Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
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: 5120959
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 21
Found at i:2899933 original size:2 final size:2
Alignment explanation
Indices: 2899926--2899959 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2899916 ATGAAATAAA
*
2899926 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2899960 GGGAGGATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2913941 original size:21 final size:21
Alignment explanation
Indices: 2913915--2913954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2913905 CAGAACCCCA
*
2913915 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
2913936 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
2913955 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:2932496 original size:20 final size:22
Alignment explanation
Indices: 2932459--2932512 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
2932449 ACAATCTAGT
*
2932459 AATTTTAAAAAATTAATT-TAA
1 AATTTTAAAAAATAAATTATAA
*
2932480 AATTTTAAAAAA-AAATTATAT
1 AATTTTAAAAAATAAATTATAA
*
2932501 ATTTTTAAAAAA
1 AATTTTAAAAAA
2932513 GAAAACAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTTAAAAAATAAATTATAA
Found at i:2933011 original size:180 final size:179
Alignment explanation
Indices: 2932709--2933069 Score: 704
Period size: 180 Copynumber: 2.0 Consensus size: 179
2932699 AGCTTAATCG
2932709 CAAGGAAACCATTTGGTCGCCCACCTCCAACCTCGACCAACGCTCGTCGAGAGTCATCACCGCCT
1 CAAGGAAACCATTTGGTCGCCCACCTCCAACCTCGACCAACGCTCGTCGAGAGTCATCACCGCCT
2932774 AGCCCAGTGGAAGCGCCATCCCAGAATAGTCATAGCCCAATCATCCACTCGCCTGCAGTCACCGT
66 AGCCCAGTGGAAGCGCCATCCCAGAATAGTCATAGCCCAATCATCCACTCGCCTGCAGTCACCGT
*
2932839 CGTTCGTGGCGGAGTTGGCGTTTGAAAGTCCGACGAAAAGCCCCCCTCAC
131 CGTTCGTGGCGGAG-TGGCGTTTGAAAGTCCGACGAAAAGCCCCCATCAC
2932889 CAAGGAAACCATTTGGTCGCCCACCTCCAACCTCGACCAACGCTCGTCGAGAGTCATCACCGCCT
1 CAAGGAAACCATTTGGTCGCCCACCTCCAACCTCGACCAACGCTCGTCGAGAGTCATCACCGCCT
2932954 AGCCCAGTGGAAGCGCCATCCCAGAATAGTCATAGCCCAATCATCCACTCGCCTGCAGTCACCGT
66 AGCCCAGTGGAAGCGCCATCCCAGAATAGTCATAGCCCAATCATCCACTCGCCTGCAGTCACCGT
2933019 CGTTCGTGGCGGAGTGGCGTTTGAAAGTCCGACGAAAAGCCCCCATCAC
131 CGTTCGTGGCGGAGTGGCGTTTGAAAGTCCGACGAAAAGCCCCCATCAC
2933068 CA
1 CA
2933070 TTCGATTTTT
Statistics
Matches: 180, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
179 36 0.20
180 144 0.80
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.17
Consensus pattern (179 bp):
CAAGGAAACCATTTGGTCGCCCACCTCCAACCTCGACCAACGCTCGTCGAGAGTCATCACCGCCT
AGCCCAGTGGAAGCGCCATCCCAGAATAGTCATAGCCCAATCATCCACTCGCCTGCAGTCACCGT
CGTTCGTGGCGGAGTGGCGTTTGAAAGTCCGACGAAAAGCCCCCATCAC
Found at i:2933668 original size:20 final size:19
Alignment explanation
Indices: 2933617--2933668 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2933607 AACACTTGAA
**
2933617 ATTTAATTATATATTTTTT
1 ATTTAATTATATAAATTTT
*
2933636 ATTTTATTA-ATAAATTTT
1 ATTTAATTATATAAATTTT
2933654 ATTTCAATTATATAA
1 ATTT-AATTATATAA
2933669 TTTGAATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 11 0.41
19 12 0.44
20 4 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTAATTATATAAATTTT
Found at i:2933712 original size:25 final size:26
Alignment explanation
Indices: 2933680--2933730 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
2933670 TTGAATTTTT
2933680 AAACTTT-ATTTGT-GAATTATATATA
1 AAACTTTAATTT-TAGAATTATATATA
2933705 AAACTTTAAATTTTAGAATTATATAT
1 AAACTTT-AATTTTAGAATTATATAT
2933731 TATATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.30
26 1 0.04
27 15 0.65
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (26 bp):
AAACTTTAATTTTAGAATTATATATA
Found at i:2935907 original size:17 final size:17
Alignment explanation
Indices: 2935882--2935918 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
2935872 TTTACTCACT
*
2935882 ATATGTTATGATAGAAA
1 ATATATTATGATAGAAA
2935899 ATATATTATGATAGAAA
1 ATATATTATGATAGAAA
2935916 ATA
1 ATA
2935919 ACCTCATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (17 bp):
ATATATTATGATAGAAA
Found at i:2949203 original size:21 final size:22
Alignment explanation
Indices: 2949165--2949206 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2949155 TTGCAATTAA
2949165 TTTTTACCTTAGCAATTTTTAC
1 TTTTTACCTTAGCAATTTTTAC
*
2949187 TTTTTACTCTT-GCATTTTTT
1 TTTTTAC-CTTAGCAATTTTT
2949207 CTTGCCATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.62
Consensus pattern (22 bp):
TTTTTACCTTAGCAATTTTTAC
Found at i:2970126 original size:2 final size:2
Alignment explanation
Indices: 2970119--2970163 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
2970109 TAATCCCATT
2970119 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2970161 TA T
1 TA T
2970164 CCTAATAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2977665 original size:22 final size:22
Alignment explanation
Indices: 2977640--2977688 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
2977630 CCACCATATG
2977640 CACTAGGTATCATTTAGAGCTA
1 CACTAGGTATCATTTAGAGCTA
* * *
2977662 CACTTGGTATCTTTTAGTGCTA
1 CACTAGGTATCATTTAGAGCTA
*
2977684 AACTA
1 CACTA
2977689 ATATGCAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (22 bp):
CACTAGGTATCATTTAGAGCTA
Found at i:2988029 original size:28 final size:28
Alignment explanation
Indices: 2987989--2988044 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
2987979 CCATAGAGCT
2987989 GCAAAAGTATTTCAACTAAGTGCATCAG
1 GCAAAAGTATTTCAACTAAGTGCATCAG
2988017 GCAAAAGTATTTCAACTAAGTGCATCAG
1 GCAAAAGTATTTCAACTAAGTGCATCAG
2988045 CTACCACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (28 bp):
GCAAAAGTATTTCAACTAAGTGCATCAG
Found at i:2989910 original size:28 final size:30
Alignment explanation
Indices: 2989868--2989951 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 30
2989858 GGACCTATCT
2989868 ATATGTTCTGAAGAACATAGGTAAT-TGTCC
1 ATATG-TCTGAAGAACATAGGTAATATGTCC
2989898 ATATGTC-GAAGAACATAGGTAATCATGTCC
1 ATATGTCTGAAGAACATAGGTAAT-ATGTCC
* *
2989928 CTATGTCCTGAAGGACATAGGTAA
1 ATATGT-CTGAAGAACATAGGTAA
2989952 CCCTCGACTC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
28 16 0.33
29 2 0.04
30 15 0.31
31 1 0.02
32 14 0.29
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (30 bp):
ATATGTCTGAAGAACATAGGTAATATGTCC
Found at i:2998412 original size:63 final size:66
Alignment explanation
Indices: 2998266--2998454 Score: 195
Period size: 63 Copynumber: 2.9 Consensus size: 66
2998256 AAGTTCTTGT
*** * * **
2998266 AACATAAGGTCGTGCCCACCTTATTCACTAAATGTTCTTACACACTACAGTGATATCCTGAATAT
1 AACATAAGGTCGTGCCCACCACCTGCACTAAGTGTTCTTACACACTA-AGTGATATCCCAAATAT
2998331 GA
65 GA
* * *
2998333 AACATAAAGTCTTGCCCACCACCTGCACTAAGTGTTC-TACACACT-A-TGTTATCCCAAATATG
1 AACATAAGGTCGTGCCCACCACCTGCACTAAGTGTTCTTACACACTAAGTGATATCCCAAATATG
2998395 A
66 A
* * * * * *
2998396 CACATAAGGACGTGCCCACAACCTGCACTAAGTGTCCTTAGACACTATAGTGCTATCCC
1 AACATAAGGTCGTGCCCACCACCTGCACTAAGTGTTCTTACACACTA-AGTGATATCCC
2998455 TAGTATACAA
Statistics
Matches: 100, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
63 45 0.45
64 8 0.08
66 9 0.09
67 38 0.38
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (66 bp):
AACATAAGGTCGTGCCCACCACCTGCACTAAGTGTTCTTACACACTAAGTGATATCCCAAATATG
A
Found at i:3000580 original size:23 final size:23
Alignment explanation
Indices: 3000550--3000596 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
3000540 GCTTGAAGAC
3000550 AATTTCATGAA-ATTTCTACATTT
1 AATTTCATGAACATTTCT-CATTT
*
3000573 AATTTCATGAACATTTGTCATTT
1 AATTTCATGAACATTTCTCATTT
3000596 A
1 A
3000597 TTTAACTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (23 bp):
AATTTCATGAACATTTCTCATTT
Found at i:3011989 original size:3 final size:3
Alignment explanation
Indices: 3011981--3012014 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
3011971 TTTTTATTTA
*
3011981 ATT ATT ATT ATT ATT ATT ATT ATT -TT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3012015 ACTAACCCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3013499 original size:115 final size:115
Alignment explanation
Indices: 3013333--3013562 Score: 442
Period size: 115 Copynumber: 2.0 Consensus size: 115
3013323 TTTCTTCAAG
3013333 CACAAGTTGATTCAGGATCTTAATATGGGTAAATTTCTTTCTTCCATACATGAACAAAACCTAGT
1 CACAAGTTGATTCAGGATCTTAATATGGGTAAATTTCTTTCTTCCATACATGAACAAAACCTAGT
*
3013398 TGAACTCTTACGGTGGTTTGCGGTAATTAATGGTGGTTTGTGACATTTAA
66 TAAACTCTTACGGTGGTTTGCGGTAATTAATGGTGGTTTGTGACATTTAA
*
3013448 CACAAGTTGATTCAGGATCTTAATATGGGTAAATTTCTTTCTTCCATACATGAATAAAACCTAGT
1 CACAAGTTGATTCAGGATCTTAATATGGGTAAATTTCTTTCTTCCATACATGAACAAAACCTAGT
3013513 TAAACTCTTACGGTGGTTTGCGGTAATTAATGGTGGTTTGTGACATTTAA
66 TAAACTCTTACGGTGGTTTGCGGTAATTAATGGTGGTTTGTGACATTTAA
3013563 TGGTGGTACT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 113 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (115 bp):
CACAAGTTGATTCAGGATCTTAATATGGGTAAATTTCTTTCTTCCATACATGAACAAAACCTAGT
TAAACTCTTACGGTGGTTTGCGGTAATTAATGGTGGTTTGTGACATTTAA
Found at i:3014198 original size:33 final size:32
Alignment explanation
Indices: 3014151--3014214 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
3014141 GAGTATAGTT
*
3014151 TAATGACTCCTGGTGTAAGTTACCCCTTTTTCC
1 TAATGACTCCTGGTGTAAGTTA-CACTTTTTCC
*
3014184 TAATGAC-CCATGGTGTAATTTACACTTTTTC
1 TAATGACTCC-TGGTGTAAGTTACACTTTTTC
3014215 TTTCTCTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 18 0.64
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (32 bp):
TAATGACTCCTGGTGTAAGTTACACTTTTTCC
Found at i:3019456 original size:5 final size:5
Alignment explanation
Indices: 3019446--3019472 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
3019436 TACTTATGAA
3019446 AGAAG AGAAG AGAAG AGAAG AGAAG AG
1 AGAAG AGAAG AGAAG AGAAG AGAAG AG
3019473 GCAAAGAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:3026794 original size:3 final size:3
Alignment explanation
Indices: 3026776--3026818 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
3026766 TTTACAAAAA
*
3026776 TAT TAT TAAT TA- TAT TAT TA- TGT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3026819 AAAAAATGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 3 0.09
3 29 0.83
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:3026803 original size:20 final size:20
Alignment explanation
Indices: 3026778--3026816 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3026768 TACAAAAATA
3026778 TTATTAATTA-TATTATTATG
1 TTATT-ATTATTATTATTATG
3026798 TTATTATTATTATTATTAT
1 TTATTATTATTATTATTAT
3026817 TAAAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATTATTATTATTATTATG
Found at i:3041220 original size:36 final size:36
Alignment explanation
Indices: 3041168--3041269 Score: 138
Period size: 36 Copynumber: 2.9 Consensus size: 36
3041158 GTAGTAAAGC
* *
3041168 AATTCAGCCTTTACAGAAGAGTAGTGAAGCAATACA
1 AATTCAGACTTCACAGAAGAGTAGTGAAGCAATACA
3041204 AATTCAGACTTCACAGAAGAGTAGTGAAGCAATACA
1 AATTCAGACTTCACAGAAGAGTAGTGAAGCAATACA
*
3041240 AATCCA-ACCTTCAC-GAAAGAGTA-TGAAGCA
1 AATTCAGA-CTTCACAG-AAGAGTAGTGAAGCA
3041270 GGAAAAAATC
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
35 9 0.15
36 52 0.85
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.20
Consensus pattern (36 bp):
AATTCAGACTTCACAGAAGAGTAGTGAAGCAATACA
Found at i:3041475 original size:3 final size:3
Alignment explanation
Indices: 3041451--3041492 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
3041441 TCGTTATGTG
* *
3041451 TAT TA- TAT TA- TAT TAT TTT TAT TAT TAG TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
3041493 AGTTATTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3047269 original size:16 final size:16
Alignment explanation
Indices: 3047245--3047286 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
3047235 CAAATCAAAA
*
3047245 AAACATACATCAATAC
1 AAACATACATCAACAC
*
3047261 AAGCATACATCAACAC
1 AAACATACATCAACAC
3047277 AAACATACAT
1 AAACATACAT
3047287 GATACATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.26, G:0.02, T:0.17
Consensus pattern (16 bp):
AAACATACATCAACAC
Found at i:3047718 original size:37 final size:35
Alignment explanation
Indices: 3047675--3047779 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 35
3047665 GAAATTTTTG
* *
3047675 AAACAAATTTTATCTCACTTGAGACAGTTTTTCATAA
1 AAACAAATTTTGTCTCGCTTGAGACA-TTTTTC-TAA
* * * *
3047712 AAACAAATTTTGTCTCGTTTGAGATAATTTCTCTCA
1 AAACAAATTTTGTCTCGCTTGAGA-CATTTTTCTAA
* *
3047748 AAACAAATTTCGTCTCGCTTGAGGCATTTTTC
1 AAACAAATTTTGTCTCGCTTGAGACATTTTTC
3047780 CTTTGAGATA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
