches are distributed among these distances:
43 4 0.03
44 5 0.04
45 8 0.06
46 71 0.53
47 9 0.07
48 31 0.23
49 1 0.01
52 1 0.01
53 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCCGCCATATTGTGAAA
Found at i:35233107 original size:140 final size:139
Alignment explanation
Indices: 35232836--35233108 Score: 343
Period size: 140 Copynumber: 1.9 Consensus size: 139
35232826 CAGTGTAGGT
* *
35232836 GATATGTGCGCCAGTGGAAGACATGTCTGGGACATGCATCCGCCATATTGCGAAAGCCAGTATAA
1 GATATGTGCGCCAGTGGAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTATAA
** ** *
35232901 GACATGTCTGGGACATGCATCGGCTTTGAGACAAGAGCCAGTGTAAGACATGTCTGGGACATGCA
66 GACATGTCTAAGACATGCATCGGCTTTGAGAC-AGAGCCAGTGTAAGACATGTCTAAGACAAGCA
35232966 TCGGCCTCGA
130 TCGGCCTCGA
* * * * * *
35232976 GATATGTGTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGAAAGCTAGTGTAA
1 GATATGTGCGCCAGTGGAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTATAA
* * * *
35233041 GACCATGTCTAAGACATGGCATCGGC-TTGATAC-GTGTCAGTGTAAGACCTGTCTAAGACACAG
66 GA-CATGTCTAAGACAT-GCATCGGCTTTGAGACAGAGCCAGTGTAAGACATGTCTAAGACA-AG
35233104 CATCG
128 CATCG
35233109 ACACAGATGG
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
139 22 0.19
140 65 0.58
141 18 0.16
142 8 0.07
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (139 bp):
GATATGTGCGCCAGTGGAAGACATGTCTGGGACATGCATCAGCCACATTGCGAAAGCCAGTATAA
GACATGTCTAAGACATGCATCGGCTTTGAGACAGAGCCAGTGTAAGACATGTCTAAGACAAGCAT
CGGCCTCGA
Found at i:35235722 original size:80 final size:80
Alignment explanation
Indices: 35235480--35235741 Score: 341
Period size: 80 Copynumber: 3.3 Consensus size: 80
35235470 TATTCAGATG
* * *
35235480 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCCGAAGGC
*
35235544 AATTGTGCAAGTTACT
65 ATTTGTGCAAGTTACT
* * *
35235560 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAACCGGGCTAAGTCCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
35235625 TTTGTGCGAGTTACT
66 TTTGTGCAAGTTACT
* * *
35235640 ATAACCGGGCTAAGTCTCGAAGGCATTTGTACGAGTTACTATATCTGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
**
35235705 TTTAAGCAAG-TAGCT
66 TTTGTGCAAGTTA-CT
* * *
35235720 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
35235742 TACTTGGTTT
Statistics
Matches: 159, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 15 0.09
80 143 0.90
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCAAGTTACT
Found at i:35235722 original size:120 final size:120
Alignment explanation
Indices: 35235480--35235743 Score: 327
Period size: 120 Copynumber: 2.2 Consensus size: 120
35235470 TATTCAGATG
* * *
35235480 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACCAATACCGGGCTAAGTCCCGAAGGCA
* ** **
35235545 ATTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
66 ATTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTAAGCAAGTTACT
* * *
35235600 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCTCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACCAAT-ACCGGGCTAAGTCCCGAAGGC
* * * *
35235664 ATTTGTACGAGTTACTATATCTGGGCTAAGTCCCGAAGGCATTTAAGCAAG-TAGCT
65 AATTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTAAGCAAGTTA-CT
* * *
35235720 ATATCC-GGCTAAATTCCGAAGGTA
1 ATAACCGGGCTAAGTCCCGAAGGTA
35235744 CTTGGTTTGG
Statistics
Matches: 124, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
119 21 0.17
120 103 0.83
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (120 bp):
ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTGACCAATACCGGGCTAAGTCCCGAAGGCA
ATTGTACAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTAAGCAAGTTACT
Found at i:35235724 original size:40 final size:40
Alignment explanation
Indices: 35235480--35235707 Score: 332
Period size: 40 Copynumber: 5.7 Consensus size: 40
35235470 TATTCAGATG
* * *
35235480 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
35235520 A-ATTCCGGGCTAAGTCCCGAAGGCAATTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35235560 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35235600 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35235640 ATAACCGGGCTAAGTCTCGAAGGCATTTGTACGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35235680 ATATCTGGGCTAAGTCCCGAAGGCATTT
