Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_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: 3674400
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 15
Found at i:2980981 original size:16 final size:18
Alignment explanation
Indices: 2980962--2980996 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2980952 TGTATGTATA
2980962 TTTTATTC-ATTT-ATTT
1 TTTTATTCAATTTAATTT
2980978 TTTTATTCAATTTAATTT
1 TTTTATTCAATTTAATTT
2980996 T
1 T
2980997 CTTTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 4 0.24
18 5 0.29
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTCAATTTAATTT
Found at i:2980996 original size:17 final size:16
Alignment explanation
Indices: 2980962--2980996 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
2980952 TGTATGTATA
*
2980962 TTTTATTCATTTATTT
1 TTTTATTCATTTAATT
2980978 TTTTATTCAATTTAATT
1 TTTTATTC-ATTTAATT
2980995 TT
1 TT
2980997 CTTTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTCATTTAATT
Found at i:2981961 original size:199 final size:199
Alignment explanation
Indices: 2981615--2982009 Score: 758
Period size: 199 Copynumber: 2.0 Consensus size: 199
2981605 GATTTCAGCC
2981615 CTTAAAGATTTTTCATCCAAAGGCTCTATACCCGAGCTCTAACCCGTTTTAAGTGGGGGGTGAAA
1 CTTAAAGATTTTTCATCCAAAGGCTCTATACCCGAGCTCTAACCCGTTTTAAGTGGGGGGTGAAA
2981680 GCGACGCCTTCGTGTGAATTTATTCACGTATGAGCCTAGCAAGTAACCTTCGGGATTCATATACC
66 GCGACGCCTTCGTGTGAATTTATTCACGTATGAGCCTAGCAAGTAACCTTCGGGATTCATATACC
2981745 TTATGCCTTCGTGTGAATTTATTCT-CGTATGGGCATAAGGGAATGTTTCCTCTCGAGTTTAACT
131 TTATGCCTTCGTGTGAATTTATTCTCCGTATGGGCATAAGGGAATGTTTCCTCTCGAGTTTAACT
2981809 TCGT
196 TCGT
2981813 CTTAAAGATTTTTCATCCAAAGGCTCTATACCCGAGCTCTGAACCCGTTTTAAGT-GGGGGTGAA
1 CTTAAAGATTTTTCATCCAAAGGCTCTATACCCGAGCTCT-AACCCGTTTTAAGTGGGGGGTGAA
2981877 AGCGACGCCTTCGTGTGAATTTATTCATCGTATGAGCCTAGCAAGTAACCTTCGGGATTCATATA
65 AGCGACGCCTTCGTGTGAATTTATTCA-CGTATGAGCCTAGCAAGTAACCTTCGGGATTCATATA
2981942 CCTTATGCCTTCGTGTGAATTTATTCTCCGTATGGGCATAAGGGAATGTTTCCTCTCGAGTTTAA
129 CCTTATGCCTTCGTGTGAATTTATTCTCCGTATGGGCATAAGGGAATGTTTCCTCTCGAGTTTAA
2982007 CTT
194 CTT
2982010 AGTCCACACA
Statistics
Matches: 194, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
198 76 0.39
199 78 0.40
200 40 0.21
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (199 bp):
CTTAAAGATTTTTCATCCAAAGGCTCTATACCCGAGCTCTAACCCGTTTTAAGTGGGGGGTGAAA
GCGACGCCTTCGTGTGAATTTATTCACGTATGAGCCTAGCAAGTAACCTTCGGGATTCATATACC
TTATGCCTTCGTGTGAATTTATTCTCCGTATGGGCATAAGGGAATGTTTCCTCTCGAGTTTAACT
TCGT
Found at i:2982386 original size:20 final size:20
Alignment explanation
Indices: 2982361--2982398 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2982351 ACCTTACTAA
2982361 CTCTTTTCATTTT-TTTTCCT
1 CTCTTTT-ATTTTATTTTCCT
2982381 CTCTTTTATTTTATTTTC
1 CTCTTTTATTTTATTTTC
2982399 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (20 bp):
CTCTTTTATTTTATTTTCCT
Found at i:2985565 original size:16 final size:14
Alignment explanation
Indices: 2985541--2985608 Score: 77
Period size: 16 Copynumber: 4.8 Consensus size: 14
2985531 CAAAAAGGGC
2985541 AAAAACAAAAAAGA
1 AAAAACAAAAAAGA
2985555 AAAGAAGCAAAAAAGA
1 AAA-AA-CAAAAAAGA
2985571 AGAAAACAAAAAA-A
1 A-AAAACAAAAAAGA
*
2985585 AAGAAC-AAAAAGA
1 AAAAACAAAAAAGA
*
2985598 AAAAAGAAAAA
1 AAAAACAAAAA
2985609 GGGACAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
12 5 0.11
13 9 0.20
14 9 0.20
15 9 0.20
16 12 0.26
17 2 0.04
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAACAAAAAAGA
Found at i:2985566 original size:15 final size:13
Alignment explanation
Indices: 2985541--2985609 Score: 68
Period size: 13 Copynumber: 4.9 Consensus size: 13
2985531 CAAAAAGGGC
2985541 AAAAACAAAAAAGA
1 AAAAAC-AAAAAGA
2985555 AAAGAAGCAAAAAAGA
1 AAA-AA-C-AAAAAGA
2985571 AGAAAACAAAAA-A
1 A-AAAACAAAAAGA
2985584 AAAGAACAAAAAGA
1 AAA-AACAAAAAGA
*
2985598 AAAAAGAAAAAG
1 AAAAACAAAAAG
2985610 GGACAAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
12 2 0.04
13 18 0.37
14 12 0.24
15 3 0.06
16 12 0.24
17 2 0.04
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAGA
Found at i:2985575 original size:19 final size:17
Alignment explanation
Indices: 2985547--2985605 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
2985537 GGGCAAAAAC
2985547 AAAA-AAGAAAAGAAGCAA
1 AAAAGAAGAAAA-AAG-AA
*
2985565 AAAAGAAGAAAACAAAAA
1 AAAAGAAGAAAA-AAGAA
*
2985583 AAAAGAA-CAAAAAGAA
1 AAAAGAAGAAAAAAGAA
2985599 AAAAGAA
1 AAAAGAA
2985606 AAAGGGACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.31
17 3 0.08
18 13 0.36
19 9 0.25
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAGAAGAAAAAAGAA
Found at i:2985615 original size:23 final size:24
Alignment explanation
Indices: 2985570--2985618 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
2985560 AGCAAAAAAG
2985570 AAGAAAACAAAAAAAAAGAACAAA
1 AAGAAAACAAAAAAAAAGAACAAA
* * *
2985594 AAGAAAA-AAGAAAAAGGGACAAA
1 AAGAAAACAAAAAAAAAGAACAAA
2985617 AA
1 AA
2985619 AGCACATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.80, C:0.06, G:0.14, T:0.00
Consensus pattern (24 bp):
AAGAAAACAAAAAAAAAGAACAAA
Found at i:2986644 original size:21 final size:21
Alignment explanation
Indices: 2986618--2986659 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2986608 CCAGAATGGG
*
2986618 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2986639 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
2986660 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:2986907 original size:30 final size:30
Alignment explanation
Indices: 2986860--2986950 Score: 148
Period size: 31 Copynumber: 3.0 Consensus size: 30
2986850 AAATTTTGAA
2986860 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACATTTTG
2986889 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAA-CATTTTG
*
2986920 TAAATTCAATTCAAGTCCAAAACCCATTTTG
1 TAAATTCAATTCAAGTCCAAAA-ACATTTTG
2986951 CCTTAAATTG
Statistics
Matches: 58, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 36 0.62
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTCAAGTCCAAAAACATTTTG
Found at i:2988474 original size:20 final size:21
Alignment explanation
Indices: 2988451--2988489 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2988441 TTCCCCTTGA
*
2988451 AGGGGAA-CGATTCCCCCCAC
1 AGGGGAATCGATACCCCCCAC
2988471 AGGGGAATCGATACCCCCC
1 AGGGGAATCGATACCCCCC
2988490 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.26, C:0.38, G:0.26, T:0.10
Consensus pattern (21 bp):
AGGGGAATCGATACCCCCCAC
Found at i:2992026 original size:22 final size:22
Alignment explanation
Indices: 2991998--2992052 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
2991988 GCTACCCCAT
2991998 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2992020 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
2992042 CAAACCTTTGA
1 CAAACCTTTGA
2992053 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:2993145 original size:106 final size:106
Alignment explanation
Indices: 2993017--2994713 Score: 2637
Period size: 106 Copynumber: 16.0 Consensus size: 106
2993007 ATATCGTGCC
* * * ** *
2993017 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAACAAACAACTTACC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2993082 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * **
2993123 ACTACAGACAACACAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTATC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2993188 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2993229 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2993294 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