35 6 0.11
36 23 0.41
37 26 0.46
38 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (35 bp):
AAACAAATTTTGTCTCGCTTGAGACATTTTTCTAA
Found at i:3048196 original size:68 final size:66
Alignment explanation
Indices: 3048094--3048323 Score: 221
Period size: 70 Copynumber: 3.4 Consensus size: 66
3048084 AATCACAAAA
* * * *
3048094 CTTTGAGTCTTTTTCTCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTTTTCAAACAAAA
1 CTTTGAGT-TATTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGATAGTTTCTTTTAAAACAAAA
3048159 CAAT
64 C-AT
* * *
3048163 TTTTGAGATTATTTCCCTTGAAACGAA-TTTTGTCTCTCTTGAGATAGTTTCTATTGAAAAAAAA
1 CTTTGAG-TTATTTCCCTTGAAAC-AAGTTTTGTCTCTCTTGAGATAGTTTCT-TT-TAAAACAA
3048227 AACCAT
62 AA-CAT
* * * * * * * *
3048233 CTTTAAGTTTGTTTCCTTTGAAACAAGTTTTGTCTCTCTTGAGACAGCTTCTCTTGAAAC-AATC
1 CTTTGAG-TTATTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCTTTTAAAACAAAAC
3048297 AT
65 AT
3048299 CTTTGAGTCTATTTCCCTTGAAACA
1 CTTTGAGT-TATTTCCCTTGAAACA
3048324 TTATCCCTAT
Statistics
Matches: 132, Mismatches: 23, Indels: 15
0.78 0.14 0.09
Matches are distributed among these distances:
65 1 0.01
66 23 0.17
67 2 0.02
68 28 0.21
69 25 0.19
70 52 0.39
71 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (66 bp):
CTTTGAGTTATTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGATAGTTTCTTTTAAAACAAAACA
T
Found at i:3048583 original size:138 final size:136
Alignment explanation
Indices: 3048346--3048688 Score: 316
Period size: 138 Copynumber: 2.5 Consensus size: 136
3048336 ATGGTATGTT
* * * * * *
3048346 GTCCTCATCACGTAAGAACCGTATCATCCCCCGACTAGATCTCCTCATCACGTAGGAGCCGTGTC
1 GTCCTCATCACGTAGGAACAGTGTCATCCACCGACTAGATCTCCTCATCACATACGAGCCGTGTC
* * * * * *
3048411 ACCTCTAGATAACCAATCGTCCTCATAATATAGGA-ACAATGTTATCACCTTTTACCCCTAAAGA
66 ACCCCTAAATAACCAATCATCATCATAACATAGGAGA-AATGTTATCACC-ATT--CCCTAAAGA
*
3048475 TGACCAGCA-
127 TGACCAACAC
* * **
3048484 GTCCTCATCACGTAGGAACTGTGTCATCCACCG-CATAGATCTCCTCATCATATACGAGTTGTGT
1 GTCCTCATCACGTAGGAACAGTGTCATCCACCGAC-TAGATCTCCTCATCACATACGAGCCGTGT
* * ** * *
3048548 CACCCCTAAATAA-CAAGTCATCATCATCACGTAGGAGAGGTGTTATCATCATTCCCTAAAGATT
65 CACCCCTAAATAACCAA-TCATCATCATAACATAGGAGAAATGTTATCACCATTCCCTAAAGATG
*
3048612 ACCAATAC
129 ACCAACAC
* * * * * * * *
3048620 GTCCTCATCACGTAGGGACAGTGTTATCCACCGACCAGATCTTCACATCACGTAGGAGTCGTGTC
1 GTCCTCATCACGTAGGAACAGTGTCATCCACCGACTAGATCTCCTCATCACATACGAGCCGTGTC
3048685 ACCC
66 ACCC
3048689 TTAGACGACC
Statistics
Matches: 167, Mismatches: 33, Indels: 12
0.79 0.16 0.06
Matches are distributed among these distances:
135 15 0.09
136 57 0.34
137 7 0.04
138 87 0.52
139 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (136 bp):
GTCCTCATCACGTAGGAACAGTGTCATCCACCGACTAGATCTCCTCATCACATACGAGCCGTGTC
ACCCCTAAATAACCAATCATCATCATAACATAGGAGAAATGTTATCACCATTCCCTAAAGATGAC
CAACAC
Found at i:3064507 original size:2 final size:2
Alignment explanation
Indices: 3064500--3064544 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
3064490 GTGTCTAACT
3064500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3064542 TA T
1 TA T
3064545 TCATGTGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3068992 original size:45 final size:45
Alignment explanation
Indices: 3068877--3069216 Score: 504
Period size: 45 Copynumber: 7.5 Consensus size: 45
3068867 ATTATTCTTT
* * **
3068877 ATTTCAATTA-GAGCATCCATTCATACTTATAATGCA-CCATTATGC
1 ATTTCAATTATG-GCATCCTTTCATGCCGATAATGCACCCA-TATGC
* * * *
3068922 ATTTTTATTTATGGCATCCTTTCATGCTGGTAATGCACCCATATGC
1 A-TTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
*
3068968 ATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGC
1 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
3069013 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
1 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
*
3069058 ATTTCAATTATGGCATCCTTTCATACCGATAATGCACCCATATGC
1 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
*
3069103 ATTTCAATTATGGCATCCTTTCATGCCGATAATTCACCCATATGC
1 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
* * *
3069148 ATTTCAATTATGGCATCCTTTCACGTCGATAATGCACTCATATGC
1 ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
*
3069193 ATTTTAATTATGGCATCCTTTCAT
1 ATTTCAATTATGGCATCCTTTCAT
3069217 ACCTTTTATA
Statistics
Matches: 271, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 234 0.86
46 33 0.12
47 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (45 bp):
ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGC
Found at i:3069243 original size:90 final size:89
Alignment explanation
Indices: 3068877--3069264 Score: 467
Period size: 90 Copynumber: 4.3 Consensus size: 89
3068867 ATTATTCTTT
* * ** * *
3068877 ATTTCAATTA-GAGCATCCATTCATACTTATAATGCA-CCATTATGCATTTTTATTTATGGCATC
1 ATTTCAATTATG-GCATCCTTTCATGCCGATAATGCACCCA-TATGCA-TTTCAATTATGGCATC
* * *
3068940 CTTTCATGCTGGTAATGCACCCATATG
63 CTTTCATGCCGATAATACACCCATATG
*
3068967 CATTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGGCATCCT
1 -ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCT
*
3069032 TTCATGCCGATAATGCACCCATATG
65 TTCATGCCGATAATACACCCATATG
*
3069057 CATTTCAATTATGGCATCCTTTCATACCGATAATGCACCCATATGCATTTCAATTATGGCATCCT
1 -ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCT
*
3069122 TTCATGCCGATAATTCACCCATATG
65 TTCATGCCGATAATACACCCATATG
* * * *
3069147 CATTTCAATTATGGCATCCTTTCACGTCGATAATGCACTCATATGCATTTTAATTATGGCATCCT
1 -ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCT
* ** * **
3069212 TTCATACCTTTTATACACTATTATATG
65 TTCATGCCGATAATACAC--CCATATG
*
3069239 -TTTCATTTATGGCATCCTTTCATGCC
1 ATTTCAATTATGGCATCCTTTCATGCC
3069265 TTTATATATC
Statistics
Matches: 267, Mismatches: 26, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
90 222 0.83
91 36 0.13
92 9 0.03
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (89 bp):
ATTTCAATTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGGCATCCTT
TCATGCCGATAATACACCCATATG
Found at i:3069243 original size:135 final size:134
Alignment explanation
Indices: 3068905--3069264 Score: 481
Period size: 135 Copynumber: 2.7 Consensus size: 134
3068895 ATTCATACTT
* * * * * *
3068905 ATAATGCA-CCATTATGCATTTTTATTTATGGCATCCTTTCATGCTGGTAATGCACCCATATGCA
1 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATACCGATAATACACCCATATG-A
3068969 TTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGGCATCCTTT
63 TTTCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGGCATCCTTT
*
3069034 CATGCCG
128 CACGCCG
*
3069041 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATACCGATAATGCACCCATATGCATT
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATACCGATAATACACCCATATG-ATT
* *
3069106 TCAATTATGGCATCCTTTCATGCCGATAATTCACCCATATGCATTTCAATTATGGCATCCTTTCA
65 TCAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCA
*
3069171 CGTCG
130 CGCCG
* * ** * **
3069176 ATAATGCACTCATATGCATTTTAATTATGGCATCCTTTCATACCTTTTATACACTATTATATG-T
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATACCGATAATACAC--CCATATGAT
*
3069240 TTCATTTATGGCATCCTTTCATGCC
64 TTCAATTATGGCATCCTTTCATGCC
3069265 TTTATATATC
Statistics
Matches: 203, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
135 181 0.89
136 14 0.07
137 8 0.04
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (134 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATACCGATAATACACCCATATGATTT
CAATTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCAC
GCCG
Found at i:3069466 original size:81 final size:81
Alignment explanation
Indices: 3069338--3069694 Score: 494
Period size: 81 Copynumber: 4.5 Consensus size: 81
3069328 GCCTTTTATG
* * *
3069338 TAACTTGCATAATTGACACTTTTTCTGT-CAAATGCACAGCTATGCCATTAATCTTTTACTCAAC
1 TAACTGGCATAATTGACAC-CTTTCT-TCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAAC
3069402 GGTATTTAACCGTTCATC
64 GGTATTTAACCGTTCATC
3069420 TCAA-TGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACG
1 T-AACTGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACG
3069484 GTATTTAACCGTTCATC
65 GTATTTAACCGTTCATC
* * * *
3069501 TAACTGGCATAATTGACACCTTTCTGCCAAATGTAGAGCTAGGCCAGTAATCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACGG
*
3069566 TATTTAACCGTTTATC
66 TATTTAACCGTTCATC
* * * * * * *
3069582 TCACTGACATAATTGACACATTTC-TGCAAATGCAAAACTAGGCCATTAATCGTTTACTC-A---
1 TAACTGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACGG
3069642 TATTTAACCGTTCATC
66 TATTTAACCGTTCATC
*
3069658 TAACTGGCATAATTGACACCTTTCTGCCAAATGCACA
1 TAACTGGCATAATTGACACCTTTCTTCCAAATGCACA
3069695 TTTAGGCCTC
Statistics
Matches: 246, Mismatches: 25, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
76 36 0.15
77 9 0.04
79 1 0.00
80 31 0.13
81 152 0.62
82 15 0.06
83 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (81 bp):
TAACTGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTAATCTTTTACTCAACGG
TATTTAACCGTTCATC
Found at i:3069761 original size:68 final size:68
Alignment explanation
Indices: 3069652--3069800 Score: 237
Period size: 68 Copynumber: 2.2 Consensus size: 68
3069642 TATTTAACCG
* * *
3069652 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACATTTAGGCCTCAAAGGCAC-TAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGTTAGGCCTCAAAGGAACTTA-
3069716 GCCT
65 GCCT
* *
3069720 TTCATTTAACTGGCATAATTGACACCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGAACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGTTAGGCCTCAAAGGAACTTAG
3069785 CCT
66 CCT
3069788 TTCATCTAACTGG
1 TTCATCTAACTGG
3069801 TCTGTCAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
68 72 0.97
69 2 0.03
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGTTAGGCCTCAAAGGAACTTAG
CCT
Found at i:3069813 original size:53 final size:53
Alignment explanation
Indices: 3069752--3069853 Score: 177
Period size: 53 Copynumber: 1.9 Consensus size: 53
3069742 CACCTTTCTA
*
3069752 TCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGTCTG
1 TCAAATGCACAGTTAGGCATCAAAGGAACTTAGCCTTTCATCTAACTGGTCTG
* *
3069805 TCAAATGCACAGTTAGGCATTAAAGGCACTTAGCCTTTCATCTAACTGG
1 TCAAATGCACAGTTAGGCATCAAAGGAACTTAGCCTTTCATCTAACTGG
3069854 CATAATTGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (53 bp):
TCAAATGCACAGTTAGGCATCAAAGGAACTTAGCCTTTCATCTAACTGGTCTG
Found at i:3069899 original size:121 final size:121
Alignment explanation
Indices: 3069680--3069921 Score: 405
Period size: 121 Copynumber: 2.0 Consensus size: 121
3069670 TTGACACCTT
* * *
3069680 TCTGCCAAATGCACATTTAGGCCTCAAAGGCACTAGGCCTTTCATTTAACTGGCATAATTGACAC
1 TCTGCCAAATGCACAGTTAGGCATCAAAGGCACTAGGCCTTTCATCTAACTGGCATAATTGACAC
3069745 CTTTCTATCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGG
66 CTTTCTATCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGG
* *
3069801 TCTGTCAAATGCACAGTTAGGCATTAAAGGCACTTA-GCCTTTCATCTAACTGGCATAATTGACA
1 TCTGCCAAATGCACAGTTAGGCATCAAAGGCAC-TAGGCCTTTCATCTAACTGGCATAATTGACA
* *
3069865 CCTTTCTGTCAGATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGG
65 CCTTTCTATCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGG
3069922 CATAATTGAA
Statistics
Matches: 113, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
121 111 0.98
122 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (121 bp):
TCTGCCAAATGCACAGTTAGGCATCAAAGGCACTAGGCCTTTCATCTAACTGGCATAATTGACAC
CTTTCTATCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGG
Found at i:3069910 original size:68 final size:67
Alignment explanation
Indices: 3069801--3069959 Score: 255
Period size: 68 Copynumber: 2.4 Consensus size: 67
3069791 ATCTAACTGG
* * * *
3069801 TCTGTCAAATGCACAGTTAGGCATTAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACAC
1 TCTGTCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGA-AA
3069866 CTT
65 CTT
* *
3069869 TCTGTCAGATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGAAAT
1 TCTGTCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGAAAC
3069934 TT
66 TT
3069936 TCTGTCAAATGCACAGTTAGGCCT
1 TCTGTCAAATGCACAGTTAGGCCT
3069960 ATTAATCTTT
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
67 26 0.31
68 58 0.69
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (67 bp):
TCTGTCAAATGCACAGTTAGGCCTCAAAGGAACTTAGCCTTTCATCTAACTGGCATAATTGAAAC
TT
Found at i:3070347 original size:55 final size:54
Alignment explanation
Indices: 3070166--3070366 Score: 287
Period size: 54 Copynumber: 3.7 Consensus size: 54
3070156 ACATATACTT
* * * *
3070166 CCCATAC-GAAAATTCATACACTTAGTATGGATTTCTTAGTTCACACACGTAGCG
1 CCCATACAG-AAATTCATACACTTAGTATGAATTTCTTAGTTCTCACACATAGTG
*
3070220 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCGCACACATAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTCACACATAGTG
** * *
3070274 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTCACACAAAGTG
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAG-TTCTCACACATAGTG
*
3070329 CCCATACAGAAATTCATACACTTAGTATGTATTTCTTA
1 CCCATACAGAAATTCATACACTTAGTATGAATTTCTTA
3070367 AGTTTTTGCA
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
54 85 0.64
55 48 0.36
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (54 bp):
CCCATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTCTCACACATAGTG
Found at i:3070363 original size:109 final size:108
Alignment explanation
Indices: 3070166--3070366 Score: 312
Period size: 109 Copynumber: 1.9 Consensus size: 108
3070156 ACATATACTT
* **
3070166 CCCATACGAAAATTCATACACTTAGTATGGATTTCTTAGTTCACACACGTAGCGCCCATACAGAA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTCACACACAAAGCGCCCATACAGAA
3070231 ATTCATACACTTAGTATGAATTTCTTAGTTCGCACACATAGTG
66 ATTCATACACTTAGTATGAATTTCTTAGTTCGCACACATAGTG
* * ** *
3070274 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAGTTTTTCACACAAAGTGCCCATACAGA
1 CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAG-TTCACACACAAAGCGCCCATACAGA
*
3070339 AATTCATACACTTAGTATGTATTTCTTA
65 AATTCATACACTTAGTATGAATTTCTTA
3070367 AGTTTTTGCA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
108 36 0.43
109 47 0.57
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (108 bp):
CCCATACGAAAATTCATACACTTAGTATGAATTTCTTAGTTCACACACAAAGCGCCCATACAGAA
ATTCATACACTTAGTATGAATTTCTTAGTTCGCACACATAGTG
Found at i:3074284 original size:44 final size:45
Alignment explanation
Indices: 3074180--3074510 Score: 352
Period size: 45 Copynumber: 7.4 Consensus size: 45
3074170 GCTCTTTTAT
* *
3074180 TTATGGCATCCTTTCATGCC-AGTAACGCACCCATATGCATTTCAA
1 TTATGGCATCCTTTCATGCCGA-TAATGCACCCATATACATTTCAA
* * ***
3074225 TTATTGCATCTTTTCATATTGATAATGCACCCATAT-CATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTCAA
*
3074269 TTACGGCATCCTTTCATGCCGATAATGCACCCATA-AGCATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATA-CATTTCAA
* * *
3074314 TTATGACATCCTTTCATGCCAATAATGCACCCATAT-CATTTCAG
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTCAA
*
3074358 TTATGGCATTCTTTCATGCCGATAATGCACCCATATACATTTCAA
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTCAA
* * * * *
3074403 TTATGCCAT-CTTACATGTCGATAATGCA-CTATATACATTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTCAA
* * ** * * * * *
3074446 TTATGGCATCATGTCATGCCTTTTATACA-CTATTATACGTTTCAT
1 TTATGGCATCCTTTCATGCCGATAATGCACCCA-TATACATTTCAA
3074491 TTATGGCATCCTTTCATGCC
1 TTATGGCATCCTTTCATGCC
3074511 TTTATATACC
Statistics
Matches: 242, Mismatches: 37, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
43 21 0.09
44 108 0.45
45 112 0.46
46 1 0.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCCATATACATTTCAA
Found at i:3074303 original size:89 final size:88
Alignment explanation
Indices: 3074180--3074465 Score: 362
Period size: 89 Copynumber: 3.2 Consensus size: 88
3074170 GCTCTTTTAT
* *
3074180 TTATGGCATCCTTTCATGCC-AGTAACGCACCCATATGCATTTCAATTATTG-CATCTTTTCATA
1 TTATGGCATCCTTTCATGCCGA-TAATGCACCCATATGCATTTCAATTA-TGACATC-TTTCATG
*
3074243 TTGATAATGCACCCATATCATTTCAA
63 TCGATAATGCACCCATATCATTTCAA
* * *
3074269 TTACGGCATCCTTTCATGCCGATAATGCACCCATAAGCATTTCAATTATGACATCCTTTCATGCC
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGACAT-CTTTCATGTC
* *
3074334 AATAATGCACCCATATCATTTCAG
65 GATAATGCACCCATATCATTTCAA
* * * *
3074358 TTATGGCATTCTTTCATGCCGATAATGCACCCATATACATTTCAATTATGCCATCTTACATGTCG
1 TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGACATCTTTCATGTCG
* *
3074423 ATAATGCA-CTATATACATTTCAT
66 ATAATGCACCCATAT-CATTTCAA
* *
3074446 TTATGGCATCATGTCATGCC
1 TTATGGCATCCTTTCATGCC
3074466 TTTTATACAC
Statistics
Matches: 172, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
87 5 0.03
88 42 0.24
89 123 0.72
90 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (88 bp):
TTATGGCATCCTTTCATGCCGATAATGCACCCATATGCATTTCAATTATGACATCTTTCATGTCG
ATAATGCACCCATATCATTTCAA
Found at i:3074813 original size:81 final size:81
Alignment explanation
Indices: 3074568--3074954 Score: 465
Period size: 81 Copynumber: 4.8 Consensus size: 81
3074558 ACCCAAAGGC
* * * * * *
3074568 ATTTAGCCTTTCATCTAACTTG-CGTAATTGACACTTTTATGTCAAATGCACAGCTAGGCCATTA
1 ATTTAACCATTCATCTAAC-TGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTA
* * *
3074632 ATCTTTTAATCAATGAT
65 ATCTTTTACTCAACGGT
* * * * *
3074649 ATTTAACCATTCATCTAACTGGCATAATTGACA-CTTTCTTCCAAATGCACATCTAGACAATTAA
1 ATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
**
3074713 TCTTTTACTCAAATGT
66 TCTTTTACTCAACGGT
* * * ** * * *
3074729 ATTTAACCGTTCATCTAACTGGCATAATTGATATATTTCTACCAATTGCACAGCTAGGCCATGAA
1 ATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
3074794 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* ** *
3074810 ATTTAACCATTCATCTAACTGACATAACTGACACCTTTCTGCCAAATGCACAATTAGGCAATTAA
1 ATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
3074875 TCTTTTACTCAACGGT
66 TCTTTTACTCAACGGT
* * *
3074891 ATTTAACCTTTCATCTAACTAACATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCC-TTAA
1 ATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
3074955 AGACACTTAG
Statistics
Matches: 262, Mismatches: 42, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
80 73 0.28
81 189 0.72
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (81 bp):
ATTTAACCATTCATCTAACTGACATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTAA
TCTTTTACTCAACGGT
Found at i:3074919 original size:162 final size:161
Alignment explanation
Indices: 3074555--3074950 Score: 497
Period size: 161 Copynumber: 2.5 Consensus size: 161
3074545 CCTTTATTCC
* * * * ** * * * **
3074555 TTTACCCAAAGGCATTTAGCCTTTCATCTAACTTGCGTAATTGACACTTTTATGTCAAATGCACA
1 TTTACTCAAAGGTATTTAACCGTTCATCTAACTAACATAATTGACACATTTCTACCAAATGCACA
* * * *
3074620 GCTAGGCCATTAATCTTTTAATCAATGATATTTAACCATTCATCTAACTGGCATAATTGACACTT
66 GCTAGGCCATGAATCTTTTAATCAACGATATTTAACCATTCATCTAACTGACATAACTGACACTT
*
3074685 TCTTCCAAATGCACATCTAGACAATTAATCT
131 TCTGCCAAATGCACATCTAGACAATTAATCT
* ** * * *
3074716 TTTACTCAAATGTATTTAACCGTTCATCTAACTGGCATAATTGATATATTTCTACCAATTGCACA
1 TTTACTCAAAGGTATTTAACCGTTCATCTAACTAACATAATTGACACATTTCTACCAAATGCACA
* *
3074781 GCTAGGCCATGAATCTTTTACTCAACGGTATTTAACCATTCATCTAACTGACATAACTGACACCT
66 GCTAGGCCATGAATCTTTTAATCAACGATATTTAACCATTCATCTAACTGACATAACTGACA-CT
*
3074846 TTCTGCCAAATGCACAAT-TAGGCAATTAATCT
130 TTCTGCCAAATGCAC-ATCTAGACAATTAATCT
* * * *
3074878 TTTACTCAACGGTATTTAACCTTTCATCTAACTAACATAATTGACACCTTTCTGCCAAATGCACA
1 TTTACTCAAAGGTATTTAACCGTTCATCTAACTAACATAATTGACACATTTCTACCAAATGCACA
*
3074943 GTTAGGCC
66 GCTAGGCC
3074951 TTAAAGACAC
Statistics
Matches: 200, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
161 107 0.54
162 91 0.46
163 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (161 bp):
TTTACTCAAAGGTATTTAACCGTTCATCTAACTAACATAATTGACACATTTCTACCAAATGCACA
GCTAGGCCATGAATCTTTTAATCAACGATATTTAACCATTCATCTAACTGACATAACTGACACTT
TCTGCCAAATGCACATCTAGACAATTAATCT
Found at i:3075086 original size:67 final size:68
Alignment explanation
Indices: 3074897--3075214 Score: 429
Period size: 67 Copynumber: 4.8 Consensus size: 68
3074887 CGGTATTTAA
** * * *
3074897 CCTTTCATCTAACTAACATAATTGACACCTTTCTGCCAAATGCACAGTTAGGCCTT-AAAGACAC
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGG-CTTCAAAGGCAC
3074961 TTAG
65 TTAG
*
3074965 CCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGTTA-GCTTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACT
3075029 TAG
66 TAG
* *
3075032 CCTTTCATCTAACT-GTATAACTGACACATTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACT
3075096 TAG
66 TAG
* * * * *
3075099 CCTTTCATCTAACTGGTATAACTGACACATTTCTGTCAATTGCATAG-TAGGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACT
3075163 TAG
66 TAG
**
3075166 CCTTTCA--TAACTGGCATAATTGACATTTTTCTGTC-AATG--CAGTTAGGCT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCT
3075215 ATTAATCTTT
Statistics
Matches: 229, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
62 2 0.01
63 5 0.02
64 3 0.01
65 24 0.10
66 35 0.15
67 83 0.36
68 77 0.34
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (68 bp):
CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCTTCAAAGGCACT
TAG
Found at i:3075491 original size:54 final size:54
Alignment explanation
Indices: 3075425--3075621 Score: 256
Period size: 54 Copynumber: 3.7 Consensus size: 54
3075415 ACATATAATT
* * **
3075425 CCCATACAGAAATTCATGCACTTAGTATGGATTTCTTAGTTCGCACACATAGTG
1 CCCATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCGCACACATAGTG
*
3075479 CCCATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCG-ACACATAATG
1 CCCATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCGCACACATAGTG
* * * * *
3075532 CCCATACGAAAATTCATACACTTAATATGAATTTCTTAGTTTGCACACAAAGTG
1 CCCATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCGCACACATAGTG
* **
3075586 CCCATA--TAAATTCATACACTTAGTATAGTTTTCTTA
1 CCCATACGGAAATTCATACACTTAGTATAAATTTCTTA
3075622 AGTTTTTTGT
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
52 25 0.20
53 48 0.38
54 53 0.42
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.34
Consensus pattern (54 bp):
CCCATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCGCACACATAGTG
Found at i:3075566 original size:107 final size:105
Alignment explanation
Indices: 3075419--3075621 Score: 291
Period size: 107 Copynumber: 1.9 Consensus size: 105
3075409 AATTTCACAT
* * * * *
3075419 ATAATTCCCATACAGAAATTCATGCACTTAGTATGGATTTCTTAGTTCGCACACATAGTGCCCAT
1 ATAATGCCCATACAGAAATTCATACACTTAATATGAATTTCTTAGTTCGCACACAAAGTGCCCAT
3075484 ACGGAAATTCATACACTTAGTATAAATTTCTTAGTTCGACAC
66 A--GAAATTCATACACTTAGTATAAATTTCTTAGTTCGACAC
*
3075526 ATAATGCCCATAC-GAAAATTCATACACTTAATATGAATTTCTTAGTTTGCACACAAAGTGCCCA
1 ATAATGCCCATACAG-AAATTCATACACTTAATATGAATTTCTTAGTTCGCACACAAAGTGCCCA
* **
3075590 TATAAATTCATACACTTAGTATAGTTTTCTTA
65 TAGAAATTCATACACTTAGTATAAATTTCTTA
3075622 AGTTTTTTGT
Statistics
Matches: 86, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 27 0.31
106 1 0.01
107 58 0.67
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.34
Consensus pattern (105 bp):
ATAATGCCCATACAGAAATTCATACACTTAATATGAATTTCTTAGTTCGCACACAAAGTGCCCAT
AGAAATTCATACACTTAGTATAAATTTCTTAGTTCGACAC
Found at i:3079646 original size:54 final size:54
Alignment explanation
Indices: 3079583--3079853 Score: 325
Period size: 54 Copynumber: 5.1 Consensus size: 54
3079573 ATAAGTTCTT
* *
3079583 TGGGGTGCACA-TGTAGTGTCGATACGGTCATTCATAAACTCATTATGAATTATG
1 TGGGTTGCACACT-TAGTGTCGATACGGTCATTCATAAACTTATTATGAATTATG
* * * * *
3079637 TGGATTGCACATTTAGTATCGATACGGTCGTTCATAAACTTATTATGAATTACG
1 TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTATG
* * *
3079691 TGGGTTGCACACTAAGTGCCGATACGGTCATTCAAAAACTTATTATGAATT-TCG
1 TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTAT-G
* * * * * *
3079745 TGGGTTTCACACTTAGTTTC-ATACAGTCTTTCATAAACTT-TCATGAATTTTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTATG
* * *
3079797 TGGGTTGCACACTTAGTGTCGATACGGTCGTTCATACACTTATTATGAATTCTG
1 TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTATG
3079851 TGG
1 TGG
3079854 ATTTTGTCGT
Statistics
Matches: 183, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
52 27 0.15
53 35 0.19
54 120 0.66
55 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGTCGATACGGTCATTCATAAACTTATTATGAATTATG
Found at i:3080592 original size:43 final size:44
Alignment explanation
Indices: 3080545--3080779 Score: 262
Period size: 44 Copynumber: 5.4 Consensus size: 44
3080535 ACTAAAACTT
* *
3080545 TGGTATATAGCGGTGTTTTTAGGA-AAATAACG-CGCTAAAGGTA
1 TGGTATATAGCGGCGTTTTTAGGATAAA-AACGCCGCTAAAGGTC
* * * * *
3080588 TGGTATATAGCGACATTTTTAGGATACAAACGCCACTAGAGGTC
1 TGGTATATAGCGGCGTTTTTAGGATAAAAACGCCGCTAAAGGTC
* * ** *
3080632 TCGTATATAGTGGCGTTTTTATAATACAAACGCCGCTAAAGGTC
1 TGGTATATAGCGGCGTTTTTAGGATAAAAACGCCGCTAAAGGTC
* *
3080676 TGGTATATAGCGGCGTTTTTAGGATACAAACACCGCTAAAGGTC
1 TGGTATATAGCGGCGTTTTTAGGATAAAAACGCCGCTAAAGGTC
* * * *
3080720 TAGTATATAGC-GCATTTTTAGGATACAAACGCCGCGAAAGGT-
1 TGGTATATAGCGGCGTTTTTAGGATAAAAACGCCGCTAAAGGTC
*
3080762 TGGTATATAGAGGCGTTT
1 TGGTATATAGCGGCGTTT
3080780 GTAACAATAA
Statistics
Matches: 162, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
42 9 0.06
43 58 0.36
44 95 0.59
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
TGGTATATAGCGGCGTTTTTAGGATAAAAACGCCGCTAAAGGTC
Found at i:3080671 original size:131 final size:130
Alignment explanation
Indices: 3080526--3080779 Score: 334