1 ATAACCGGGCTAAGTCCCGAAGGCATTT
35235708 AAGCAAGTAG
Statistics
Matches: 169, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 167 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35249082 original size:40 final size:40
Alignment explanation
Indices: 35249027--35249255 Score: 395
Period size: 40 Copynumber: 5.7 Consensus size: 40
35249017 TATTCGGATG
*
35249027 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35249067 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35249107 ATAACCGGGCTAAGTCCCGAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
35249147 ATAACCGGGCTAAGTCCCAAAGGTATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35249187 ATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
35249227 ATAACTGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
35249256 AGCAAGTAGC
Statistics
Matches: 179, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:35253627 original size:48 final size:48
Alignment explanation
Indices: 35253558--35254638 Score: 2027
Period size: 48 Copynumber: 22.5 Consensus size: 48
35253548 TAAAGCTTTC
* *
35253558 GGCTAGTGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGTAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
35253606 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
35253654 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
35253702 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
35253750 GGCTAGTGTGAAATATCTATGAGATATGTATATGTGGTAAAGTCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35253798 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35253846 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35253894 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35253942 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35253990 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254038 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254086 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254134 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254182 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254230 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254278 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254326 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
35254374 GGCTAGTGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
35254422 GGCTAGTGTGAAATATCTATGAGATATGTATATGTGGTAAAGCCGTAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
35254470 GGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGTCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
35254518 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
*
35254566 GGCTAGTGTGAAATATGTATGAGATATGTATATTTGGTAAAGCCGAAT
1 GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
* *
35254614 GGCTAATGTGAAATATGTAGGAGAT
1 GGCTAGTGTGAAATATGTATGAGAT
35254639 GTGTGTATAT
Statistics
Matches: 1014, Mismatches: 19, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 1014 1.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
GGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAAT
Found at i:35254829 original size:37 final size:37
Alignment explanation
Indices: 35254779--35254881 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
35254769 GGAAATATAT
35254779 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
35254816 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35254853 TCCGGGTAAGACCCGATAACTACGAGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
35254882 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35269441 original size:15 final size:15
Alignment explanation
Indices: 35269418--35269447 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35269408 TTAATTTTCT
*
35269418 GGGACTTAGGATTGA
1 GGGAATTAGGATTGA
35269433 GGGAATTAGGATTGA
1 GGGAATTAGGATTGA
35269448 TCCTCAGAAA
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:0.30, C:0.03, G:0.40, T:0.27