2993335 ACTCAAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2993400 AATTTCAGAGCTAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2993441 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2993506 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2993547 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2993612 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
** * * *
2993653 ACTAGAGACAACACAAGTTCAACTACACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
2993718 AATTTCGGAGCCAATTTCAACTCCACAGCAAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2993759 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2993824 AATTTCGGAGCCGATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2993865 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2993930 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
2993971 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTTTCAACAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2994036 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
2994077 ACTCGAGACAACTCAAGTTCAACTTCAAGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2994142 AATTTCGGAGCCAATTTCAACTTCACAGCAAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2994183 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2994248 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2994289 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2994354 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
2994395 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGA-CGCTGGTTGTCAAC--ACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2994457 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
2994498 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
2994563 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
2994604 ACTCGATACAACACAAGTTCAACTTCGCAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2994669 GATTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
2994710 ACTC
1 ACTC
2994714 GGAACAATGC
Statistics
Matches: 1472, Mismatches: 115, Indels: 8
0.92 0.07 0.01
Matches are distributed among these distances:
103 85 0.06
104 13 0.01
105 14 0.01
106 1360 0.92
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:2996075 original size:25 final size:25
Alignment explanation
Indices: 2996028--2996080 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
2996018 CTTTTCGTTA
* *
2996028 TATTATATATTTCCTATTATATTAT
1 TATTATATATATCATATTATATTAT
*
2996053 TATTATATATAT-ATATTATTATTTT
1 TATTATATATATCATATTA-TATTAT
2996078 TAT
1 TAT
2996081 GTATTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTATATATATCATATTATATTAT
Found at i:2996085 original size:16 final size:16
Alignment explanation
Indices: 2996025--2996074 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
2996015 TTTCTTTTCG
2996025 TTATAT-TATATATT-
1 TTATATATATATATTA
2996039 TCCTAT-TATAT-TATTA
1 T--TATATATATATATTA
2996055 TTATATATATATATTA
1 TTATATATATATATTA
2996071 TTAT
1 TTAT
2996075 TTTTATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
14 4 0.13
15 10 0.33
16 16 0.53
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (16 bp):
TTATATATATATATTA
Found at i:2996280 original size:16 final size:15
Alignment explanation
Indices: 2996264--2996321 Score: 61
Period size: 15 Copynumber: 4.0 Consensus size: 15
2996254 CATTTTATAT
2996264 TTTATATATTTTTTA
1 TTTATATATTTTTTA
2996279 TTTAT-TA--TTTTA
1 TTTATATATTTTTTA
*
2996291 TTTATATATTATTTA
1 TTTATATATTTTTTA
2996306 TTT-TCATATGTTTTTA
1 TTTAT-ATAT-TTTTTA
2996322 GTTTCTTTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.28
13 2 0.06
14 3 0.08
15 16 0.44
16 5 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATATATTTTTTA
Found at i:2996281 original size:23 final size:26
Alignment explanation
Indices: 2996193--2996314 Score: 69
Period size: 28 Copynumber: 4.5 Consensus size: 26
2996183 TATATATGTA
2996193 TATTTATTTT-TCA-TTTATT-TATTAT
1 TATTTATTTTAT-ATTTTATTATA-TAT
2996218 TAGTGTTATATTTAGTATTTTATTATATTAT
1 TA-T-TTAT-TTTA-TATTTTATTATA-TAT
* **
2996249 ACATACATTTTATATTTTA-TATAT-T
1 -TATTTATTTTATATTTTATTATATAT
2996274 T-TTTA-TTTATTATTTTATTTATATAT
1 TATTTATTTTA-TATTTTA-TTATATAT
2996300 TATTTATTTTCATAT
1 TATTTATTTT-ATAT
2996315 GTTTTTAGTT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
22 4 0.05
23 9 0.12
25 8 0.11
26 4 0.05
27 12 0.16
28 16 0.21
29 6 0.08
30 9 0.12
31 7 0.09
32 1 0.01
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (26 bp):
TATTTATTTTATATTTTATTATATAT
Found at i:2996302 original size:11 final size:11
Alignment explanation
Indices: 2996257--2996306 Score: 64
Period size: 11 Copynumber: 4.5 Consensus size: 11
2996247 ATACATACAT
2996257 TTTATATTTTA
1 TTTATATTTTA
* *
2996268 TATATTTTTTA
1 TTTATATTTTA
2996279 TTTATTATTTTA
1 TTTA-TATTTTA
*
2996291 TTTATATATTA
1 TTTATATTTTA
2996302 TTTAT
1 TTTAT
2996307 TTTCATATGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
11 23 0.70
12 10 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATATTTTA
Found at i:2996314 original size:15 final size:16
Alignment explanation
Indices: 2996206--2996308 Score: 56
Period size: 16 Copynumber: 6.4 Consensus size: 16
2996196 TTATTTTTCA
2996206 TTTATTTAT-TATTAGT
1 TTTATTTATATATTA-T
*
2996222 GTTATATTTAGTATTTTAT
1 -TT-TATTTA-TATATTAT
* * *
2996241 TATA-TTATACATACAT
1 TTTATTTATATAT-TAT
*
2996257 TTTATATTTTATA-TA-
1 TTTAT-TTATATATTAT
*
2996272 TTT-TTTATTTATTAT
1 TTTATTTATATATTAT
2996287 TTTATTTATATATTA-
1 TTTATTTATATATTAT
2996302 TTTATTT
1 TTTATTT
2996309 TCATATGTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
13 5 0.08
14 3 0.05
15 16 0.25
16 19 0.29
17 4 0.06
18 12 0.18
19 2 0.03
20 4 0.06
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTATTTATATATTAT
Found at i:2996321 original size:27 final size:26
Alignment explanation
Indices: 2996263--2996321 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
2996253 ACATTTTATA
* *
2996263 TTTTATATATTTTTTATTTATTATTT
1 TTTTATATATTATTTATTTATTATGT
2996289 TATTTATATATTATTTATTT-TCATATGT
1 T-TTTATATATTATTTATTTAT--TATGT
2996317 TTTTA
1 TTTTA
2996322 GTTTCTTTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 2 0.07
27 21 0.75
28 5 0.18
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTATATATTATTTATTTATTATGT
Found at i:2996411 original size:15 final size:14
Alignment explanation
Indices: 2996369--2996434 Score: 55
Period size: 15 Copynumber: 4.6 Consensus size: 14
2996359 ACACTTTACC
*
2996369 TTTTTTATTCT-TT
1 TTTTTTATTTTATT
* *
2996382 TTTTGTATATATATT
1 TTTTTTAT-TTTATT
2996397 TTTTCTTCA-TTTATT
1 TTTT-TT-ATTTTATT
2996412 TTATTTTATTTTATT
1 TT-TTTTATTTTATT
2996427 TTTTTTAT
1 TTTTTTAT
2996435 GTTTCAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
13 7 0.16
14 9 0.21
15 23 0.53
16 3 0.07
17 1 0.02
ACGTcount: A:0.17, C:0.05, G:0.02, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTATT
Found at i:2996416 original size:5 final size:5
Alignment explanation
Indices: 2996406--2996434 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2996396 TTTTTCTTCA
2996406 TTTAT TTTAT TTTAT TTTAT TTT-T TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
2996435 GTTTCAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:2998744 original size:18 final size:20
Alignment explanation
Indices: 2998721--2998765 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
2998711 AGCAATACAC
2998721 ATAAAATTAA-AAA-ATAAA