Period size: 131 Copynumber: 1.9 Consensus size: 130
3080516 TTTTAAAGAA
* *
3080526 ACAAACACCACTAAAACTTTGGTATATAGCGGTGTTTTTAGGA-A-AATA-ACGCGCTAAAGGTA
1 ACAAACACCACTAAAACTCTGGTATATAGCGGCGTTTTTAGGATACAA-ACAC-CGCTAAAGGTA
* * * *
3080588 TGGTATATAGCGACATTTTTAGGATACAAACGCCACTAGAGGTCTCGTATATAGTGGCGTTTTTA
64 TAGTATATAGCG-CATTTTTAGGATACAAACGCCACGAAAGGT-TCGTATATAGAGGCGTTTTTA
3080653 TAAT
127 TAAT
* * ** *
3080657 ACAAACGCCGCTAAAGGTCTGGTATATAGCGGCGTTTTTAGGATACAAACACCGCTAAAGGTCTA
1 ACAAACACCACTAAAACTCTGGTATATAGCGGCGTTTTTAGGATACAAACACCGCTAAAGGTATA
* *
3080722 GTATATAGCGCATTTTTAGGATACAAACGCCGCGAAAGGTTGGTATATAGAGGCGTTT
66 GTATATAGCGCATTTTTAGGATACAAACGCCACGAAAGGTTCGTATATAGAGGCGTTT
3080780 GTAACAATAA
Statistics
Matches: 107, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
130 16 0.15
131 64 0.60
132 23 0.21
133 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (130 bp):
ACAAACACCACTAAAACTCTGGTATATAGCGGCGTTTTTAGGATACAAACACCGCTAAAGGTATA
GTATATAGCGCATTTTTAGGATACAAACGCCACGAAAGGTTCGTATATAGAGGCGTTTTTATAAT
Found at i:3092506 original size:3 final size:3
Alignment explanation
Indices: 3092498--3092554 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
3092488 ACTTTAACAA
3092498 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3092546 TAT TAT TAT
1 TAT TAT TAT
3092555 AGTTTCTTTG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3094698 original size:15 final size:15
Alignment explanation
Indices: 3094680--3094708 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3094670 ATATGGAATT
3094680 TTCTTATTTTCTTTA
1 TTCTTATTTTCTTTA
3094695 TTCTTATTTTCTTT
1 TTCTTATTTTCTTT
3094709 CGATTTTCTT
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:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTATTTTCTTTA
Found at i:3094728 original size:12 final size:13
Alignment explanation
Indices: 3094678--3094731 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 13
3094668 TTATATGGAA
3094678 TTTTCTTATTTTC
1 TTTTCTTATTTTC
3094691 TTTATTCTTATTTTC
1 -TT-TTCTTATTTTC
*
3094706 -TTTC-GATTTTC
1 TTTTCTTATTTTC
3094717 TTTT-TTATTTTC
1 TTTTCTTATTTTC
3094729 TTT
1 TTT
3094732 CCCCTTTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
11 6 0.17
12 15 0.43
13 1 0.03
14 2 0.06
15 11 0.31
ACGTcount: A:0.09, C:0.13, G:0.02, T:0.76
Consensus pattern (13 bp):
TTTTCTTATTTTC
Found at i:3096949 original size:36 final size:35
Alignment explanation
Indices: 3096909--3096976 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
3096899 TCCTGTTTGG
*
3096909 ACTTGAATTTAGAACTTTCTCATATTTCTTTTTGTA
1 ACTTG-ATTTAGAACTTTCACATATTTCTTTTTGTA
* * *
3096945 ACTTGCTTTTGAACTTTGACATATTTCTTTTT
1 ACTTGATTTAGAACTTTCACATATTTCTTTTT
3096977 ATGAGGATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 23 0.82
36 5 0.18
ACGTcount: A:0.22, C:0.15, G:0.09, T:0.54
Consensus pattern (35 bp):
ACTTGATTTAGAACTTTCACATATTTCTTTTTGTA
Found at i:3097698 original size:98 final size:100
Alignment explanation
Indices: 3097445--3097704 Score: 330
Period size: 99 Copynumber: 2.6 Consensus size: 100
3097435 CGTTAATATT
* * * * ** * * *
3097445 ATATATATACAATAAAGCTTGAGCT-GACCCTCTAAAGTAATTGGTTAAA-AACCTGTCTTTATG
1 ATATCTATACAATAAAACTTGAG-TAGACCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATA
3097508 GATAAGATTCAGCTAAGCCTGATAAAGGTGATTATA
65 GATAAGATTCAGCTAAGCCTGATAAAGGTGATTATA
**
3097544 ATATCTATACAATAAAACTTGAGTAGACCCTCTAGATCAATTGGTTAAACGCCCCGGCTTTATAG
1 ATATCTATACAATAAAACTTGAGTAGACCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATAG
* *
3097609 ATAATATTTAGCT-AGCCTGATAAAGGTGATTATA
66 ATAAGATTCAGCTAAGCCTGATAAAGGTGATTATA
* * * *
3097643 ATATCTATACAATGATA-TTGAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTAT
1 ATATCTATACAATAAAACTTGAGTAGACCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTAT
3097705 GGATCCAGCT
Statistics
Matches: 141, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
98 42 0.30
99 78 0.55
100 21 0.15
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (100 bp):
ATATCTATACAATAAAACTTGAGTAGACCCTCTAGAGAAATTGGTTAAACGCCCCGGCTTTATAG
ATAAGATTCAGCTAAGCCTGATAAAGGTGATTATA
Found at i:3098996 original size:84 final size:84
Alignment explanation
Indices: 3098838--3100295 Score: 1579
Period size: 84 Copynumber: 17.5 Consensus size: 84
3098828 GAAACTATTG
* * * ** * * * * * *
3098838 GCAGCATAACTTAAGGCTAGAAGGGTTATCTGTAAACAAAATACCTTCAAATTCAACTATGCTTA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3098903 GCTCCAAGGCACATCGTTT
66 GCTCAAAGGCACATCATTT
* * * * * * * *
3098922 GCAACATGGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGATCTTCAAGTTCAACTAAGCTTA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3098987 GCTCTAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * *
3099006 GTAGCAAAACTCAAGGCTAGAAGGGTTATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099071 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
3099090 GCAACATAGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCAAATTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099155 GCTCAAAGGCATATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * *
3099174 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTTCACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
3099238 GCTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * *
3099257 GCATCATAGCTCAAGGCTAA-AAGGGTTATCTACCAAC-AAAGACCTTTGAGTTTGACTACGCTC
1 GCAGCATAGCTCAAGGC-AAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTC
*
3099320 AGCTCAAAGGCACAACATTT
65 AGCTCAAAGGCACATCATTT
* * *
3099340 GCAGCATAGCTCAAGG--AGAAAAGGTCTATCTACCAACAAAAGACCTTCGAGTTTGACTACGCT
1 GCAGCATAGCTCAAGGCAAG-AAGGGT-TATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCT
*
3099403 CATCTCAAAGGCACAAT-ATTT
64 CAGCTCAAAGGCAC-ATCATTT
* * * * *
3099424 ACAGCATAGCTCAAGGCGAGAAGGGTTGTCTGCCAACAAAATACCTTCGAGTTCAACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3099489 TCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * *
3099508 ---GCA-A-CTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTT-GACTACTCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099567 ACTC-AAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * *
3099585 GAAACATATCTCAAGGCAAGAAGGGCTATTTGCCAATAAAAGAACTTCGAGTTCGACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099650 GCTCAAAGGCACAACATTT
66 GCTCAAAGGCACATCATTT
* * *
3099669 GTAGCATAGCTCAATGCAAGAAGAGTTATCTGCCAA-AAAAGACCTTCGAGTT-GACTACGCTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3099732 ACTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * ** * * * *
3099751 GCAACATAGCTCAAGGTAAGAAGGACTATTTACCAACAAAATACCTTCGAGTTCGACTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099816 CCTCAAAGGCACAAT-ATTT
66 GCTCAAAGGCAC-ATCATTT
* * * *
3099835 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGATCGACTACGATCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3099900 GCTCCAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * * * *
3099919 GTAGTATAACTCAAGGCTAGAAGGGTTACCTGCTAACAAAAGATCTTCGAGTTCGA-TAACAG-T
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACT-AC-GCT
3099982 CAGCTCAAAGGCACATCATTT
64 CAGCTCAAAGGCACATCATTT
* * * ** * * *
3100003 GCAGTATAGCTCAAGGAAAGAAGGGTTATCTTCCAGTAAAAGACCTTCGAGTTCGATTACACCCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
* *
3100068 GCTCAAAGGCGCATAATTT
66 GCTCAAAGGCACATCATTT
* * * * * * * * *
3100087 ACAGTATAACTCAAGGCTAGAAGGGTTATCTGTCTAC--AAGACCTTCGAGTTTGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
*
3100150 ACTCAAAGGCACATCATTT
66 GCTCAAAGGCACATCATTT
* * * * *
3100169 GCAGCATAGCTCAAGGCAAGAAGGGATATCTACTAACAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
3100234 GCTCAAAGGCACATCAAATTT
66 GCTCAAAGGCACATC--ATTT
* * * * *
3100255 ACAGCGTAGCTCAAGGCAAGAAGGGCTATCTGTCAATAAAA
1 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAA
3100296 TTGTCGAGTT
Statistics
Matches: 1162, Mismatches: 184, Indels: 54
0.83 0.13 0.04
Matches are distributed among these distances:
77 14 0.01
78 12 0.01
79 40 0.03
80 4 0.00
81 4 0.00
82 167 0.14
83 184 0.16
84 687 0.59
85 10 0.01
86 40 0.03
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (84 bp):
GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCAAAGGCACATCATTT
Found at i:3099449 original size:334 final size:334
Alignment explanation
Indices: 3098838--3100295 Score: 1559
Period size: 334 Copynumber: 4.4 Consensus size: 334
3098828 GAAACTATTG
* ** * * * * * ** *
3098838 GCAGCATAACTTAAGGCTAGAAGGGTTATCTGTAAACAAAATACCTTCAAATTCAACTATGCTTA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * *
3098903 GCTCCAAGGCACATCGTTTGCAACATGGCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGATCT
66 GCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGATCT
* * * * * * * * * * *
3098968 TCAAGTTCAACTAAGCTTAGCTCTAAGGCACATCATTTGTAGCAAAACTCAAGGCTAGAAGGGTT
131 TCGAGTTCGACTACGCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGG--AAAAAGGTT
* * * *
3099033 ATCTGTCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATA
194 ATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAACATA
* * * * *
3099098 GCTCAAGGCAAGAAGGGTTATTTGCCAACAAAAGACCTTCAAATTCGACTACGCTCAGCTCAAAG
259 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAACTCAAAG
*
3099163 GCATATCATTT
324 GCACATCATTT
* *
3099174 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTTCACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * *
3099238 GCTCAAAGGCACATCATTTGCATCATAGCTCAAGGCTAA-AAGGGTTATCTACCAAC-AAAGACC
66 GCTCAAAGGCACATCATTTGCAACATAGCTCAAGGC-AAGAAGGGTTATCTGCCAACAAAAGATC
* *
3099301 TTTGAGTTTGACTACGCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGGAGAAAAGGTC
130 TTCGAGTTCGACTACGCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGGA-AAAAGGT-
* * * *
3099366 TATCTACCAACAAAAGACCTTCGAGTTTGACTACGCTCATCTCAAAGGCACAAT-ATTTACAGCA
193 TATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCAC-ATCATTTACAACA
* * * * * * *
3099430 TAGCTCAAGGCGAGAAGGGTTGTCTGCCAACAAAATACCTTCGAGTTCAACTACGCTCATCTCCA
257 TAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAACTCAA
3099495 AGGCACATCATTT
322 AGGCACATCATTT
* * *
3099508 ---GC--AACTCAAGGCTAGAAGGGTTATTTGCCAACAAAAGACCTTCGAGTT-GACTACTCTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * * * * *
3099567 ACTC-AAGGCACATCATTTGAAACATATCTCAAGGCAAGAAGGGCTATTTGCCAATAAAAGAACT
66 GCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGATCT
* * *
3099631 TCGAGTTCGACTACGCTCAGCTCAAAGGCACAACATTTGTAGCATAGCTCAATGCAAGAAGAGTT
131 TCGAGTTCGACTACGCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAA-GGAAAAAG-GTT
* * *
3099696 ATCTGCCAA-AAAAGACCTTCGAGTT-GACTACGCTCAACTCCAAGGCACATCATTTGCAACATA
194 ATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAACATA
* ** * * * *
3099759 GCTCAAGGTAAGAAGGACTATTTACCAACAAAATACCTTCGAGTTCGACTACACTCACCTCAAAG
259 GCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAACTCAAAG
3099824 GCACAAT-ATTT
324 GCAC-ATCATTT
* * * * * *
3099835 GCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGATCGACTACGA-TC
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTAC-ACTC
* * ** * * * *
3099899 AGCTCCAAGGCACATCATTTGTAGTATAACTCAAGGCTAGAAGGGTTACCTGCTAACAAAAGATC
65 AGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGATC
* *
3099964 TTCGAGTTCGA-TAACAG-TCAGCTCAAAGGCACATCATTTGCAGTATAGCTCAAGGAAAGAAGG
130 TTCGAGTTCGACT-AC-GCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGGAAA-AA-G
* ** * * * * * **
3100027 GTTATCTTCCAGTAAAAGACCTTCGAGTTCGATTACACCCAGCTCAAAGGCGCATAATTTACAGT
191 GTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAAC
* * * * * *
3100092 ATAACTCAAGGCTAGAAGGGTTATCTGTCTAC--AAGACCTTCGAGTTTGATTACACTCAACTCA
256 ATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAACTCA
3100155 AAGGCACATCATTT
321 AAGGCACATCATTT
* * * * *
3100169 GCAGCATAGCTCAAGGCAAGAAGGGATATCTACTAACAAAAGACCTTCGAGTTCGATTACACTCA
1 GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
* * * * * *
3100234 GCTCAAAGGCACATCAAATTTACAGCGTAGCTCAAGGCAAGAAGGGCTATCTGTCAATAAAA
66 GCTCAAAGGCACATC--ATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAA
3100296 TTGTCGAGTT
Statistics
Matches: 942, Mismatches: 151, Indels: 58
0.82 0.13 0.05
Matches are distributed among these distances:
326 2 0.00
327 95 0.10
328 59 0.06
329 108 0.11
330 21 0.02
331 2 0.00
332 41 0.04
333 24 0.03
334 386 0.41
335 85 0.09
336 119 0.13
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (334 bp):
GCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCA
GCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGGGTTATCTGCCAACAAAAGATCT