Consensus pattern (15 bp):
GGGAATTAGGATTGA
Found at i:35270536 original size:33 final size:32
Alignment explanation
Indices: 35270494--35270558 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 32
35270484 CCAGTTAAGA
35270494 TTCCAATGTGGAAGTGGGAAAGAGGAGCTATG
1 TTCCAATGTGGAAGTGGGAAAGAGGAGCTATG
*
35270526 NTTCCAATGTGGAAGTGGGAAAGAGTAGCTATG
1 -TTCCAATGTGGAAGTGGGAAAGAGGAGCTATG
35270559 GATTTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.09, G:0.35, T:0.23
Consensus pattern (32 bp):
TTCCAATGTGGAAGTGGGAAAGAGGAGCTATG
Found at i:35284849 original size:48 final size:48
Alignment explanation
Indices: 35284760--35284898 Score: 170
Period size: 48 Copynumber: 2.9 Consensus size: 48
35284750 GAGAGTCTCA
* * * * *
35284760 CACCCTAAGTGCCAATATCATGGCTCGAAACCAAATTAATGTAACTTG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTTG
** **
35284808 TTCCCGAAGTTTCGATATCATGGCCCGAAGCCAAATCAATGTAACTTG
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTTG
* * *
35284856 CACCTGATGTGCCGATATCGTGGCCCGAAGCCAAATCAATGTA
1 CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTA
35284899 TTCCCCAATG
Statistics
Matches: 75, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (48 bp):
CACCCGAAGTGCCGATATCATGGCCCGAAGCCAAATCAATGTAACTTG
Found at i:35286537 original size:9 final size:9
Alignment explanation
Indices: 35286509--35286546 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
35286499 ATGCTCGTGA
35286509 AAAAAAAAG
1 AAAAAAAAG
*
35286518 AAATTAAAAG
1 AAA-AAAAAG
35286528 AAAAAAAAG
1 AAAAAAAAG
35286537 AAAAAAAAG
1 AAAAAAAAG
35286546 A
1 A
35286547 GAAGAGCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:35288793 original size:13 final size:14
Alignment explanation
Indices: 35288764--35288797 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
35288754 TGCACAAAAC
35288764 AAGGAAAGAGCAAA
1 AAGGAAAGAGCAAA
*
35288778 AAGGAAAG-GGAAA
1 AAGGAAAGAGCAAA
35288791 AAGGAAA
1 AAGGAAA
35288798 ACAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.65, C:0.03, G:0.32, T:0.00
Consensus pattern (14 bp):
AAGGAAAGAGCAAA
Found at i:35295319 original size:33 final size:34
Alignment explanation
Indices: 35295250--35295321 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
35295240 AACAGTGCAT
* * * *
35295250 ACAGTAACAGTCTGGGCCTGAACCTTATTCATTA
1 ACAGTAACAATCTGGGCCTGAACCCTATGCAATA
35295284 ACAGT-ACAATCTGGGCCT-AAGCCCTATGCAATA
1 ACAGTAACAATCTGGGCCTGAA-CCCTATGCAATA
35295317 ACAGT
1 ACAGT
35295322 GTGAGCCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.06
33 26 0.79
34 5 0.15
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (34 bp):
ACAGTAACAATCTGGGCCTGAACCCTATGCAATA
Found at i:35298275 original size:23 final size:23
Alignment explanation
Indices: 35298249--35298306 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
35298239 ATCGCAGTGT
*
35298249 AGCTGCTAATAGTAATGCAACAA
1 AGCTGCTAATAGTAACGCAACAA
*
35298272 AGCTGCTAATAGTAACGCAGCAA
1 AGCTGCTAATAGTAACGCAACAA
*
35298295 AGTTGCTAATAG
1 AGCTGCTAATAG
35298307 CGGTAAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (23 bp):
AGCTGCTAATAGTAACGCAACAA
Found at i:35298330 original size:27 final size:27
Alignment explanation
Indices: 35298300--35298354 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
35298290 AGCAAAGTTG
* *
35298300 CTAATAGCGGTAA-ACGTGGCATAGCCA
1 CTAATAGCAG-AATACGTGGCAAAGCCA
*
35298327 CTAATATCAGAATACGTGGCAAAGCCA
1 CTAATAGCAGAATACGTGGCAAAGCCA
35298354 C
1 C
35298355 CAGAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
CTAATAGCAGAATACGTGGCAAAGCCA
Found at i:35299970 original size:13 final size:13
Alignment explanation
Indices: 35299952--35299995 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
35299942 ATGTCCATAT
35299952 CAGATACAGATAA
1 CAGATACAGATAA
*
35299965 CAGATACAAATATA
1 CAGATACAGATA-A
35299979 CAGAT-CAGATAAA
1 CAGATACAGAT-AA
35299992 CAGA
1 CAGA
35299996 ATCCTACCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.55, C:0.16, G:0.14, T:0.16
Consensus pattern (13 bp):
CAGATACAGATAA
Found at i:35302117 original size:25 final size:25