1 ATAAAATTAATAAACATAAA
2998739 ATAAAA--AATAAACATAAA
1 ATAAAATTAATAAACATAAA
*
2998757 AGAAAATTA
1 ATAAAATTA
2998766 TCGGTTTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.09
17 3 0.14
18 16 0.73
20 1 0.05
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
ATAAAATTAATAAACATAAA
Found at i:2998745 original size:12 final size:12
Alignment explanation
Indices: 2998721--2998757 Score: 56
Period size: 13 Copynumber: 2.9 Consensus size: 12
2998711 AGCAATACAC
2998721 ATAAAATTAAAAA
1 ATAAAA-TAAAAA
2998734 ATAAAATAAAAA
1 ATAAAATAAAAA
2998746 ATAAACATAAAA
1 ATAAA-ATAAAA
2998758 GAAAATTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:3000225 original size:133 final size:132
Alignment explanation
Indices: 2999973--3000279 Score: 334
Period size: 133 Copynumber: 2.3 Consensus size: 132
2999963 TCTCTGAGTT
** *
2999973 AAATT-GGA-TGAAAATAGCTCATCATTGTTGAGTTAAGCTATGTTATGGATCACTCCTTCATAG
1 AAATTAGGACTGAAAATAGCTCATCATTGTTGAGTTAAGCTAAATTATGGATCACTCATTCATAG
* * * * *
3000036 TGAATTTGAGTCGGTATTGAATGACTCAAGCTTGATATCCTTCATCGTGGAGTTGAAATCTAACT
66 TGAAGTTGAGTCGATATTGAATGACTCAAGCATGATATCCTTCATCATGAAGTTGAAATCTAACT
3000101 CA
131 CA
* * * * *
3000103 AAATCTAGG-CTGAAAAGTAGCTCATCGTTTTTGAGTTAAGCTAAATTATGGTTGACTCATTCGT
1 AAAT-TAGGACTGAAAA-TAGCTCATCATTGTTGAGTTAAGCTAAATTATGGATCACTCATTCAT
* * ** * **
3000167 CGTGAAGTTGAGTCGATCTT-AGATGACTTGAGCATGGTATCCTTTGTCATGAAGTTGAAATCTA
64 AGTGAAGTTGAGTCGATATTGA-ATGACTCAAGCATGATATCCTTCATCATGAAGTTGAAATCTA
*
3000231 GCTCA
128 ACTCA
* * *
3000236 AAATTTGGACTAAGAAATAGCTCCTCATTGTTGAGTTAAGCTAA
1 AAATTAGGACTGA-AAATAGCTCATCATTGTTGAGTTAAGCTAA
3000280 TTCACAGCTA
Statistics
Matches: 144, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
130 4 0.03
131 1 0.01
132 12 0.08
133 124 0.86
134 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (132 bp):
AAATTAGGACTGAAAATAGCTCATCATTGTTGAGTTAAGCTAAATTATGGATCACTCATTCATAG
TGAAGTTGAGTCGATATTGAATGACTCAAGCATGATATCCTTCATCATGAAGTTGAAATCTAACT
CA
Found at i:3000605 original size:133 final size:132
Alignment explanation
Indices: 3000364--3000790 Score: 509
Period size: 133 Copynumber: 3.2 Consensus size: 132
3000354 GGTTGAAAAA
* * ** *
3000364 TAGCTCCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCCTACGTCGTGAAGTTGAGTCGATC
1 TAGCTTCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCTTTTGGC-TGAAGTTGAGTCGATC
* * * *
3000429 TTGGATGACTTAAGCATAATATCCTTCTTC-ATGAAGTTAAAATCTAGCTCAAAGTCTGGACTGG
65 TCGGATGACTTAAGCATGATATCCTTCGTCGA-GAAGTTGAAATCTAGCTCAAAGTCTGGACTGG
3000493 AAAG
129 AAAG
* * * * *
3000497 TAGCTTATCGTTATTGAGTTAAGCTATATTGTGGATGACTCTTTTGGCTTGAAATTGAGTCGATC
1 TAGCTTCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCTTTTGGC-TGAAGTTGAGTCGATC
* * * * *
3000562 TCGAATGACTTAAGCATGATATCCTTCGTCGAGAAGTTGAAATCTAGCTCGAAGCCTAGACTGGG
65 TCGGATGACTTAAGCATGATATCCTTCGTCGAGAAGTTGAAATCTAGCTCAAAGTCTGGACTGGA
3000627 AAG
130 AAG
* * * * * *
3000630 TAGCTCCTCGTTGTTAACTTAAGCTAAATCATGGATGACTCTTTCATTG-TGAAGTTGAGTCGAC
1 TAGCTTCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCTTT--TGGCTGAAGTTGAGTCGAT
* * * *
3000694 CTCGGGTGACTTAAGCATGATATCCTTCGTCGTA-AAATTGAAATCTAACTCAAAGTCTGGACTA
64 CTCGGATGACTTAAGCATGATATCCTTCGTCG-AGAAGTTGAAATCTAGCTCAAAGTCTGGACTG
3000758 GAAAG
128 GAAAG
*
3000763 TAGCTTCTTGTTGTTGAGTTAAGCTAAA
1 TAGCTTCTCGTTGTTGAGTTAAGCTAAA
3000791 CTGTAGTTTG
Statistics
Matches: 246, Mismatches: 44, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
133 242 0.98
134 2 0.01
135 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (132 bp):
TAGCTTCTCGTTGTTGAGTTAAGCTAAATTATGGATGACTCTTTTGGCTGAAGTTGAGTCGATCT
CGGATGACTTAAGCATGATATCCTTCGTCGAGAAGTTGAAATCTAGCTCAAAGTCTGGACTGGAA
AG
Found at i:3003683 original size:78 final size:78
Alignment explanation
Indices: 3003554--3003709 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
3003544 GCTTTAGGAA
3003554 CTCTTGGATGACTGCATCTCTCACCTTCACTTTCGTTGAACATGTTGTTCCCATCCATTAGTGTC
1 CTCTTGGATGACTGCATCTCTCACCTTCACTTTCGTTGAACATGTTGTTCCCATCCATTAGTGTC
3003619 CTGCATCTTATGG
66 CTGCATCTTATGG
3003632 CTCTTGGATGACTGCATCTCTCACCTTCACTTTCGTTGAACATGTTGTTCCCATCCATTAGTGTC
1 CTCTTGGATGACTGCATCTCTCACCTTCACTTTCGTTGAACATGTTGTTCCCATCCATTAGTGTC
3003697 CTGCATCTTATGG
66 CTGCATCTTATGG
3003710 GACTATCTGG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (78 bp):
CTCTTGGATGACTGCATCTCTCACCTTCACTTTCGTTGAACATGTTGTTCCCATCCATTAGTGTC
CTGCATCTTATGG
Found at i:3007008 original size:11 final size:10
Alignment explanation
Indices: 3006983--3007007 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3006973 CTTCTTTTGG
3006983 TTTTTCATTT
1 TTTTTCATTT
3006993 TTTTTCATTT
1 TTTTTCATTT
3007003 TTTTT
1 TTTTT
3007008 TTGAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:3011346 original size:37 final size:40
Alignment explanation
Indices: 3011299--3011384 Score: 133
Period size: 41 Copynumber: 2.2 Consensus size: 40
3011289 AATAACTAAT
*
3011299 TCCTAAAT-AAAA-TAATAAT-AAATAATCAAACTAAAAA
1 TCCTAAATAAAAAGTAATAATAAAATAATCAAACCAAAAA
3011336 TCCTAAATAAAAAAGTAATAATAAAATAATCAAACCAAAAA
1 TCCTAAAT-AAAAAGTAATAATAAAATAATCAAACCAAAAA
3011377 TCCTAAAT
1 TCCTAAAT
3011385 CTAAAAGGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
37 8 0.18
39 4 0.09
40 7 0.16
41 25 0.57
ACGTcount: A:0.63, C:0.13, G:0.01, T:0.23
Consensus pattern (40 bp):
TCCTAAATAAAAAGTAATAATAAAATAATCAAACCAAAAA
Found at i:3012780 original size:55 final size:55
Alignment explanation
Indices: 3012696--3012823 Score: 247
Period size: 55 Copynumber: 2.3 Consensus size: 55
3012686 GTAATAAACA
3012696 TGTGACAACAGGACTCATACGGTTTTCTACTCTCCACCTTTGGAAGTACTTAGCT
1 TGTGACAACAGGACTCATACGGTTTTCTACTCTCCACCTTTGGAAGTACTTAGCT
3012751 TGTGACAACAGGACTCATACGGTTTTCTACTCTCCACCTTTGGAAGTACTTAGCT
1 TGTGACAACAGGACTCATACGGTTTTCTACTCTCCACCTTTGGAAGTACTTAGCT
*
3012806 TGTTACAACAGGACTCAT
1 TGTGACAACAGGACTCAT
3012824 GTGCTTGTAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (55 bp):
TGTGACAACAGGACTCATACGGTTTTCTACTCTCCACCTTTGGAAGTACTTAGCT
Found at i:3020928 original size:16 final size:17
Alignment explanation
Indices: 3020889--3020930 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
3020879 ATTACTTAAA
*
3020889 TTAATATTATTTATTTT
1 TTAATATTATATATTTT
*
3020906 TAAAATATTA-ATATTTT
1 T-TAATATTATATATTTT
3020923 TTAATATT
1 TTAATATT
3020931 TTTAGTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTAATATTATATATTTT
Found at i:3026644 original size:14 final size:14
Alignment explanation
Indices: 3026625--3026660 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
3026615 AGAAAATAGT
*
3026625 AAATTAAAGTAATG
1 AAATTAAAGGAATG
3026639 AAATTAAAGGAATG
1 AAATTAAAGGAATG
3026653 AAATTAAA
1 AAATTAAA
3026661 TAAATAAAAA
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:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (14 bp):
AAATTAAAGGAATG
Found at i:3026728 original size:16 final size:17
Alignment explanation
Indices: 3026709--3026740 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3026699 GAAATTAGAT
3026709 AACAA-AAAAATAAAAG
1 AACAATAAAAATAAAAG
3026725 AACAATAAAAATAAAA
1 AACAATAAAAATAAAA
3026741 TGTTAGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.81, C:0.06, G:0.03, T:0.09
Consensus pattern (17 bp):
AACAATAAAAATAAAAG
Found at i:3027178 original size:29 final size:29
Alignment explanation
Indices: 3027155--3027210 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
3027145 ATGGTTAGAG
3027155 TGCAATAAAATAAAAGTTAGTGGTTAATA
1 TGCAATAAAATAAAAGTTAGTGGTTAATA
*
3027184 TGCAATAAAATGAAAGTTAGTGGTTAA