TCGAGTTCGACTACGCTCAGCTCAAAGGCACAACATTTGCAGCATAGCTCAAGGAAAAAGGTTAT
CTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCATTTACAACATAGC
TCAAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACACTCAACTCAAAGGC
ACATCATTT
Found at i:3100963 original size:25 final size:22
Alignment explanation
Indices: 3100928--3100978 Score: 66
Period size: 25 Copynumber: 2.2 Consensus size: 22
3100918 ACGTAATTTA
*
3100928 TACATATCATATTATATCTTATAAT
1 TACATAACATATT-TAT-TTAT-AT
3100953 TACATAACATATTTATTTATAT
1 TACATAACATATTTATTTATAT
3100975 TACA
1 TACA
3100979 GGCCCAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 6 0.24
23 4 0.16
24 3 0.12
25 12 0.48
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (22 bp):
TACATAACATATTTATTTATAT
Found at i:3102182 original size:3 final size:3
Alignment explanation
Indices: 3102174--3102226 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
3102164 TATATATAAC
*
3102174 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3102222 TAT TA
1 TAT TA
3102227 ACATGTATGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:3102276 original size:12 final size:13
Alignment explanation
Indices: 3102148--3102279 Score: 83
Period size: 12 Copynumber: 10.8 Consensus size: 13
3102138 TGTTTATACG
3102148 TTATT-TTATATA
1 TTATTATTATATA
3102160 -TA-TA-TATATA
1 TTATTATTATATA
* *
3102170 TAACTATTAT-TA
1 TTATTATTATATA
3102182 TTATTATTAT-TA
1 TTATTATTATATA
3102194 TTATTATTAT-TA
1 TTATTATTATATA
3102206 TTATTATTAT-TA
1 TTATTATTATATA
* *
3102218 TTACTATTA-ACA
1 TTATTATTATATA
3102230 TGTATGTA-TATATA
1 T-TAT-TATTATATA
*
3102244 TATATATATT-TA-C
1 T-TAT-TATTATATA
3102257 TTATTTATTATATA
1 TTA-TTATTATATA
3102271 -TATTATTAT
1 TTATTATTAT
3102280 TTTGACTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 24
0.73 0.08 0.18
Matches are distributed among these distances:
10 7 0.07
11 3 0.03
12 61 0.63
13 13 0.13
14 12 0.12
15 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (13 bp):
TTATTATTATATA
Found at i:3102359 original size:12 final size:12
Alignment explanation
Indices: 3102331--3102364 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
3102321 ATCTTTATTC
3102331 TTATTTTC-TTT
1 TTATTTTCTTTT
*
3102342 TGATTTTCTTTT
1 TTATTTTCTTTT
3102354 TTATTTTCTTT
1 TTATTTTCTTT
3102365 CCCCTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.79
Consensus pattern (12 bp):
TTATTTTCTTTT
Found at i:3116144 original size:21 final size:21
Alignment explanation
Indices: 3116093--3116144 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
3116083 TTTTCCCAAT
*
3116093 TCGCAATGCGAATAAGTAAAA
1 TCGCAATGCGAATAAGGAAAA
* **
3116114 -CGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGGAAAA
3116134 TCGCAATGCGA
1 TCGCAATGCGA
3116145 TACTGACTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAAAA
Found at i:3116158 original size:20 final size:20
Alignment explanation
Indices: 3116133--3116246 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
3116123 AATTGGGAAA
*
3116133 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3116153 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
3116173 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
3116194 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
3116214 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
3116234 TTCGCAACGCGAT
1 ATCGCAACGCGAT
3116247 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:3116179 original size:61 final size:61
Alignment explanation
Indices: 3116130--3116246 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
3116120 GCGAATTGGG
* * * * *
3116130 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
3116191 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
3116247 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:3116820 original size:18 final size:18
Alignment explanation
Indices: 3116778--3116820 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3116768 GCAACGAGAG
3116778 AATCGCAACGCGAATAAA
1 AATCGCAACGCGAATAAA
*
3116796 AAACGCAACGCGAA-ACAA
1 AATCGCAACGCGAATA-AA
3116814 AATCGCA
1 AATCGCA
3116821 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.51, C:0.26, G:0.16, T:0.07
Consensus pattern (18 bp):
AATCGCAACGCGAATAAA
Found at i:3116867 original size:33 final size:33
Alignment explanation
Indices: 3116830--3116917 Score: 140
Period size: 33 Copynumber: 2.6 Consensus size: 33
3116820 ATTGCGATTT
* *
3116830 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
3116863 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
3116896 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
3116918 ATTATCTCGT
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 36 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.25, G:0.25, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:3116919 original size:20 final size:20
Alignment explanation
Indices: 3116885--3116942 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
3116875 GCGATTCTCT
**
3116885 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
3116905 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
3116925 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
3116943 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:3119019 original size:21 final size:21
Alignment explanation
Indices: 3118995--3119061 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
3118985 TCATTCCTCG
3118995 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
3119016 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
3119037 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
3119058 AGAG
1 AGAG
3119062 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:3119019 original size:42 final size:42
Alignment explanation
Indices: 3118943--3119061 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
3118933 GACTCGCCTG
* * * * * * *
3118943 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
3118985 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
3119027 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
3119062 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:3120439 original size:14 final size:14
Alignment explanation
Indices: 3120420--3120455 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3120410 ATTGTTTAAT
3120420 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
3120434 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
3120448 TGATTTGT
1 TGATTTGT
3120456 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:3120619 original size:20 final size:19
Alignment explanation
Indices: 3120562--3120629 Score: 74
Period size: 20 Copynumber: 3.8 Consensus size: 19
3120552 AAAAAGTTCT
3120562 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
3120581 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
3120595 ATCGCAATGCGAAAATGAAA
1 ATCGCAATGCG-AAATGAAA
*
3120615 ATCGCAACGCGAAAT
1 ATCGCAATGCGAAAT
3120630 TAAATTCGCG
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 10 0.25
15 1 0.03
16 2 0.05
17 2 0.05
19 12 0.30
20 13 0.32
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:3120656 original size:19 final size:19
Alignment explanation
Indices: 3120634--3120751 Score: 67
Period size: 19 Copynumber: 6.7 Consensus size: 19
3120624 CGAAATTAAA
3120634 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
**
3120653 TTCGTATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
3120668 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
3120686 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
3120701 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
3120719 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
3120738 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
3120752 AGACATTAAG
Statistics
Matches: 71, Mismatches: 17, Indels: 21
0.65 0.16 0.19
Matches are distributed among these distances:
14 16 0.23
16 6 0.08
17 6 0.08
19 33 0.46
20 10 0.14
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:3120680 original size:33 final size:33
Alignment explanation
Indices: 3120638--3120731 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
3120628 ATTAAATTCG
*
3120638 CGTTGCGATTTTCATTTCGTATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
3120671 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
3120704 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
3120732 AGTAATTTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:3123040 original size:12 final size:12
Alignment explanation
Indices: 3123023--3123047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3123013 TCTTCGGGGA
3123023 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3123035 CTTTTTCTTCTT
1 CTTTTTCTTCTT
3123047 C
1 C
3123048 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:3123256 original size:24 final size:24
Alignment explanation
Indices: 3123222--3123275 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3123212 CTGAAACATC
* *
3123222 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
3123246 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
3123270 ATCAAA
1 ATCAAA
3123276 TTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:3124357 original size:20 final size:20
Alignment explanation
Indices: 3124332--3124389 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
3124322 ATTCATTTGA
3124332 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
3124352 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
3124372 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
3124390 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:3124432 original size:14 final size:16
Alignment explanation
Indices: 3124412--3124485 Score: 66
Period size: 19 Copynumber: 4.5 Consensus size: 16
3124402 TGAAAATCGC
3124412 ATTGCGATTTTC-TCG
1 ATTGCGATTTTCTTCG
3124427 -TTGCGATTTTCATTTCG
1 ATTGCGATTTTC--TTCG
3124444 CATTGCGATTTTCATTTCG
1 -ATTGCGATTTTC--TTCG
3124463 CATTGCGATTTTC-TCG
1 -ATTGCGATTTTCTTCG
3124479 -TTGCGAT
1 ATTGCGAT
3124486 AGTCTGTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.33
16 3 0.06
17 3 0.06
19 30 0.56
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (16 bp):
ATTGCGATTTTCTTCG
Found at i:3124449 original size:19 final size:19
Alignment explanation
Indices: 3124408--3124475 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
3124398 GAAATGAAAA
3124408 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
3124424 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3124441 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
3124460 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
3124476 TCGTTGCGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
14 11 0.23
16 3 0.06
17 3 0.06
19 30 0.64
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:3124592 original size:14 final size:14
Alignment explanation
Indices: 3124573--3124609 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3124563 CATCAATTAA
3124573 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
3124587 ACAAATCATCTTTT
1 ACAAATCAACATTT
3124601 ACAAATCAA
1 ACAAATCAA
3124610 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:3126506 original size:20 final size:19
Alignment explanation
Indices: 3126471--3126537 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
3126461 GAAACTTAAA
3126471 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
3126490 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
3126510 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
3126529 ATCGCAACG
1 ATCGCAACG
3126538 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:3126545 original size:14 final size:14
Alignment explanation
Indices: 3126526--3126583 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
3126516 ATGCGAAATG
3126526 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
3126540 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
*
3126556 ATGAAATTGCAACGAC
1 A--AAATCGCAACGAC
3126572 AAAATCGCAACG
1 AAAATCGCAACG
3126584 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 8 0.22
18 8 0.22
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:3126573 original size:32 final size:33
Alignment explanation
Indices: 3126510--3126588 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
3126500 GGAAATGGCT
*
3126510 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
3126543 ATCGCAACGCGAAATG-AAATTGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
3126575 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
3126589 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:3126617 original size:19 final size:18