Alignment explanation
Indices: 35302084--35302135 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
35302074 AGTACATTAA
35302084 CACTTATATACATATACACATGAAT
1 CACTTATATACATATACACATGAAT
*
35302109 CACTTATATACATATACTCATGAAT
1 CACTTATATACATATACACATGAAT
35302134 CA
1 CA
35302136 AATATAACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (25 bp):
CACTTATATACATATACACATGAAT
Found at i:35302141 original size:25 final size:25
Alignment explanation
Indices: 35302088--35302145 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
35302078 CATTAACACT
**
35302088 TATATACATATACACATGAATCACT
1 TATATACATATACACATGAATCAAA
*
35302113 TATATACATATACTCATGAATCAAA
1 TATATACATATACACATGAATCAAA
35302138 TATA-ACAT
1 TATATACAT
35302146 CACATACACA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (25 bp):
TATATACATATACACATGAATCAAA
Found at i:35306563 original size:100 final size:100
Alignment explanation
Indices: 35306390--35306577 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
35306380 TATTGTGAGG
* * *
35306390 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
35306455 AAGTGCAGGCTACTATGCGTACCTGAAAACTGTGA
66 AAGTGCAGGCTACTATGCATACCTGAAAACTGTGA
*
35306490 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
35306555 AAGTGCAGGCTACTATGCATACC
66 AAGTGCAGGCTACTATGCATACC
35306578 AGATAGCTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCATACCTGAAAACTGTGA
Found at i:35306578 original size:49 final size:49
Alignment explanation
Indices: 35306395--35306582 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
35306385 TGAGGTCACG
* * *
35306395 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* * * * * *
35306444 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-TGGTCGCA
* * *
35306495 TGTGTAATACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
* *
35306544 TGTGTAGTACTAAGTGCAGGCTACTATGCATACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
35306583 GCTTAGGCTA
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
49 75 0.65
50 2 0.02
51 38 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCGCA
Found at i:35308814 original size:55 final size:55
Alignment explanation
Indices: 35308730--35308838 Score: 209
Period size: 55 Copynumber: 2.0 Consensus size: 55
35308720 CATATCATAA
35308730 GACCATATATATAAAATGACCATAATGTTATACTCAAAATACACAAGCCATTTTC
1 GACCATATATATAAAATGACCATAATGTTATACTCAAAATACACAAGCCATTTTC
*
35308785 GACCATATATATAAAATGACCATAATGTTATACTCAAAATATACAAGCCATTTT
1 GACCATATATATAAAATGACCATAATGTTATACTCAAAATACACAAGCCATTTT
35308839 TGCATGGCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.30
Consensus pattern (55 bp):
GACCATATATATAAAATGACCATAATGTTATACTCAAAATACACAAGCCATTTTC
Found at i:35309838 original size:40 final size:40
Alignment explanation
Indices: 35309777--35309997 Score: 356
Period size: 40 Copynumber: 5.5 Consensus size: 40
35309767 CAATTTAATA
*
35309777 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGC
*
35309817 CCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGC
1 CCGGATATAATAACT-AGCACAAATGCCTTCGGGACTTAGC
*
35309857 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGC
*
35309897 CCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAGC
1 CCGGATATAATAACT-AGCACAAATGCCTTCGGGACTTAGC
*
35309937 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGC
*
35309977 CCGGATATAGTAACTAGCACA
1 CCGGATATAATAACTAGCACA
35309998 CGCCTTCGGA
Statistics
Matches: 167, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
39 2 0.01
40 163 0.98
41 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (40 bp):
CCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:35309910 original size:80 final size:80
Alignment explanation
Indices: 35309777--35309991 Score: 430
Period size: 80 Copynumber: 2.7 Consensus size: 80
35309767 CAATTTAATA
35309777 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
35309842 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
35309857 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
35309922 CCTTCGGGACTTAGC