1 TGCAATAAAATAAAAGTTAGTGGTTAA
3027211 CTTGAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.46, C:0.04, G:0.20, T:0.30
Consensus pattern (29 bp):
TGCAATAAAATAAAAGTTAGTGGTTAATA
Found at i:3027219 original size:29 final size:29
Alignment explanation
Indices: 3027158--3027221 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
3027148 GTTAGAGTGC
*
3027158 AATAAAATAAAAGTTAGTGGTTAATATGC
1 AATAAAATAAAAGTTAGTGGTTAATATGA
*
3027187 AATAAAATGAAAGTTAGTGGTTAACT-TGA
1 AATAAAATAAAAGTTAGTGGTTAA-TATGA
3027216 AATAAA
1 AATAAA
3027222 TAACATAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.17, T:0.30
Consensus pattern (29 bp):
AATAAAATAAAAGTTAGTGGTTAATATGA
Found at i:3029038 original size:139 final size:139
Alignment explanation
Indices: 3028768--3029937 Score: 1777
Period size: 139 Copynumber: 8.4 Consensus size: 139
3028758 TCCAACTTCT
*
3028768 TATGTGATGGAAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTAC-CCCTCAT
1 TATGTGAT-G-AATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-CTCCCTCAT
* * * * *
3028832 CGGATGAGTTATTCTCATTATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGATACT
63 CGGATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCT
*
3028897 GATTCAACTCTA
128 GATTCAACTCCA
* * *
3028909 TACGTGATGAATCGAGCTAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * *
3028974 ATGAGTTCTTCTCATTATGAACCCTCCACTAGAAATTTTGACCCCTCGAGTGAGGTGTTGCTGAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
*
3029039 TTAACTCCA
131 TCAACTCCA
*
3029048 TATATGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * * * *
3029113 ATGAATGCTTCTCATTATGAGA-TCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTAA
66 ATGAGTTCTTCTCATTATGA-ACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGA
3029177 TTCAACTCCA
130 TTCAACTCCA
* * *
3029187 TATGTGGTGAATCAAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * * * *
3029252 ATGAGTTCTTCTCATTATGAACCCTCAATTGGAAATATTGATCCGTCAAGTGAGGTGTTGCTGAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
3029317 TCAACTCCA
131 TCAACTCCA
* * * *
3029326 TATATGATGAATCGAGCTAAGGTTGAACAAGTTATTCTTATTATGAACTTGTTCTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * * *
3029391 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTAACCCCTCGAGTAAGGTGTTGCTAAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
*
3029456 TTAACTCCA
131 TCAACTCCA
*
3029465 TATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * * * *
3029530 ATGAATTCTTCTCATTATGAGCTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTAAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
3029595 TCAACTCCA
131 TCAACTCCA
* * *
3029604 TATGTGGTGAATCAAACTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
* * * * *
3029669 ATGAGTTCTTCTCATTATGAACCCTCTATTGGAAATATTGACCCCTCAAGTGAGGTGTTGCTGAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
*
3029734 TCAACTCTA
131 TCAACTCCA
* * *
3029743 TATGTGATGAATCGAGCTATGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGA
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
**
3029808 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTATTGAT
66 ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
3029873 TCAACTCCA
131 TCAACTCCA
3029882 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
1 TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
3029938 ATTATGAACT
Statistics
Matches: 932, Mismatches: 94, Indels: 8
0.90 0.09 0.01
Matches are distributed among these distances:
138 1 0.00
139 922 0.99
140 2 0.00
141 7 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (139 bp):
TATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGG
ATGAGTTCTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTGAT
TCAACTCCA
Found at i:3029560 original size:417 final size:417
Alignment explanation
Indices: 3028786--3029937 Score: 1973
Period size: 417 Copynumber: 2.8 Consensus size: 417
3028776 GGAAAACGAG
*
3028786 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTAC-CCCTCATCGGATGAGTTATTCTCAT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT-CTCCCTCATCGGATGAGTTCTTCTCAT
* * * * * * * * *
3028850 TATGAACTCTCCACTAGAAATGTTGATCCCTCGAGTGAGGTGATACTGATTCAACTCTATACGTG
65 TATGAACCCTCAATTGGAAATATTGATCCCTCAAGTGAGGTGTTGCTGATTCAACTCTATATGTG
* * *
3028915 ATGAATCGAGCTAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTCCCTCATCGGATGAGT
130 ATGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGT
* *
3028980 TCTTCTCATTATGAACCCTCCACTAGAAATTTTGACCCCTCGAGTGAGGTGTTGCTGATTTAACT
195 TCTTCTCATTATGAACCCTCCACTGGAAATGTTGACCCCTCGAGTGAGGTGTTGCTGATTTAACT
*
3029045 CCATATATGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
260 CCATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCAT
3029110 CGGATGAATGCTTCTCATTATGAGATCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCT
325 CGGATGAATGCTTCTCATTATGAGATCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCT
3029175 AATTCAACTCCATATGTGGTGAATCAAA
390 AATTCAACTCCATATGTGGTGAATCAAA
3029203 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* * *
3029268 ATGAACCCTCAATTGGAAATATTGATCCGTCAAGTGAGGTGTTGCTGATTCAACTCCATATATGA
66 ATGAACCCTCAATTGGAAATATTGATCCCTCAAGTGAGGTGTTGCTGATTCAACTCTATATGTGA
* *
3029333 TGAATCGAGCTAAGGTTGAACAAGTTATTCTTATTATGAACTTGTTCTCCCTCATCGGATGAGTT
131 TGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTT
* * *
3029398 CTTCTCATTATGAACCCTCCACTGGAAATGTTAACCCCTCGAGTAAGGTGTTGCTAATTTAACTC
196 CTTCTCATTATGAACCCTCCACTGGAAATGTTGACCCCTCGAGTGAGGTGTTGCTGATTTAACTC
*
3029463 CATATGTGATGAATCAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC
261 CATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC
* *
3029528 GGATGAATTCTTCTCATTATGAGCTCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTA
326 GGATGAATGCTTCTCATTATGAGATCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTA
3029593 ATTCAACTCCATATGTGGTGAATCAAA
391 ATTCAACTCCATATGTGGTGAATCAAA
3029620 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
1 CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
* *
3029685 ATGAACCCTCTATTGGAAATATTGACCCCTCAAGTGAGGTGTTGCTGATTCAACTCTATATGTGA
66 ATGAACCCTCAATTGGAAATATTGATCCCTCAAGTGAGGTGTTGCTGATTCAACTCTATATGTGA
* *
3029750 TGAATCGAGCTATGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGAATGAGTT
131 TGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTT
* ** *
3029815 CTTCTCATTATGAACCCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTATTGATTCAACTC
196 CTTCTCATTATGAACCCTCCACTGGAAATGTTGACCCCTCGAGTGAGGTGTTGCTGATTTAACTC
3029880 CATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
261 CATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTC
3029938 ATTATGAACT
Statistics
Matches: 690, Mismatches: 44, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
416 1 0.00
417 689 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (417 bp):
CTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTCATT
ATGAACCCTCAATTGGAAATATTGATCCCTCAAGTGAGGTGTTGCTGATTCAACTCTATATGTGA
TGAATCGAGCTAAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTT
CTTCTCATTATGAACCCTCCACTGGAAATGTTGACCCCTCGAGTGAGGTGTTGCTGATTTAACTC
CATATGTGATGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC
GGATGAATGCTTCTCATTATGAGATCTCCATTGGAAATGTTGATCCCTCGAGTGAGGTGTTGCTA
ATTCAACTCCATATGTGGTGAATCAAA
Found at i:3029935 original size:17 final size:17
Alignment explanation
Indices: 3029913--3029954 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
3029903 GTTGAACAAG
3029913 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