Alignment explanation
Indices: 3126595--3126659 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
3126585 GAAACACAAA
3126595 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
* *
3126614 TCGCGTTGCGATTT--TG
1 TCGCATTGCGATTTCATT
3126630 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
*
3126646 TTGCATTGCGATTT
1 TCGCATTGCGATTT
3126660 TGTCGTTGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
14 9 0.24
16 7 0.18
18 12 0.32
19 10 0.26
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.48
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:3126636 original size:14 final size:14
Alignment explanation
Indices: 3126617--3126674 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
3126607 TTTCATTTCG
3126617 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
3126631 CGTTGCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
*
3126648 GCATTGCGATTTTGT
1 -CGTTGCGATTTTGT
*
3126663 CGTTGTGATTTT
1 CGTTGCGATTTT
3126675 CATTTCGCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
14 18 0.51
15 5 0.14
17 5 0.14
18 7 0.20
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.52
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:3126685 original size:33 final size:33
Alignment explanation
Indices: 3126600--3126690 Score: 139
Period size: 32 Copynumber: 2.8 Consensus size: 33
3126590 ACAAATCGCA
*
3126600 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
3126633 TTGCGA-TTTCATTTTGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
* *
3126665 TTGTGATTTTCATTTCGCATTACGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
3126691 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:3126699 original size:19 final size:20
Alignment explanation
Indices: 3126675--3126718 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3126665 TTGTGATTTT
3126675 CATTT-CGCATTACGATAGC
1 CATTTCCGCATTACGATAGC
* * *
3126694 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTACGATAGC
3126714 CATTT
1 CATTT
3126719 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:3126712 original size:20 final size:20
Alignment explanation
Indices: 3126687--3126729 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3126677 TTTCGCATTA
3126687 CGATAGCCATTTCCGCGTTG
1 CGATAGCCATTTCCGCGTTG
* * *
3126707 CGATAGTCATTTTCGTGTTG
1 CGATAGCCATTTCCGCGTTG
3126727 CGA
1 CGA
3126730 AAGTAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.35
Consensus pattern (20 bp):
CGATAGCCATTTCCGCGTTG
Found at i:3127023 original size:21 final size:21
Alignment explanation
Indices: 3126999--3127045 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
3126989 ATCGTCTTTG
* *
3126999 CGTAAAGTATCGACCTCCTCA
1 CGTAAAGCATCGACCTCATCA
* *
3127020 CGTAAGGCATTGACCTCATCA
1 CGTAAAGCATCGACCTCATCA
3127041 CGTAA
1 CGTAA
3127046 CTCCCCTAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (21 bp):
CGTAAAGCATCGACCTCATCA
Found at i:3127237 original size:18 final size:18
Alignment explanation
Indices: 3127211--3127255 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3127201 GTCGATCAGA
*
3127211 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3127229 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3127247 TGATGGCTC
1 TGATGGCTC
3127256 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3128596 original size:20 final size:20
Alignment explanation
Indices: 3128571--3128644 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
3128561 AATAGTTTCT
*
3128571 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACGC
**
3128591 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
** **
3128611 GAATTTGACTATCGCAACGC
1 GAAAATGAAAATCGCAACGC
*
3128631 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
3128645 GTTGCGATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 6 0.13
20 39 0.87
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACGC
Found at i:3129135 original size:20 final size:20
Alignment explanation
Indices: 3129109--3129181 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
3129099 GATTATGTAT
3129109 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3129129 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
3129149 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
*
3129169 TATCTCGTTGCGA
1 TATCGCGTTGCGA
3129182 TTTTGTATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:3129226 original size:41 final size:41
Alignment explanation
Indices: 3129089--3129224 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
3129079 CGCTTTGAAA
*
3129089 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
3129130 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * * *
3129170 ATCTCGTTGCGATTTTGTATTATCGCATTGTGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
3129211 ATCGCATTGCGATT
1 ATCGCATTGCGATT
3129225 TTCCCAATTC
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 41 0.53
42 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:3129242 original size:41 final size:41
Alignment explanation
Indices: 3129212--3129304 Score: 150
Period size: 41 Copynumber: 2.3 Consensus size: 41
3129202 ATAGTCAGTA
* *
3129212 TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTCACGTAT
* *
3129253 TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTCACGTAT
3129294 TCGCATTGCGA
1 TCGCATTGCGA
3129305 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGTGATTCACGTAT
Found at i:3129245 original size:21 final size:21
Alignment explanation
Indices: 3129212--3129304 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 21
3129202 ATAGTCAGTA
3129212 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
3129233 TCGCGTTGTGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3129253 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * * **
3129274 TCGCGTTGTGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3129294 TCGCATTGCGA
1 TCGCATTGCGA
3129305 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 17, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
20 30 0.56
21 24 0.44
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:3134371 original size:15 final size:15
Alignment explanation
Indices: 3134351--3134387 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
3134341 TACCTATATG
3134351 GGAGGACATTTATAA
1 GGAGGACATTTATAA
3134366 GGAGGACATTTATAA
1 GGAGGACATTTATAA
3134381 GGAGGAC
1 GGAGGAC
3134388 CCAATGTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.22
Consensus pattern (15 bp):
GGAGGACATTTATAA
Found at i:3142325 original size:5 final size:5
Alignment explanation
Indices: 3142309--3142351 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
3142299 ACAAATTTTT
* *
3142309 ATAAA GATAAA ATAAA ATAAA ATAAA ACAAA ACAAA ATAAA AT
1 ATAAA -ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA AT
3142352 TGAAAATGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 30 0.86
6 5 0.14
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (5 bp):
ATAAA
Found at i:3142829 original size:29 final size:28
Alignment explanation
Indices: 3142702--3142900 Score: 82
Period size: 30 Copynumber: 6.7 Consensus size: 28
3142692 AAACTGAAAT
*
3142702 GACTAAAATAATAA-AAATAGAAAGTTAAAG
1 GACTAAAATAGTAATAAA-A-AAA-TTAAAG
* * * *
3142732 GATTCAAATAGAAAAAACAAAAAGTTAAAG
1 GACTAAAATAGTAATAA-AAAAA-TTAAAG
* * *
3142762 GGCTAAACCATA--AATAGAGAAAGTTAAAG
1 GACTAAA--ATAGTAATA-AAAAAATTAAAG
* *
3142791 GACCATAATAGTGAATAAAAAAATTAAAG
1 GACTAAAATAGT-AATAAAAAAATTAAAG
* * *
3142820 GACTAAAATAATAA-AAACAGACATTTAAGG
1 GACTAAAATAGTAATAAA-A-A-AATTAAAG
* * *
3142850 GATTAAAATAGCAATAACAAAAACTTAAGG
1 GACTAAAATAGTAATAA-AAAAA-TTAAAG
*
3142880 GGCTAAAATAGTAAATAAAAA
1 GACTAAAATAGT-AATAAAAA
3142901 TAATCAAGAG
Statistics
Matches: 127, Mismatches: 27, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
27 6 0.05
28 3 0.02
29 31 0.24
30 70 0.55
31 12 0.09
32 5 0.04
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.19
Consensus pattern (28 bp):
GACTAAAATAGTAATAAAAAAATTAAAG
Found at i:3142834 original size:59 final size:60
Alignment explanation
Indices: 3142684--3142894 Score: 160
Period size: 59 Copynumber: 3.5 Consensus size: 60
3142674 CTAAAACAAC
* * * * * *
3142684 AAAAACAGAAACTGAAATGACTAAAATAATAAAAATAGAAAGTTAAAGGATTCAAATAGA
1 AAAAACAAAAAGTTAAAGGACTAAAATAATAAAAAGAGAAAGTTAAAGGATCCAAATAGA
* ** * *
3142744 AAAAACAAAAAGTTAAAGGGCT-AAACCATAAATAGAGAAAGTTAAAGGA-CCATAATAGTG
1 AAAAACAAAAAGTTAAAGGACTAAAATAATAAAAAGAGAAAGTTAAAGGATCCA-AATAG-A
* * * * * ** *
3142804 AATAA-AAAAA-TTAAAGGACTAAAATAATAAAAACAGACATTTAAGGGATTAAAATAGC
1 AAAAACAAAAAGTTAAAGGACTAAAATAATAAAAAGAGAAAGTTAAAGGATCCAAATAGA
* * * * *
3142862 AATAACAAAAACTTAAGGGGCTAAAATAGTAAA
1 AAAAACAAAAAGTTAAAGGACTAAAATAATAAA
3142895 TAAAAATAAT
Statistics
Matches: 119, Mismatches: 26, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
58 16 0.13
59 63 0.53
60 40 0.34
ACGTcount: A:0.59, C:0.08, G:0.15, T:0.18
Consensus pattern (60 bp):
AAAAACAAAAAGTTAAAGGACTAAAATAATAAAAAGAGAAAGTTAAAGGATCCAAATAGA
Found at i:3144482 original size:3 final size:3
Alignment explanation
Indices: 3144476--3144529 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
3144466 TAATATGTAT
* * * *
3144476 TAA TAA TAA TAA TTAA TAA TAA TAA TAA TAA TAG TAG TAG TAG TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3144522 TAA TAA TA
1 TAA TAA TA
3144530 GATTAATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3144490 original size:13 final size:13
Alignment explanation
Indices: 3144474--3144508 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3144464 TGTAATATGT
3144474 ATTAATAATAATA
1 ATTAATAATAATA
3144487 ATTAATAATAATA
1 ATTAATAATAATA
3144500 A-TAATAATA
1 ATTAATAATA
3144509 GTAGTAGTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTAATAATAATA
Found at i:3148574 original size:20 final size:21
Alignment explanation
Indices: 3148549--3148590 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
3148539 ATTGTATAAA
3148549 TGTATGTTGTT-TTTTTCATT
1 TGTATGTTGTTATTTTTCATT
*
3148569 TGTATGTTGTTATTTTTTATT
1 TGTATGTTGTTATTTTTCATT
3148590 T
1 T
3148591 TATTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.12, C:0.02, G:0.14, T:0.71
Consensus pattern (21 bp):
TGTATGTTGTTATTTTTCATT
Found at i:3148593 original size:5 final size:5
Alignment explanation
Indices: 3148583--3148622 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
3148573 TGTTGTTATT
3148583 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTTA TATTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA T-TTTA TTT
3148623 CCCTTATGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:3148603 original size:22 final size:22
Alignment explanation
Indices: 3148582--3148622 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
3148572 ATGTTGTTAT
3148582 TTTTTATTTTAT-TTTATTTTA
1 TTTTTATTTTATATTTATTTTA
3148603 TTTTTATTTTATATTTATTT
1 TTTTTATTTTATATTTATTT
3148623 CCCTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTTATTTTATATTTATTTTA
Found at i:3148607 original size:11 final size:11
Alignment explanation
Indices: 3148582--3148622 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
3148572 ATGTTGTTAT
3148582 TTTTTATTTTA
1 TTTTTATTTTA
3148593 -TTTTATTTTA
1 TTTTTATTTTA
3148603 TTTTTATTTTA
1 TTTTTATTTTA
*
3148614 TATTTATTT
1 TTTTTATTT
3148623 CCCTTATGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
10 10 0.36
11 18 0.64
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:3150010 original size:20 final size:19
Alignment explanation
Indices: 3149987--3150033 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3149977 CGATATATCA
3149987 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
* *
3150007 GGTATCAAAATGATAAAACT
1 GGTA-AAAAATGATAAAACC
3150027 GGTAAAA
1 GGTAAAA
3150034 CGTTACCAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3150074 original size:182 final size:183
Alignment explanation
Indices: 3149775--3150249 Score: 697
Period size: 182 Copynumber: 2.6 Consensus size: 183
3149765 GATCCAAATT
* * * * **
3149775 AAAAATATGTCGATCCAAAATGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATATATCGATCC-AAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * *
3149840 AAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGG-TACTTTAATATAAGGATCGACACTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGGATACTTTAATATAAGGATCGACACTT
* *
3149904 CATGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTT-TA
130 CATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
* *