66 CCTTCGGGACTTAGC
35309937 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT
35309992 AGCACACGCC
Statistics
Matches: 135, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 135 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (80 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
CCTTCGGGACTTAGC
Found at i:35311401 original size:13 final size:13
Alignment explanation
Indices: 35311383--35311408 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35311373 ATTTTTATTT
35311383 TTAACATAAAATA
1 TTAACATAAAATA
35311396 TTAACATAAAATA
1 TTAACATAAAATA
35311409 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:35318080 original size:40 final size:40
Alignment explanation
Indices: 35318019--35318160 Score: 248
Period size: 40 Copynumber: 3.5 Consensus size: 40
35318009 CATTTCCAAA
*
35318019 CCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG
1 CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG
* *
35318059 CCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAG
1 CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG
*
35318099 CCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAG
1 CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG
35318139 CCCGGATATAGTAACTAGCACA
1 CCCGGATATAGTAACTAGCACA
35318161 TGCCTTTGGA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (40 bp):
CCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAG
Found at i:35325317 original size:39 final size:40
Alignment explanation
Indices: 35325222--35325444 Score: 273
Period size: 39 Copynumber: 5.7 Consensus size: 40
35325212 TTGAATGATG
*
35325222 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35325260 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35325301 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35325340 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35325379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35325418 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35325445 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 10, Indels: 15
0.87 0.05 0.08
Matches are distributed among these distances:
39 93 0.56
40 61 0.37
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35325408 original size:79 final size:81
Alignment explanation
Indices: 35325222--35325444 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
35325212 TTGAATGATG
* * *
35325222 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
35325283 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
35325301 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
*
35325363 TGTGCGAGTTACTAAA
66 TGTGCGAGATACTAAA
* * * * *
35325379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
35325443 TG
66 TG
35325445 AACGAGGAGC
Statistics
Matches: 128, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:35325466 original size:79 final size:79
Alignment explanation
Indices: 35325222--35325477 Score: 224
Period size: 79 Copynumber: 3.3 Consensus size: 79
35325212 TTGAATGATG
* * * *
35325222 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
35325283 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
35325301 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
35325365 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
35325379 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
35325443 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
35325459 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35325478 TACGTGATTT
Statistics
Matches: 153, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
77 1 0.01
78 45 0.29
79 70 0.46
80 36 0.24
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:35330435 original size:45 final size:45
Alignment explanation
Indices: 35330379--35330471 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
35330369 TACTATGTGA
* *
35330379 ACCAAACATCATTGATTAGTAAGGTGGTTGCTA-GATGCTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATG-TGCTGAATCC
*
35330424 ACCAGACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
35330469 ACC
1 ACC