3029930 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
3029947 TTCTTCTC
1 TTCTTCTC
3029955 GCTCATCGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.26, G:0.05, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:3030044 original size:20 final size:21
Alignment explanation
Indices: 3030021--3030077 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 21
3030011 GTTGAACAAT
*
3030021 TTCTTCTCATTATGAACTTA-
1 TTCTTCTCATTATGAACTGAG
*
3030041 TTCTCTCTCA-T-TGGA-TGAG
1 TTCT-TCTCATTATGAACTGAG
3030060 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
3030078 CTCTACTGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 9
0.71 0.07 0.22
Matches are distributed among these distances:
18 7 0.24
19 8 0.28
20 8 0.28
21 6 0.21
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (21 bp):
TTCTTCTCATTATGAACTGAG
Found at i:3030090 original size:91 final size:91
Alignment explanation
Indices: 3029930--3030095 Score: 260
Period size: 91 Copynumber: 1.8 Consensus size: 91
3029920 CATTATGAAC
* *
3029930 TTCTTCTCATTATGAACTTCTTCTCGCTCATCGGACGCGTTCTTCTCATTATGAACTCTCCACTA
1 TTCTTCTCATTATGAACTTATTCTCGCTCATCGGACGAGTTCTTCTCATTATGAACTCTCCACTA
*
3029995 GAAATGTTGAGCCAAGGTTGAACAAT
66 GAAATATTGAGCCAAGGTTGAACAAT
* * * * *
3030021 TTCTTCTCATTATGAACTTATTCTCTCTCATTGGATGAGTTCTTCTCATTATGAACTCTCTACTG
1 TTCTTCTCATTATGAACTTATTCTCGCTCATCGGACGAGTTCTTCTCATTATGAACTCTCCACTA
3030086 GAAATATTGA
66 GAAATATTGA
3030096 TTGGTTTATC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
91 67 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (91 bp):
TTCTTCTCATTATGAACTTATTCTCGCTCATCGGACGAGTTCTTCTCATTATGAACTCTCCACTA
GAAATATTGAGCCAAGGTTGAACAAT
Found at i:3030692 original size:41 final size:42
Alignment explanation
Indices: 3030633--3030719 Score: 113
Period size: 41 Copynumber: 2.1 Consensus size: 42
3030623 GCCCGAAGGT
* * *
3030633 CTTATGGATGACTCGAAGGACTT-ATTATCTTGCTCAAAAGA
1 CTTATAGATGACTCGAAGGACTTAATCATCATGCTCAAAAGA
* * *
3030674 CTTATAGATGACTTGAAGGATTTAATCATCATGCTCGAAAGA
1 CTTATAGATGACTCGAAGGACTTAATCATCATGCTCAAAAGA
3030716 CTTA
1 CTTA
3030720 CTGATGGCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 20 0.51
42 19 0.49
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (42 bp):
CTTATAGATGACTCGAAGGACTTAATCATCATGCTCAAAAGA
Found at i:3030892 original size:240 final size:236
Alignment explanation
Indices: 3030458--3030918 Score: 560
Period size: 240 Copynumber: 1.9 Consensus size: 236
3030448 CCCGAATGAC
* *
3030458 TTAATCACCATGCTCGAAAGACTTACTAGTGGCCCGAAGGACTTACTAAGTAATAAACTTTGGAA
1 TTAATCACCATGCTCGAAAGACTTACTAGTGGCCCGAAGGACTTACTAAGTAAGAAACTTTGAAA
** * *
3030523 ATCGCATTTTTTCTTTCAAAAATCTCAATTTTCAGAAAAGAATAAGAAACTTTGGAAATAACTTT
66 ATC-CATTTTTTCTTTCAAAAAAATCAATTTTCAGAAAAAAATAAGAAACTTTGGAAATAACCTT
* *
3030588 CTCAATTTTTTTCAAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGACTCGAAGGA
130 CTCAATGTTTTTCAAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGA
*
3030653 CTTATTATCTTGCTCAAAAGACTTATAGATGACTTGAAGGAT
195 CTTATCATCTTGCTCAAAAGACTTATAGATGACTTGAAGGAT
* *
3030695 TTAATCATCATGCTCGAAAGACTTACT-GATGG-CCTAAGGGACTTACTAAGTAAGAAACTTTGA
1 TTAATCACCATGCTCGAAAGACTTACTAG-TGGCCCGAA-GGACTTACTAAGTAAGAAACTTTGA
* *
3030758 AAAT-CATTTTGCTTACTTTTAAAAAAATCAATTTTCAGAAAATATTTAAATGAGAAACTTTGGA
64 AAATCCATTTT--TT-CTTTCAAAAAAATCAATTTTCAG-AAA-A---AAATAAGAAACTTTGGA
** * * *
3030822 AATTGCCTTCT-TA-GTTTTT-GAAAATCACT-TGAAAACAT-CTAGTCCGAAGGTCTTATGGAT
121 AATAACCTTCTCAATGTTTTTCAAAAATCA-TGTGAAAACATCCT-GCCCGAAGGTCTTATGGAT
* * *
3030882 GGCCCGAAGGACTTGTCATCTTGCTCGAAAGACTTAT
184 GACCCGAAGGACTTATCATCTTGCTCAAAAGACTTAT
3030919 TGATAGCCCG
Statistics
Matches: 191, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
235 6 0.03
236 5 0.03
237 58 0.30
238 20 0.10
239 5 0.03
240 67 0.35
241 6 0.03
242 1 0.01
243 23 0.12
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (236 bp):
TTAATCACCATGCTCGAAAGACTTACTAGTGGCCCGAAGGACTTACTAAGTAAGAAACTTTGAAA
ATCCATTTTTTCTTTCAAAAAAATCAATTTTCAGAAAAAAATAAGAAACTTTGGAAATAACCTTC
TCAATGTTTTTCAAAAATCATGTGAAAACATCCTGCCCGAAGGTCTTATGGATGACCCGAAGGAC
TTATCATCTTGCTCAAAAGACTTATAGATGACTTGAAGGAT
Found at i:3031043 original size:198 final size:193
Alignment explanation
Indices: 3030688--3031127 Score: 603
Period size: 198 Copynumber: 2.2 Consensus size: 193
3030678 TAGATGACTT
* * * * *
3030688 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTAAGGGACTTACTAAGTAAGAAAC
1 GAAGGACTT-ATCATCTTGCTCGAAAGACTTATTGATGCCCGAA-GGACTTACTAAGTAAGAAAC
* * *
3030753 TTTGAAAATCATTTTGCTTACTTTTAAAAAAATCAATTTTCAGAAAATATTTAAATGAGAAACTT
64 TTTGAAAATCATTTTGCATACTTTTAAAAAAATCAATTTTCAAAAAAGATTTAAATGAGAAACTT
* *
3030818 TGGAAATTGCCTTCTTAGTTTTTGAAAATCACTTGAAAACATCTAGTCCGAAGGTCTTATGGATG
129 TGGAAATTGCCTTCTTAGTTTTTG-AAA--A-GTGAAAACATCCAGTCCGAAGGTCTTATGGATG
3030883 GCCC
190 GCCC
*
3030887 GAAGGACTTGTCATCTTGCTCGAAAGACTTATTGATAGCCCGAAGGACTTACTAAGTAAGAAACT
1 GAAGGACTTATCATCTTGCTCGAAAGACTTATTGAT-GCCCGAAGGACTTACTAAGTAAGAAACT
* * *
3030952 TTGGAAATCGTTTT-CATACTTTTAAAAAAAATTAATTTTCAAAAAAGATTTAAATGAGAAACTT
65 TTGAAAATCATTTTGCATACTTTT-AAAAAAATCAATTTTCAAAAAAGATTTAAATGAGAAACTT
* * * *
3031016 TGGAAATTGCTTTCTTATTTTTTGAAAAGTGAAAACATCCAGTTCGAAGGTCTTATGGATGGGCC
129 TGGAAATTGCCTTCTTAGTTTTTGAAAAGTGAAAACATCCAGTCCGAAGGTCTTATGGATGGCCC
* * *
3031081 GAATGACTTATTATCTTGCTCGAAAGACTTATAGATGACCCGAAGGA
1 GAAGGACTTATCATCTTGCTCGAAAGACTTATTGATG-CCCGAAGGA
3031128 TTTGAGCATC
Statistics
Matches: 216, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
193 1 0.00
194 74 0.34
195 1 0.00
197 11 0.05
198 116 0.54
199 13 0.06
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (193 bp):
GAAGGACTTATCATCTTGCTCGAAAGACTTATTGATGCCCGAAGGACTTACTAAGTAAGAAACTT
TGAAAATCATTTTGCATACTTTTAAAAAAATCAATTTTCAAAAAAGATTTAAATGAGAAACTTTG
GAAATTGCCTTCTTAGTTTTTGAAAAGTGAAAACATCCAGTCCGAAGGTCTTATGGATGGCCC
Found at i:3031180 original size:42 final size:41
Alignment explanation
Indices: 3031079--3031180 Score: 107
Period size: 42 Copynumber: 2.4 Consensus size: 41
3031069 TATGGATGGG
* * *
3031079 CCGAATGACTTATTATCTTGCTCGAAAGACTTATAGATGAC
1 CCGAAGGACTTATCATCATGCTCGAAAGACTTATAGATGAC
* * *
3031120 CCGAAGGATTTGAGCATCATGCTCGAAAGACTTACT-GATGGC
1 CCGAAGGACTT-ATCATCATGCTCGAAAGACTTA-TAGATGAC
*
3031162 TCGAAGGACTTACTCATCA
1 CCGAAGGACTTA-TCATCA
3031181 ATAAACCCTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
41 10 0.20
42 38 0.78
43 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
CCGAAGGACTTATCATCATGCTCGAAAGACTTATAGATGAC
Found at i:3031294 original size:34 final size:33
Alignment explanation
Indices: 3031251--3031320 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
3031241 AAACCCATAA
*
3031251 AAAATAGGCTTAACTTCTTTAAAAATTCATTGG
1 AAAATAGGCTTAACTTATTTAAAAATTCATTGG
* *
3031284 AAAATCAGGCTTAGCTTATTTGAAAATTCATTGG
1 AAAAT-AGGCTTAACTTATTTAAAAATTCATTGG
3031318 AAA
1 AAA
3031321 TATTTATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (33 bp):
AAAATAGGCTTAACTTATTTAAAAATTCATTGG
Found at i:3031393 original size:53 final size:53
Alignment explanation
Indices: 3031283--3031639 Score: 290
Period size: 53 Copynumber: 6.8 Consensus size: 53
3031273 AAATTCATTG
* * *
3031283 GAAAATCAGGCTTAGCTTATTTGAAAATTCATTGGAAATATTTATCAAGAAACCCCT
1 GAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAA-A--CATCAAGAAACCCCT
* *
3031340 GAAAATCAAGTTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
1 GAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
* * *
3031393 GAAAATCAGGCTTAACTTCTTTCAAATTCATTTAAAAACATCAAGAAACCCCT