3149957 AAAAATGTATCGATCCGAAACGATATATCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCC-AAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
3150022 AAACTGGTAAAACGTTACCAGATATATTGAAAGTGTCGGATACTTT-ATATAAGGATCGACACTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGGATACTTTAATATAAGGATCGACACTT
** ** *
3150086 TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAAA
130 CATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
3150140 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATATATCGATCCA-AACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
3150205 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTC-GATACTTT
65 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGGATACTTT
3150250 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 27, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
182 161 0.61
183 102 0.39
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (183 bp):
AAAAATATATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATAA
AACCGGTAAAACGATACCGGATATATTGAAAGTGTCGGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAAA
Found at i:3150193 original size:20 final size:19
Alignment explanation
Indices: 3150170--3150216 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
3150160 CGATATAACA
3150170 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
3150190 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
3150210 GGTAAAA
1 GGTAAAA
3150217 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:3150221 original size:17 final size:19
Alignment explanation
Indices: 3150181--3150221 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
3150171 GTAAAAATAT
*
3150181 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
3150201 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
3150218 GATA
1 GATA
3150222 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:3152468 original size:21 final size:21
Alignment explanation
Indices: 3152444--3152487 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3152434 AATACAATCA
3152444 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3152465 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3152486 AG
1 AG
3152488 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3154378 original size:19 final size:19
Alignment explanation
Indices: 3154354--3154402 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3154344 AATGTAGGGT
3154354 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3154373 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
3154392 TAATTTTGTAT
1 TAATTTTGTAT
3154403 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3154413 original size:18 final size:19
Alignment explanation
Indices: 3154354--3154414 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
3154344 AATGTAGGGT
* *
3154354 TAATTTTGTATAAGATTTA
1 TAATTTTGTATATGATATA
*
3154373 TAATTTTGTATATGATTTA
1 TAATTTTGTATATGATATA
*
3154392 TAATTTTGTATGTGA-ATA
1 TAATTTTGTATATGATATA
3154410 TAATT
1 TAATT
3154415 ATGAATGAGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
18 7 0.18
19 32 0.82
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATATGATATA
Found at i:3154975 original size:200 final size:200
Alignment explanation
Indices: 3154632--3155995 Score: 2397
Period size: 200 Copynumber: 6.8 Consensus size: 200
3154622 AATTTACAAT
* *
3154632 ATGGCAAACAGGGTGCAACCATAAAGTGTCAATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
3154697 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATATCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
3154762 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3154827 AATGA
196 AATGA
* *
3154832 ATGGCAAACAGGGTGAAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
3154897 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
3154962 ATGAGAGAATAGGTCTAAACAATGTATCAACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3155027 AATGA
196 AATGA
3155032 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
3155097 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
3155162 ATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3155227 AATGA
196 AATGA
* *
3155232 ATGGCAAACAGGGTGCAACAATAAAGTTTCGATCTATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
3155297 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
3155362 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3155427 AATGA
196 AATGA
* * *
3155432 ATGGCAAACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
3155497 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
3155562 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3155627 AATGA
196 AATGA
*
3155632 ATGACAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
3155697 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
3155762 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCTATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
3155827 AATGA
196 AATGA
* **
3155832 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAATTAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * * * * *
3155897 CTAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAGCCGGTATAAGTATACCGATTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
3155962 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTGTCGACACT
3155996 GTTTAATGTT
Statistics
Matches: 1115, Mismatches: 48, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
200 1112 1.00
201 3 0.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:3157465 original size:6 final size:6
Alignment explanation
Indices: 3157454--3157529 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
3157444 CAAGCGGTCA
* * * * *
3157454 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ACGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * *
3157502 ATGATG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGA
3157530 TCCAAACAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (6 bp):
ATGAAG
Found at i:3157476 original size:12 final size:12
Alignment explanation
Indices: 3157454--3157529 Score: 89
Period size: 12 Copynumber: 6.3 Consensus size: 12
3157444 CAAGCGGTCA
*
3157454 ATGAAGATGAAG
1 ATGACGATGAAG
*
3157466 CTGACGATGAAG
1 ATGACGATGAAG
3157478 ATGACGATGAAG
1 ATGACGATGAAG
*
3157490 ATGACGACGAAG
1 ATGACGATGAAG
* *
3157502 ATGATGATGATG
1 ATGACGATGAAG
* *
3157514 ATGATGATGATG
1 ATGACGATGAAG
3157526 ATGA
1 ATGA
3157530 TCCAAACAAG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 57 1.00
ACGTcount: A:0.39, C:0.07, G:0.33, T:0.21
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:3157507 original size:3 final size:3
Alignment explanation
Indices: 3157471--3157530 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
3157461 TGAAGCTGAC
* * * * * *
3157471 GAT GAA GAT GAC GAT GAA GAT GAC GAC GAA GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3157519 GAT GAT GAT GAT
1 GAT GAT GAT GAT
3157531 CCAAACAAGT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:3159089 original size:183 final size:183
Alignment explanation
Indices: 3158740--3159328 Score: 1022
Period size: 183 Copynumber: 3.2 Consensus size: 183
3158730 CAAAGTTTTC
*
3158740 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
3158805 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
*
3158868 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
3158924 ACACTTTTGT-ATATTGTGTCGGTACTTTATGTCCGGAATGGAAGAAAAATGTGTCGATACCTTG
1 ACACTTTT-TAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTG
3158988 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
65 TCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
3159053 TAACCGGTGTAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
130 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* * *
3159107 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATAACTAGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
3159172 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
3159237 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
3159290 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
3159329 TATAATGTAC
Statistics
Matches: 388, Mismatches: 13, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
182 1 0.00
183 310 0.80
184 73 0.19
185 1 0.00
186 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:3159412 original size:118 final size:120
Alignment explanation
Indices: 3159202--3159442 Score: 416
Period size: 118 Copynumber: 2.0 Consensus size: 120
3159192 ACATCGGAAC
3159202 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
3159267 GAATAGGTCTACAACCTATATCGACACTTTTTAATT-TTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTT-ATTATTGTGTCGGTACTTTATGT
* * *
3159322 CCAGAATTATAATGTACTAGATAA-TTTGTAATATAACCGGTATAAGTATACCGG-TTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
3159385 GAATAGGTCTACAACCTATGTCGACACTTTTTATTATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTATTATTGTGTCGGTACTTTATGT
3159440 CCA
1 CCA
3159443 TAATGGAAGA
Statistics
Matches: 116, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
117 3 0.03
118 61 0.53
119 29 0.25
120 23 0.20
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTATTATTGTGTCGGTACTTTATGT
Found at i:3159623 original size:301 final size:303
Alignment explanation
Indices: 3159019--3159667 Score: 1176
Period size: 301 Copynumber: 2.1 Consensus size: 303
3159009 ACATCGGAAC
* *
3159019 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTGTAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
3159084 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGA
*
3159149 AGAAAAATGTGTCGATAACTAGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATAACTAGTCAAAAAGTGTCGACATTTACACATCGGAACACAGAATTATAA
3159214 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
3159279 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
* *
3159322 CCAGAATTATAATGTACTAGATAA-TTTGTAATATAACCGGTATAAGTATACCGG-TTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
* * * *
3159385 GAATAGGTCTACAACCTATGTCGACACTTTTTATTATTGTGTCGGTACTTTATGTCCATAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGA
* * *
3159450 AGAAAAATGTGTTGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACACAGAATTATAA
131 AGAAAAATGTGTCGATAACTAGTCAAAAAGTGTCGACATTTACACATCGGAACACAGAATTATAA
3159515 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
3159580 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
3159623 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATA
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATA
3159668 TGGACATAAA
Statistics
Matches: 333, Mismatches: 12, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
301 262 0.79
302 48 0.14
303 23 0.07
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGA
AGAAAAATGTGTCGATAACTAGTCAAAAAGTGTCGACATTTACACATCGGAACACAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:3162947 original size:23 final size:23
Alignment explanation
Indices: 3162916--3162988 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
3162906 ATAGGTAAAA
* *
3162916 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGTTT
*
3162939 ATATAATGTAATATGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
3162962 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
3162985 ATAT
1 ATAT
3162989 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:3163428 original size:23 final size:23
Alignment explanation
Indices: 3163397--3163469 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
3163387 ATATGTAAAA
*
3163397 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
3163420 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
3163443 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
3163466 ATAT
1 ATAT
3163470 TGTAAAGTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3163922 original size:23 final size:22
Alignment explanation
Indices: 3163873--3163943 Score: 90
Period size: 23 Copynumber: 3.2 Consensus size: 22
3163863 ATAGGTAAAA
* *
3163873 ATATGATGTAAGAGGTAGC-TT
1 ATATAATGTAATAGGTAGCGTT
3163894 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCG-TT
*
3163917 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCG-TT
3163940 ATAT
1 ATAT
3163944 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.39
23 27 0.61
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:3164368 original size:472 final size:487
Alignment explanation
Indices: 3162591--3164776 Score: 3362
Period size: 474 Copynumber: 4.6 Consensus size: 487
3162581 AAAAAGGTAT
3162591 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
1 ATATTAATTTAGTAATTATAGGCG-CTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