35330472 GAGTATCTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
45 43 0.98
46 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:35333386 original size:7 final size:7
Alignment explanation
Indices: 35333374--35333398 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35333364 TTGAATGTGC
35333374 ATATGGT
1 ATATGGT
35333381 ATATGGT
1 ATATGGT
35333388 ATATGGT
1 ATATGGT
35333395 ATAT
1 ATAT
35333399 TTGGTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (7 bp):
ATATGGT
Found at i:35369709 original size:39 final size:39
Alignment explanation
Indices: 35369647--35369941 Score: 362
Period size: 39 Copynumber: 7.5 Consensus size: 39
35369637 AAATCACGTA
* * *
35369647 CCTTC-GGATTAGTCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATG
*
35369685 CCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATG
* * *
35369724 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGG-GCTTAGCCCGGAATTAGTAACTCGCACAAATG
*
35369764 CCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATG
* * *
35369803 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGG-GCTTAGCCCGGAATTAGTAACTCGCACAAATG
*
35369843 CCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATG
* * * * *
35369882 CCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCACAAA-G
1 CCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCACAAATG
35369922 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGG-CTTAGCCCGGA
35369942 CATCATTCAA
Statistics
Matches: 221, Mismatches: 28, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
38 5 0.02
39 108 0.49
40 100 0.45
41 8 0.04
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATG
Found at i:35369776 original size:79 final size:79
Alignment explanation
Indices: 35369647--35369941 Score: 515
Period size: 79 Copynumber: 3.7 Consensus size: 79
35369637 AAATCACGTA
35369647 CCTTCGGA--TTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
35369710 ATCTCGCACAAATG
66 ATCTCGCACAAATG
35369724 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
35369789 ATCTCGCACAAATG
66 ATCTCGCACAAATG
35369803 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
1 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
35369868 ATCTCGCACAAATG
66 ATCTCGCACAAATG
* * * *
35369882 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 CCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGA
35369942 CATCATTCAA
Statistics
Matches: 210, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
77 8 0.04
79 183 0.87
80 19 0.09
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (79 bp):
CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGT
ATCTCGCACAAATG
Found at i:35370433 original size:123 final size:123
Alignment explanation
Indices: 35370214--35370460 Score: 476
Period size: 123 Copynumber: 2.0 Consensus size: 123
35370204 TTAGTTCCCC
35370214 TTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACA
1 TTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACA
35370279 CAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGTACGGAATCA
66 CAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGTACGGAATCA
*
35370337 TTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCGTCGAAAAGAGGAACA
1 TTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACA
*
35370402 CAAGGTACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGTACGGAATCA
66 CAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGTACGGAATCA
35370460 T
1 T
35370461 GAATCAAACT
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 122 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (123 bp):
TTTGCTCTTGAGCTTAATTAAACAAATAAATTGATTTAATCATTTGAGCATCGAAAAGAGGAACA
CAAGGCACTTAGCCCATATTTATACATTAGACATTAAAGTCACATATGTACGGAATCA
Found at i:35388774 original size:27 final size:27
Alignment explanation
Indices: 35388744--35388872 Score: 97
Period size: 26 Copynumber: 4.9 Consensus size: 27
35388734 TGGAGTTCTT
35388744 TAGGACAATAAACATGGGGTAGTCCT-C
1 TAGGACAATAAACATGGGGTAGT-CTGC
** *
35388771 TAGGATGATAAACAT-GGATAGTCTGC
1 TAGGACAATAAACATGGGGTAGTCTGC