1 GAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
* *
3031446 AAAAATTAGGCTTAGCTTC-------TTCATTTGAAAACATCAAGAAACCCCT
1 GAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
* * * * * * **
3031492 GAAAACCAGACTTAGCTTCTTTAAAA---AATTCAACATATCAAGAAACCTAT
1 GAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
* * * * ***
3031542 GAAAATCAGACTTAGTTTCTTTGCAAACTCATTT-AAAA-ATCAAGAAACTTAT
1 GAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAACATCAAGAAACCCCT
* * * * *
3031594 GAAAATTAGACATAGTTTCTTTGAAAACTCATTT-AAAATCATCAAG
1 GAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA-CATCAAG
3031640 GAACTTTTGA
Statistics
Matches: 254, Mismatches: 33, Indels: 29
0.80 0.10 0.09
Matches are distributed among these distances:
46 41 0.16
50 38 0.15
51 3 0.01
52 48 0.19
53 81 0.32
54 9 0.04
55 1 0.00
56 14 0.06
57 19 0.07
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (53 bp):
GAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACCCCT
Found at i:3031486 original size:46 final size:46
Alignment explanation
Indices: 3031419--3031512 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
3031409 TTCTTTCAAA
** *
3031419 TTCATTTAAAAACATCAAGAAACCCCTAAAAATTAGGCTTAGCTTC
1 TTCATTTAAAAACATCAAGAAACCCCTAAAAACCAGACTTAGCTTC
* *
3031465 TTCATTTGAAAACATCAAGAAACCCCTGAAAACCAGACTTAGCTTC
1 TTCATTTAAAAACATCAAGAAACCCCTAAAAACCAGACTTAGCTTC
3031511 TT
1 TT
3031513 TAAAAAATTC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (46 bp):
TTCATTTAAAAACATCAAGAAACCCCTAAAAACCAGACTTAGCTTC
Found at i:3031596 original size:52 final size:53
Alignment explanation
Indices: 3031466--3031667 Score: 207
Period size: 52 Copynumber: 3.8 Consensus size: 53
3031456 CTTAGCTTCT
*** * *
3031466 TCATTTGAAAACATCAAGAAACCCCTGAAAACCAGACTTAGCTTCTTT-AAAA-
1 TCATTT-AAAACATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAAC
* * * * * *
3031518 -AATTCAACATATCAAGAAACCTATGAAAATCAGACTTAGTTTCTTTGCAAAC
1 TCATTTAAAACATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAAC
* *
3031570 TCATTTAAAA-ATCAAGAAACTTATGAAAATTAGACATAGTTTCTTTGAAAAC
1 TCATTTAAAACATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAAC
* *
3031622 TCATTTAAAATCATCAAGGAACTTTTGAAAATCAGA-TTAAGTTTCT
1 TCATTTAAAA-CATCAAGAAACTTATGAAAATCAGACTT-AGTTTCT
3031668 AAAAAAACAC
Statistics
Matches: 124, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
50 35 0.28
51 6 0.05
52 48 0.39
53 7 0.06
54 28 0.23
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (53 bp):
TCATTTAAAACATCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAAC
Found at i:3031844 original size:2 final size:2
Alignment explanation
Indices: 3031837--3031897 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
3031827 CTGTAAGAAT
3031837 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
3031879 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
3031898 GTATGTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3033719 original size:27 final size:26
Alignment explanation
Indices: 3033647--3033719 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 26
3033637 TCTTGCTTTC
*
3033647 TTCT-TCTTTTC-TTCTTTCTTTCTT
1 TTCTATCTTTTCTTTTTTTCTTTCTT
*
3033671 TTCTCTCTTTT-TTATTTCTTCTTT-TT
1 TTCTATCTTTTCTT-TTT-TTCTTTCTT
3033697 TTCTATATCTTTTCTTTTTTTCT
1 TTC--TATCTTTTCTTTTTTTCT
3033720 ATGTGTTGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
24 4 0.10
25 7 0.17
26 7 0.17
27 10 0.25
28 10 0.25
29 2 0.05
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (26 bp):
TTCTATCTTTTCTTTTTTTCTTTCTT
Found at i:3033961 original size:2 final size:2
Alignment explanation
Indices: 3033954--3034039 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
3033944 ATAACAAGGG
3033954 AT AT AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT AT
3033996 AT AT AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT AT
3034038 AT
1 AT
3034040 TAAAGGATAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3037475 original size:7 final size:7
Alignment explanation
Indices: 3037431--3037487 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
3037421 TATTAAAGAT
3037431 AAATAAA
1 AAATAAA
*
3037438 ATATATAA
1 AAATA-AA
*
3037446 AAATACTA
1 AAATA-AA
*
3037454 AAAT-TA
1 AAATAAA
*
3037460 AAGTAAA
1 AAATAAA
3037467 AAATAAA
1 AAATAAA
3037474 AAATAAA
1 AAATAAA
3037481 AAATAAA
1 AAATAAA
3037488 TAAAGAAAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
6 5 0.12
7 25 0.61
8 11 0.27
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (7 bp):
AAATAAA
Found at i:3037496 original size:28 final size:34
Alignment explanation
Indices: 3037414--3037485 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 34
3037404 AATTAAAAGG
*
3037414 ATAC-AAATATTAAAGATAAATAAAATATATAAAA
1 ATACTAAA-ATTAAAGAAAAATAAAATATATAAAA
*
3037448 ATACTAAAATTAAAGTAAAAAATAAAAAATA-AAAA
1 ATACTAAAATTAAAG--AAAAATAAAATATATAAAA
3037483 ATA
1 ATA
3037486 AATAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
34 11 0.33
35 10 0.30
36 12 0.36
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (34 bp):
ATACTAAAATTAAAGAAAAATAAAATATATAAAA
Found at i:3037520 original size:14 final size:14
Alignment explanation
Indices: 3037501--3037536 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
3037491 AGAAAACAGT
*
3037501 AAATTAAAGTAATG
1 AAATTAAAGGAATG
*
3037515 AAATTAAAGGACTG
1 AAATTAAAGGAATG
3037529 AAATTAAA
1 AAATTAAA
3037537 TAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.58, C:0.03, G:0.14, T:0.25
Consensus pattern (14 bp):
AAATTAAAGGAATG
Found at i:3038055 original size:29 final size:29
Alignment explanation
Indices: 3038033--3038088 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
3038023 GTGGTTAGAG
*
3038033 TGCAATAAAATTAAAGTTGGTGGTTAATA
1 TGCAATAAAATGAAAGTTGGTGGTTAATA
* *
3038062 TGCAATAAAATGAAAGTTAGTAGTTAA
1 TGCAATAAAATGAAAGTTGGTGGTTAA
3038089 CTTGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.32
Consensus pattern (29 bp):
TGCAATAAAATGAAAGTTGGTGGTTAATA
Found at i:3038097 original size:29 final size:29
Alignment explanation
Indices: 3038036--3038099 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
3038026 GTTAGAGTGC
* * * *
3038036 AATAAAATTAAAGTTGGTGGTTAATATGC
1 AATAAAATGAAAGTTAGTAGTTAATATGA
3038065 AATAAAATGAAAGTTAGTAGTTAACT-TGA
1 AATAAAATGAAAGTTAGTAGTTAA-TATGA
3038094 AATAAA
1 AATAAA
3038100 TAACATAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 29 0.97
30 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.17, T:0.31
Consensus pattern (29 bp):
AATAAAATGAAAGTTAGTAGTTAATATGA
Found at i:3041008 original size:27 final size:25
Alignment explanation
Indices: 3040973--3041092 Score: 73
Period size: 27 Copynumber: 4.5 Consensus size: 25
3040963 AGGAAATAAC
*
3040973 CAAATTACCCTTAGACTTCAAAATGA
1 CAAAATACCCTTA-ACTTCAAAATGA
* *
3040999 TCAAAATACCCCTAAACTAT-AAAATTA
1 -CAAAATA-CCCTTAACT-TCAAAATGA
*
3041026 CCAAAATACCCTTTAACTACAAAATGA
1 -CAAAATACCC-TTAACTTCAAAATGA
* *
3041053 CTAAAATATCCCTAAACTAT-AAAATAA
1 C-AAAATA-CCCTTAACT-TCAAAATGA
*
3041080 CTAAAACACCCTT
1 C-AAAATACCCTT
3041093 GAGCTCCAAA
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
26 8 0.11
27 57 0.77
28 9 0.12
ACGTcount: A:0.48, C:0.24, G:0.03, T:0.25
Consensus pattern (25 bp):
CAAAATACCCTTAACTTCAAAATGA
Found at i:3041029 original size:54 final size:54
Alignment explanation
Indices: 3040966--3041092 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
3040956 AATCTAAAGG
* *
3040966 AAATAACCAAATTACCC-TTAGACTTCAAAATGA-TCAAAATACCCCTAAACTATA