3162656 AAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATT
65 AAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATT
* * * *
3162721 TAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATTATTTTTTGTGTAAATGAAATT
130 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATT
*
3162786 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAATTACAT
195 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACAT
3162851 AACTTTTAAAAAAA-TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
260 AAC-TTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
*
3162915 AATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTAGCGTTTATATAATGTAATAGGTAG
324 AATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAG
*
3162980 TGTTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAAC
389 TGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACTGTAGAAAAC
*
3163045 ATTAATTTAAGGTTATCTTTTAAGTGAGTTTTAAG
453 ATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
* *
3163080 ATATTAATTTAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGG--TATATTATTATT
1 ATATTAATTTAGTAATTATAGGCG-CTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
3163143 AAATTAAACAA-AA-AAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAT
65 AAATTAAA-AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAAT
3163206 TTAAATTCTAAATATTA-TTTAT-AAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAT
129 TTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAAT
* *
3163269 TATTAAATTAATATTGTAGGTGGAAAATATGAAACAC-ATTAAAAAAAATTGAAA-A-CAATTA-
194 TATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTAC
*
3163330 ATAACTTTAAAAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAATATGTA
258 ATAACTTT-AAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTA
3163394 AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGT
322 AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGT
*
3163459 AGTGCTTATATTGTAAAG--TCTAT--TTTTTAT-AAAGTGTCCAT--TTTTTCACTGTGGAAAA
387 AGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTAGAAAA
3163517 CATTAATTTAAGGTTATCTTTTGAGTGAG-TTTAAG
452 CATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
*
3163552 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATT
1 ATATTAATTTAGTAATTATAGGCG-CTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
*
3163617 AAATT-AAAACAATAAACATATATATTACATATTTATTATTATATTTGGTTAATATTGTTAAATT
65 AAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATT
3163681 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA--TTTTGTGCAAATGAAATT
130 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATT
3163744 ATTAAATTAATATTGTAGGTGGAAAACATGAAA-ACTATTAAAAAAAATTGAAACATAAATTACA
195 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACA
3163808 TAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
259 TAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAA
*
3163872 AATATGATGTAAGAGGTA--GCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAG
324 AATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAG
3163935 TGCTTATATTGTAAAGTATCTATCC-TTTTATAAAAGTGTCCATAC-TTTTCACTGTAGAAAACA
389 TGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTAGAAAACA
3163998 TTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAG
454 TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
3164031 ATATTAATTTAGTAATTATAGG-G-TAATGA-TTATTTTTTACGTTACGGTATATATTATTATTA
1 ATATTAATTTAGTAATTATAGGCGCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTA
3164093 AATTAAAAACAATAAACATATATATTACATATTTATTA-TATCTTTGGTTAATATTGTTAAATTT
66 AATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTT
*
3164157 AAATTCTAAATA-TA-TTT-TAAAA-ATCAAAACAATCAAATAATTTTTTG-GTAAATGAAATTA
131 AAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTA
*
3164217 TTAAATTAATATTATAGGTGGAAAA-ATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
196 TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
3164281 ACTTTAAAAAAAGTATCGATCCTTTTTAT--AAA--A-GG--A---TCAATACT--T---T-AAA
261 ACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA-TAATAGGTAAAA
* * * * * *
3164330 ATATCAGGTAA-A---A------ATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGC
325 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGT
* *
3164385 GCTTATATTGTAAAGTATCTATCCTTTTTATAGAA--GTCCATACTTATTTCACTGTGGAAAACA
390 GCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTT-TTTCACTGTAGAAAACA
3164448 TTAA-TTAAGGTTATCTTTTGAGTGAGTTTTAAG
454 TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
* *** * * *
3164481 ATATCAATTTAGTAATTATATGTATCTAATGATTTA--TTTTATGTTAC-G-CTATATTATCATT
1 ATATTAATTTAGTAATTATA-GGCGCTAATGATTTATTTTTTACGTTACGGTATATATTATTATT
* *
3164542 AAATTAAAAATAAT-AAC--ATATATTAC-TATTTATTATTA--TTTGATTAATATTGTTAAATT
65 AAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATT
*
3164601 TAAATTCTAAATATTATTTTATAAAATATCAAAAAAATCAAATAATTTTTTGTGCAAATGAAATT
130 TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATT
*
3164666 ATTAAATTAATATTGTAGCTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACAT
195 ATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACAT
3164730 AACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
260 AACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTT
3164777 CAACATATAA
Statistics
Matches: 1596, Mismatches: 47, Indels: 137
0.90 0.03 0.08
Matches are distributed among these distances:
445 33 0.02
446 11 0.01
447 14 0.01
448 13 0.01
449 101 0.06
450 178 0.11
451 15 0.01
452 13 0.01
453 7 0.00
454 4 0.00
455 2 0.00
456 1 0.00
457 13 0.01
458 1 0.00
461 1 0.00
462 6 0.00
463 1 0.00
465 1 0.00
467 2 0.00
468 1 0.00
470 3 0.00
471 55 0.03
472 126 0.08
473 58 0.04
474 213 0.13
475 95 0.06
476 138 0.09
477 21 0.01
478 22 0.01
479 66 0.04
480 3 0.00
481 130 0.08
482 14 0.01
483 3 0.00
484 88 0.06
485 5 0.00
486 65 0.04
487 22 0.01
488 2 0.00
489 49 0.03
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.40
Consensus pattern (487 bp):
ATATTAATTTAGTAATTATAGGCGCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTA
AATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTT
AAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTA
TTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATA
ACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAA
TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG
CTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTAGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
Found at i:3164679 original size:450 final size:447
Alignment explanation
Indices: 3162939--3164763 Score: 2066
Period size: 450 Copynumber: 3.9 Consensus size: 447
3162929 GGTAGCGCTT
* * * * *
3162939 ATATAATGTAATATGTAGCGTTTATATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATATTGTAAAGTATCTATC
*
3163004 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTTAAG
66 C-TTTTATAAAAG-GTCCATAC--TTTTCACTGTAGAAAACATTAATTTAAGGTTATC-TTTGAG
* * *
3163069 TGAGTTTTAAGATATTAATTTAATAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGG--T
126 TGAGTTTTAAGATATCAATTTAGTAATTATA-G-G-CTAATGA-TTATATTTTACGTTACGGTAT
* * *
3163132 ATATTATTATTAAATTAAACAA-AA-AAACATATATATTACATATTTATTATTATCTTTGGTTAA
187 ATATTATCATTAAATTAAA-AACAATAAACA-ATATATTACATATTTATTA-TATATTTGATTAA
* *
3163195 TATTGTTAAATTTAAATTCTAAATATTATTTATAAATATCAAAACAATCAAATAATTTTTTGTGC
249 TATTGTTAAATTTAAATTCTAAATA-TATTT-TAAAAATCAAAAAAATCAAATAATTTTTTG-GC
* * *
3163260 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACAC-ATTAAAAAAAATTGAAA-
311 AAATGAAATTATTAAATTAATATTATAGCTGGAAAACATGAAACACTATT--AAAAAATTGAAAC
* * ** * *
3163323 A-CAATTA-ATAACTTTAAAAAAAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATA
374 ATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTAT-AAAAGGATCAATACTTT-AAAA
*
3163385 TAAT-ATGTAAAA
436 T-ATCAGGTAAAA
* * *
3163397 ATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGT
1 ATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATAT--TGTAA-A-GTA-T
* * * *
3163462 GCTTATATTGTAAAGTCTATTTTTTATAAAGTGTCCAT-TTTTTCACTGTGGAAAACATTAATTT
61 -C--------T--A-TC-CTTTTATA-AAAG-GTCCATACTTTTCACTGTAGAAAACATTAATTT
* *
3163526 AAGGTTATCTTTTGAGTGAG-TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
111 AAGGTTATC-TTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATA-G-G-CTAATGA-TTATA
* *
3163590 TTTTACGTTACGATATATATTATTATTAAATT-AAAACAATAAACATATATATTACATATTTATT
171 TTTTACGTTACGGTATATATTATCATTAAATTAAAAACAATAAACA-ATATATTACATATTTATT
* *
3163654 ATTATATTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
235 A-TATATTTGATTAATATTGTTAAATTTAAATTCTAAATA-TA-TTT-TAAAA-ATCAAAAAAAT
* * *
3163719 CAAATAATTTTGT-GCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA-ACTAT
295 CAAATAATTTTTTGGCAAATGAAATTATTAAATTAATATTATAGCTGGAAAACATGAAACACTAT
3163782 TAAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTA
360 T--AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT--AAA--A
* *
3163846 TGGACACTTTCAATA-TAATAGGTAAAAATATGATGTAAGAGGTA
419 -GG--A---TCAATACT--T---T-AAAATATCAGGTAA-A---A
* * *
3163890 GCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATC
1 ----ATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATATTGTAAAGTATC
3163955 TATCCTTTTATAAAAGTGTCCATACTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTGAG
62 TATCCTTTTATAAAAG-GTCCATACTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTGAG
* * *
3164020 TGAGTTTTAAGATATTAATTTAGTAATTATAGGGTAATGATTATTTTTTACGTTACGGTATATAT
126 TGAGTTTTAAGATATCAATTTAGTAATTATAGGCTAATGATTATATTTTACGTTACGGTATATAT
* * *
3164085 TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATATCTTTGGTTAATATTGT
191 TATCATTAAATTAAAAACAATAAACA-ATATATTACATATTTATTATATATTTGATTAATATTGT
* *
3164150 TAAATTTAAATTCTAAATATATTTTAAAAATCAAAACAATCAAATAATTTTTTGGTAAATGAAAT
255 TAAATTTAAATTCTAAATATATTTTAAAAATCAAAAAAATCAAATAATTTTTTGGCAAATGAAAT
*
3164215 TATTAAATTAATATTATAGGTGGAAAA-ATGAAACACTATTAAAAAAATTGAAACATAAATTACA
320 TATTAAATTAATATTATAGCTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACA
3164279 TAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAGGATCAATACTTTAAAATATCAGGTAAAA
384 TAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAGGATCAATACTTTAAAATATCAGGTAAAA
*
3164343 ATATGATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATATTGTAAAGTATCTATC
1 ATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATATTGTAAAGTATCTATC
* *
3164408 CTTTTTATAGAA-GTCCATACTTATTTCACTGTGGAAAACATTAA-TTAAGGTTATCTTTTGAGT
66 C-TTTTATAAAAGGTCCATAC-T-TTTCACTGTAGAAAACATTAATTTAAGGTTATC-TTTGAGT
* * *
3164471 GAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGATT-TATTTTATGTTAC-G-CTAT
127 GAGTTTTAAGATATCAATTTAGTAATTATA-G--GCTAATGATTATATTTTACGTTACGGTATAT
*
3164533 ATTATCATTAAATTAAAAATAAT-AAC-ATATATTAC-TATTTATTAT-TATTTGATTAATATTG
189 ATTATCATTAAATTAAAAACAATAAACAATATATTACATATTTATTATATATTTGATTAATATTG
3164594 TTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAAAAATCAAATAATTTTTTGTGCAAA
254 TTAAATTTAAATTCTAAATA-TA-TTT-TAAAA-ATCAAAAAAATCAAATAATTTTTTG-GCAAA
*
3164659 TGAAATTATTAAATTAATATTGTAGCTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAA
314 TGAAATTATTAAATTAATATTATAGCTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAA
3164724 TTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAA
379 TTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAA
3164764 AGTATGGACA
Statistics
Matches: 1235, Mismatches: 59, Indels: 154
0.85 0.04 0.11
Matches are distributed among these distances:
445 34 0.03
446 12 0.01
447 12 0.01
448 13 0.01
449 101 0.08
450 182 0.15
451 15 0.01
452 11 0.01
453 9 0.01
456 1 0.00
457 12 0.01
458 47 0.04
460 5 0.00
461 2 0.00
462 9 0.01
463 2 0.00
464 1 0.00
465 1 0.00
467 2 0.00
468 1 0.00
470 3 0.00
471 60 0.05
472 127 0.10
473 52 0.04
474 147 0.12
475 106 0.09
476 84 0.07
477 13 0.01
478 22 0.02
479 66 0.05
480 3 0.00
481 1 0.00
482 1 0.00
483 1 0.00
484 1 0.00
485 3 0.00
486 1 0.00
488 2 0.00
489 11 0.01
490 1 0.00
491 1 0.00
492 1 0.00
493 4 0.00
494 1 0.00
495 5 0.00
497 46 0.04
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.40
Consensus pattern (447 bp):
ATATAATGTAATAGGTAGCGCTTATATAATATAATAGGTAGCGCTTATATTGTAAAGTATCTATC
CTTTTATAAAAGGTCCATACTTTTCACTGTAGAAAACATTAATTTAAGGTTATCTTTGAGTGAGT
TTTAAGATATCAATTTAGTAATTATAGGCTAATGATTATATTTTACGTTACGGTATATATTATCA
TTAAATTAAAAACAATAAACAATATATTACATATTTATTATATATTTGATTAATATTGTTAAATT
TAAATTCTAAATATATTTTAAAAATCAAAAAAATCAAATAATTTTTTGGCAAATGAAATTATTAA
ATTAATATTATAGCTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTT
AAAAAAAGTATCGATCCTTTTTATAAAAGGATCAATACTTTAAAATATCAGGTAAAA
Done.