* *
35388797 TGGGACAACAAA-ATGGGGTAGT-TCGC
1 TAGGACAATAAACATGGGGTAGTCT-GC
* ** *
35388823 CAGGACGTTAAACAT-GGATAGTCTGC
1 TAGGACAATAAACATGGGGTAGTCTGC
* * *
35388849 TAGGAAAATAAAAATGGGGCAGTC
1 TAGGACAATAAACATGGGGTAGTC
35388873 CGTCAAGATG
Statistics
Matches: 75, Mismatches: 21, Indels: 12
0.69 0.19 0.11
Matches are distributed among these distances:
25 5 0.07
26 48 0.64
27 22 0.29
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (27 bp):
TAGGACAATAAACATGGGGTAGTCTGC
Found at i:35388814 original size:52 final size:52
Alignment explanation
Indices: 35388744--35388874 Score: 154
Period size: 52 Copynumber: 2.5 Consensus size: 52
35388734 TGGAGTTCTT
* * * *
35388744 TAGGACAATAAACATGGGGTAGTCCTCTAGGATGATAAACATGGATAGTCTGC
1 TAGGACAA-AAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
* * * *
35388797 TGGGACAACAAAATGGGGTAGTTCGCCAGGACGTTAAACATGGATAGTCTGC
1 TAGGACAAAAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
* *
35388849 TAGGAAAATAAAAATGGGGCAGTCCG
1 TAGGACAA-AAAAATGGGGTAGTCCG
35388875 TCAAGATGGT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
52 43 0.67
53 21 0.33
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.21
Consensus pattern (52 bp):
TAGGACAAAAAAATGGGGTAGTCCGCCAGGACGATAAACATGGATAGTCTGC
Found at i:35391228 original size:16 final size:16
Alignment explanation
Indices: 35391207--35391239 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35391197 GTGACATGTG
35391207 TTAGGGAGTCATCTAT
1 TTAGGGAGTCATCTAT
35391223 TTAGGGAGTCATCTAT
1 TTAGGGAGTCATCTAT
35391239 T
1 T
35391240 GGATTTAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (16 bp):
TTAGGGAGTCATCTAT
Found at i:35392878 original size:29 final size:29
Alignment explanation
Indices: 35392843--35393037 Score: 182
Period size: 29 Copynumber: 6.8 Consensus size: 29
35392833 TTTTAGAGTT
* *
35392843 TTGCCACAAAGACATCCTTTTAATAGAGT
1 TTGCCACAAAGGCATCCTTTTAATAGAGA
* * *
35392872 TTGCCAC-AAGACATTCATTTAACTA-AG-
1 TTGCCACAAAGGCATCCTTTTAA-TAGAGA
*
35392899 TTAGCCACAAAGGCACCCTTTTAGA-AGAGA
1 TT-GCCACAAAGGCATCCTTTTA-ATAGAGA
* * *
35392929 TAGCCACAAACGCTTCCTTTTAATAGAGA
1 TTGCCACAAAGGCATCCTTTTAATAGAGA
* * *
35392958 TTGCCACAAAGGCTTCTTTTTAACAGAGA
1 TTGCCACAAAGGCATCCTTTTAATAGAGA
* * *
35392987 TTGCCACAATGTCTTCCTTTTAATAGAGA
1 TTGCCACAAAGGCATCCTTTTAATAGAGA
* *
35393016 TAGCCACAAAGGCATCATTTTA
1 TTGCCACAAAGGCATCCTTTTA
35393038 GAGATAACCA
Statistics
Matches: 136, Mismatches: 23, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
27 2 0.01
28 22 0.16
29 110 0.81
30 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (29 bp):
TTGCCACAAAGGCATCCTTTTAATAGAGA
Found at i:35392892 original size:28 final size:29
Alignment explanation
Indices: 35392836--35392908 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
35392826 GCTTTCCTTT
*
35392836 TAGAGTTTTGCCACAAAGACATCCTTTTAA-
1 TAGAG-TTTGCCAC-AAGACATCCATTTAAC
*
35392866 TAGAGTTTGCCACAAGACATTCATTTAAC
1 TAGAGTTTGCCACAAGACATCCATTTAAC
*
35392895 TA-AGTTAGCCACAA
1 TAGAGTTTGCCACAA
35392909 AGGCACCCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
28 24 0.62
29 10 0.26
30 5 0.13
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (29 bp):
TAGAGTTTGCCACAAGACATCCATTTAAC
Found at i:35393037 original size:87 final size:86
Alignment explanation
Indices: 35392845--35393037 Score: 214
Period size: 87 Copynumber: 2.2 Consensus size: 86
35392835 TTAGAGTTTT
* *
35392845 GCCACAAAGACATCCTTTTAATAGAGTTTGCCACAAGACATTCATTTAACTAAGTTAGCCACAAA
1 GCCACAAAGGCATCCTTTTAATAGAGATTGCCACAAGACATTCATTTAACTAAGTTAGCCACAAA
35392910 GGCACCCTTTTAGAAGAGATA
66 GGCACCCTTTTAGAAGAGATA
* * * *
35392931 GCCACAAACGCTTCCTTTTAATAGAGATTGCCACAAAGGC-TTCTTTTTAAC-AGAGATT-GCCA
1 GCCACAAAGGCATCCTTTTAATAGAGATTGCCAC-AAGACATTC-ATTTAACTA-AG-TTAGCCA
* * **
35392993 CAATGTCTTCCTTTTA-ATAGAGATA
62 CAAAGGCACCCTTTTAGA-AGAGATA
*
35393018 GCCACAAAGGCATCATTTTA
1 GCCACAAAGGCATCCTTTTA
35393038 GAGATAACCA
Statistics
Matches: 89, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
86 35 0.39
87 52 0.58
88 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.28