1 AAATAACCAAAATACCCTTTA-ACTACAAAATGACT-AAAATACCCCTAAACTATA
* *
3041020 AAATTACCAAAATACCCTTTAACTACAAAATGACTAAAATATCCCTAAACTATA
1 AAATAACCAAAATACCCTTTAACTACAAAATGACTAAAATACCCCTAAACTATA
* *
3041074 AAATAACTAAAACACCCTT
1 AAATAACCAAAATACCCTT
3041093 GAGCTCCAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
54 60 0.94
55 4 0.06
ACGTcount: A:0.50, C:0.24, G:0.02, T:0.24
Consensus pattern (54 bp):
AAATAACCAAAATACCCTTTAACTACAAAATGACTAAAATACCCCTAAACTATA
Found at i:3042457 original size:2 final size:2
Alignment explanation
Indices: 3042445--3042479 Score: 61
Period size: 2 Copynumber: 17.0 Consensus size: 2
3042435 GATGGTACTG
3042445 AT AT GAT AT AT AT AT AT AT 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
3042480 GTTTTATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3045022 original size:3 final size:3
Alignment explanation
Indices: 3044999--3045075 Score: 72
Period size: 3 Copynumber: 26.7 Consensus size: 3
3044989 GTCTGAAGTG
* * *
3044999 TAA TAA -AA TAA TAT TAT TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
3045044 TAG TAA TAAA TAA -AA TAA TAA CAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
3045076 TAAATAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
2 8 0.13
3 50 0.82
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3045035 original size:11 final size:11
Alignment explanation
Indices: 3044999--3045079 Score: 55
Period size: 11 Copynumber: 7.6 Consensus size: 11
3044989 GTCTGAAGTG
3044999 TAATAAAATAA
1 TAATAAAATAA
* *
3045010 T-AT-TATTAA
1 TAATAAAATAA
*
3045019 TAATAATATAA
1 TAATAAAATAA
*
3045030 TTATAAAATAA
1 TAATAAAATAA
*
3045041 TAAT--AGTAA
1 TAATAAAATAA
3045050 TAAATAAAATAA
1 T-AATAAAATAA
*
3045062 TAACAATAATAA
1 TAATAA-AATAA
3045074 T-ATAAA
1 TAATAAA
3045080 TAAAAAATGG
Statistics
Matches: 52, Mismatches: 12, Indels: 13
0.68 0.16 0.17
Matches are distributed among these distances:
9 10 0.19
10 8 0.15
11 23 0.44
12 11 0.21
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:3045783 original size:113 final size:114
Alignment explanation
Indices: 3045558--3046006 Score: 719
Period size: 113 Copynumber: 4.0 Consensus size: 114
3045548 TAGAGTCATG
* ** * *
3045558 CAAAAGG-TCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
3045622 ATTATGAA-CTTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
66 ATTATGAATC-TTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
*
3045671 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAATTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
3045736 ATTATGAATC-TCTCTGGAAAAGTAGATCCATCGAATGATGAATTCAAA
66 ATTATGAATCTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
* *
3045784 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGAAGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
3045849 ATTATGAA-CTTCTCTGGAAAAGTTGATCCATTGAATGATGAATTTAAA
66 ATTATGAATCTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
*
3045897 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * *
3045962 ATTATG-AGCTTCTCTGGAAATGTTGATCCATCGAATGATGGATTC
66 ATTATGAATCTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTC
3046007 GAATCTTTGC
Statistics
Matches: 314, Mismatches: 18, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
112 2 0.01
113 252 0.80
114 59 0.19
115 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (114 bp):
CAAAAGGTTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAATCTTCTCTGGAAAAGTTGATCCATCGAATGATGAATTCAAA
Found at i:3047195 original size:19 final size:17
Alignment explanation
Indices: 3047149--3047204 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
3047139 ATTTACAAAA
3047149 TAAAAGAATAAATTGAAT
1 TAAAA-AATAAATTGAAT
*
3047167 TATGAAAATAAATTGAAT
1 TA-AAAAATAAATTGAAT
*
3047185 CTCAAAAAATAAATTAAAT
1 -T-AAAAAATAAATTGAAT
3047204 T
1 T
3047205 TAGAGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
18 15 0.47
19 16 0.50
20 1 0.03
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (17 bp):
TAAAAAATAAATTGAAT
Found at i:3054937 original size:15 final size:15
Alignment explanation
Indices: 3054914--3054945 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3054904 TGCAATGAAT
3054914 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
3054929 AATGCATGTATGCAA
1 AATGAATGTATGCAA
3054944 AA
1 AA
3054946 GGTATTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.19, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:3058304 original size:20 final size:18
Alignment explanation
Indices: 3058245--3058326 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 18
3058235 CTTGAAAAAT
*
3058245 AAAATA-AAACATTAATAA
1 AAAATATAAATATT-ATAA
*
3058263 AATAATATAAATATTAT-G
1 AA-AATATAAATATTATAA
3058281 AAAATAATAAATATATATAAA
1 AAAAT-ATAAATAT-TAT-AA
*
3058302 AAAATTTAAA-ATT-TAA
1 AAAATATAAATATTATAA
3058318 AAAAT-TAAA
1 AAAATATAAA
3058327 AAATTAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
15 4 0.07
16 7 0.13
17 4 0.07
18 13 0.24
19 11 0.20
20 10 0.19
21 5 0.09
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (18 bp):
AAAATATAAATATTATAA
Found at i:3058320 original size:8 final size:8
Alignment explanation
Indices: 3058301--3058338 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
3058291 ATATATATAA
3058301 AAAAATTT
1 AAAAATTT
3058309 -AAAATTT
1 AAAAATTT
*
3058316 AAAAAATT
1 AAAAATTT
*
3058324 AAAAAATT
1 AAAAATTT
3058332 AAAAATT
1 AAAAATT
3058339 AAATATATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
AAAAATTT
Found at i:3058321 original size:16 final size:16
Alignment explanation
Indices: 3058300--3058341 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
3058290 AATATATATA
* *
3058300 AAAAAATTTAAAATTT
1 AAAAAATTAAAAAATT
3058316 AAAAAATTAAAAAATT
1 AAAAAATTAAAAAATT
3058332 -AAAAATTAAA
1 AAAAAATTAAA
3058342 TATATGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAAATTAAAAAATT
Found at i:3059386 original size:13 final size:13
Alignment explanation
Indices: 3059364--3059400 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
3059354 AGATTAAAAT
* *
3059364 TATATGAAATTTG
1 TATATCAAATTCG
3059377 TATATCAAATTCG
1 TATATCAAATTCG
3059390 TATATCAAATT
1 TATATCAAATT
3059401 AAAAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (13 bp):
TATATCAAATTCG
Found at i:3061371 original size:18 final size:18
Alignment explanation
Indices: 3061345--3061402 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
3061335 AATACATTAC
3061345 AAATAAACATATAAAATT
1 AAATAAACATATAAAATT
*
3061363 AAATCAACA-ACTAAAA-T
1 AAATAAACATA-TAAAATT
*
3061380 AAATGAA-AT-TAAAATT
1 AAATAAACATATAAAATT
*
3061396 ATATAAA
1 AAATAAA
3061403 AATGATTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 8 0.24
18 13 0.39
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAACATATAAAATT
Found at i:3062710 original size:3 final size:3
Alignment explanation
Indices: 3062690--3062762 Score: 73
Period size: 3 Copynumber: 25.3 Consensus size: 3
3062680 GCCTGAAGTG
* *
3062690 TAA TAA -AA TAA TAT TAA TAA TAA TAA T-A TAA TTA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
3062735 TAG TAA TAAA TAA -AA TAA TAA CAA TAA T
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA T
3062763 TATATAAATA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
2 8 0.14
3 46 0.81
4 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:3062726 original size:11 final size:11
Alignment explanation
Indices: 3062690--3062755 Score: 59
Period size: 11 Copynumber: 6.3 Consensus size: 11
3062680 GCCTGAAGTG