Consensus pattern (86 bp):
GCCACAAAGGCATCCTTTTAATAGAGATTGCCACAAGACATTCATTTAACTAAGTTAGCCACAAA
GGCACCCTTTTAGAAGAGATA
Found at i:35393048 original size:26 final size:26
Alignment explanation
Indices: 35393010--35393080 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
35393000 TTCCTTTTAA
*
35393010 TAGAGATAGCCACAAAGGCATCATTT
1 TAGAGATAGCCACAAAGGCATCATTC
* * *
35393036 TAGAGATAACCACAAAGACATCCTTC
1 TAGAGATAGCCACAAAGGCATCATTC
*
35393062 CAGAGATAGCCACAAAGGC
1 TAGAGATAGCCACAAAGGC
35393081 TTTTTTTAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.17
Consensus pattern (26 bp):
TAGAGATAGCCACAAAGGCATCATTC
Found at i:35396330 original size:27 final size:27
Alignment explanation
Indices: 35396299--35396476 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35396289 TAAATTGTAC
*
35396299 AGCACTAAGGGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35396326 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35396352 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35396380 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
35396408 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35396435 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35396462 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35396477 GACTCGATAT
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35396413 original size:82 final size:81
Alignment explanation
Indices: 35396300--35396455 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35396290 AAATTGTACA
*
35396300 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
35396364 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
35396381 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGGGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
35396446 TGCGAGTTGA
65 TGCGAATTGA
35396456 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 14 0.21
82 52 0.78
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGGGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35396467 original size:82 final size:81
Alignment explanation
Indices: 35396296--35396476 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35396286 GATTAAATTG
* *
35396296 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
35396361 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35396377 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
35396441 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35396459 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35396477 GACTCGATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 17 0.20
82 67 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35403817 original size:15 final size:14
Alignment explanation
Indices: 35403793--35403825 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
35403783 GTAGCTAGTT
35403793 CTGCATTGTTGTTG
1 CTGCATTGTTGTTG
35403807 CTGCTATTGTTGTTG
1 CTGC-ATTGTTGTTG
35403822 CTGC
1 CTGC
35403826 CGATGAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.06, C:0.18, G:0.27, T:0.48
Consensus pattern (14 bp):
CTGCATTGTTGTTG
Found at i:35404316 original size:21 final size:22
Alignment explanation
Indices: 35404291--35404345 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
35404281 CTTTACTAAT
35404291 AATAATAAAATAC-AGAAAAT-A
1 AATAATAAAATACTAG-AAATCA
35404312 AATAA-ATAAATACTAGAAATCA
1 AATAATA-AAATACTAGAAATCA
*
35404334 AATAATAGAATA
1 AATAATAAAATA
35404346 TATCAAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.03
21 15 0.52
22 12 0.41
23 1 0.03
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (22 bp):
AATAATAAAATACTAGAAATCA
Found at i:35410261 original size:15 final size:15
Alignment explanation
Indices: 35410241--35410277 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
35410231 ATACTTTATC
*
35410241 GAGGCCGCCAATAAT
1 GAGGCCACCAATAAT
35410256 GAGGCCACCAATAAT
1 GAGGCCACCAATAAT
35410271 GAGGCCA
1 GAGGCCA
35410278 ATTTGGACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.27, G:0.27, T:0.11
Consensus pattern (15 bp):
GAGGCCACCAATAAT
Done.