3062690 TAATAAAATAA
1 TAATAAAATAA
*
3062701 T-AT-TAATAA
1 TAATAAAATAA
*
3062710 TAATAATATAA
1 TAATAAAATAA
*
3062721 TTATAAAATAA
1 TAATAAAATAA
*
3062732 TAAT--AGTAA
1 TAATAAAATAA
3062741 TAAATAAAATAA
1 T-AATAAAATAA
3062753 TAA
1 TAA
3062756 CAATAATTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
9 11 0.26
10 7 0.17
11 19 0.45
12 5 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:3062727 original size:31 final size:32
Alignment explanation
Indices: 3062692--3062753 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
3062682 CTGAAGTGTA
* *
3062692 ATAAAATAATATTAATAAT-AATAATATAATT
1 ATAAAATAATAATAATAATAAATAAAATAATT
*
3062723 ATAAAATAATAATAGTAATAAATAAAATAAT
1 ATAAAATAATAATAATAATAAATAAAATAAT
3062754 AACAATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.34
Consensus pattern (32 bp):
ATAAAATAATAATAATAATAAATAAAATAATT
Found at i:3062771 original size:21 final size:20
Alignment explanation
Indices: 3062690--3062778 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
3062680 GCCTGAAGTG
3062690 TAATAAAATAA-TAT-TAATAA
1 TAATAAAATAATTATAT-A-AA
*
3062710 TAATAATATAATTATA-AAA
1 TAATAAAATAATTATATAAA
* *
3062729 TAATAATAGTAA-TAAATAAAA
1 TAATAA-AATAATTATAT-AAA
3062750 TAATAACAATAATTATATAAA
1 TAATAA-AATAATTATATAAA
3062771 TAA-AAAAT
1 TAATAAAAT
3062779 GGATAAAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
19 14 0.25
20 16 0.29
21 22 0.39
22 4 0.07
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (20 bp):
TAATAAAATAATTATATAAA
Found at i:3067789 original size:15 final size:15
Alignment explanation
Indices: 3067769--3067800 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3067759 TTTGTTGAAG
*
3067769 TATTTTGGAAACTAA
1 TATTTTGGAAACAAA
3067784 TATTTTGGAAACAAA
1 TATTTTGGAAACAAA
3067799 TA
1 TA
3067801 ATGGTGAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (15 bp):
TATTTTGGAAACAAA
Found at i:3078080 original size:95 final size:96
Alignment explanation
Indices: 3077965--3078166 Score: 336
Period size: 96 Copynumber: 2.1 Consensus size: 96
3077955 AGATTATAAT
3077965 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTT-AAACGCCCC-AGCTT
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAACGCCCCGA-CTT
* *
3078028 TATGGATAAGATTCAGTTAGCATGATAAATGTG
64 TATGGATAAGATTCAGCTAGCATGATAAAGGTG
*
3078061 ATTATAATATATAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAACGCCCCGACTTTA
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAACGCCCCGACTTTA
3078126 TGGATAAGATTCAGCTAGCATGATAAAGGTG
66 TGGATAAGATTCAGCTAGCATGATAAAGGTG
*
3078157 GTTATAATAT
1 ATTATAATAT
3078167 TGAGTTATCC
Statistics
Matches: 100, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
95 41 0.41
96 58 0.58
97 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (96 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAAACGCCCCGACTTTA
TGGATAAGATTCAGCTAGCATGATAAAGGTG
Found at i:3079109 original size:84 final size:83
Alignment explanation
Indices: 3078968--3079314 Score: 424
Period size: 84 Copynumber: 4.1 Consensus size: 83
3078958 AAAAGCACCT
* *
3078968 CCAACAAAATACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
* * *
3079033 AGGTGAGAAGGATTATTTT
66 AGGCGAGAAGG-TTATCTG
* * * *
3079052 CCAATAAAAGACTTTCGAGTTCAATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
* *
3079117 AGGCAAGGAAAGTTATCTG
66 AGGCGA-GAAGGTTATCTG
* *
3079136 CCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATACCTCA
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
*
3079201 AGGCGAGAAGGGCTATCTG
66 AGGCGAGAA-GGTTATCTG
* * * * ** *
3079220 CCAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAGATGCAAATCAAATTTATAGCATAACT
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCT
* *
3079285 TAAGGCAAGAAAGGTTATCTG
64 CAAGGCGAG-AAGGTTATCTG
*
3079306 TCAACAAAA
1 CCAACAAAA
3079315 AACTTTTGTG
Statistics
Matches: 225, Mismatches: 33, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
83 3 0.01
84 182 0.81
85 4 0.02
86 34 0.15
87 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (83 bp):
CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
AGGCGAGAAGGTTATCTG
Found at i:3079249 original size:168 final size:169
Alignment explanation
Indices: 3078968--3079314 Score: 500
Period size: 168 Copynumber: 2.1 Consensus size: 169
3078958 AAAAGCACCT
* * *
3078968 CCAACAAAATACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATACCTCA
* * * * * *
3079033 AGGTGAGAAGGATTATTTTCCAATAAAAGACTTTCGAGTTCAATTACACTCAGCTCAAAGGCACA
66 AGGCGAGAAGGACTATCTGCCAATAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAA
*
3079098 TC-ATTTACAGCATAGCTCAAGGCAAGGAAA-GTTATCTG
131 TCAATTTACAGCATAACTCAAGGCAA-GAAAGGTTATCTG
*
3079136 CCAACAAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATACCTCA
1 CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATACCTCA
* * * *
3079201 AGGCGAGAAGGGCTATCTGCCAATAAAAGACCTTCGAGTTCGATTACACTCAGCTCAGATGCAAA
66 AGGCGAGAAGGACTATCTGCCAATAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAA
* *
3079266 TCAAATTTATAGCATAACTTAAGGCAAGAAAGGTTATCTG
131 TC-AATTTACAGCATAACTCAAGGCAAGAAAGGTTATCTG
*
3079306 TCAACAAAA
1 CCAACAAAA
3079315 AACTTTTGTG
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
168 118 0.75
169 4 0.03
170 36 0.23
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.24
Consensus pattern (169 bp):
CCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATACCTCA
AGGCGAGAAGGACTATCTGCCAATAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCAAA
TCAATTTACAGCATAACTCAAGGCAAGAAAGGTTATCTG
Found at i:3087793 original size:5 final size:5
Alignment explanation
Indices: 3087785--3087821 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
3087775 GTACAATACA
3087785 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TA
3087822 AAACTTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:3088801 original size:13 final size:13
Alignment explanation
Indices: 3088783--3088807 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3088773 TATTTATATA
3088783 TTTTTTTATTATC
1 TTTTTTTATTATC
3088796 TTTTTTTATTAT
1 TTTTTTTATTAT
3088808 ATATATATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTTTTATTATC
Found at i:3088823 original size:32 final size:32
Alignment explanation
Indices: 3088777--3088837 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
3088767 TCTAAATATT
* *
3088777 TATATATTTTTTTATTATCTTTT-TTTATTATA
1 TATATATGTATTTATT-TCTTTTGTTTATTATA
3088809 TATATATGTATTTATTTCTTTTGTTTATT
1 TATATATGTATTTATTTCTTTTGTTTATT
3088838 TAATTTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 6 0.23
32 20 0.77
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.70
Consensus pattern (32 bp):
TATATATGTATTTATTTCTTTTGTTTATTATA
Found at i:3088875 original size:2 final size:2
Alignment explanation
Indices: 3088860--3088911 Score: 77
Period size: 2 Copynumber: 26.0 Consensus size: 2
3088850 AATATTCATT
* * *
3088860 TA TA TA TG TT TA TA TA TA TG 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
3088902 TA TA TA TA TA
1 TA TA TA TA TA
3088912 GTTTATTTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3089030 original size:14 final size:16
Alignment explanation
Indices: 3089013--3089046 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
3089003 TTTTTTTTCT
3089013 TTTTTCTTT-TTC-AC
1 TTTTTCTTTATTCAAC
3089027 TTTTTCTTTATTCAAC
1 TTTTTCTTTATTCAAC
3089043 TTTT
1 TTTT
3089047 CAACTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 3 0.17
16 6 0.33
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTCTTTATTCAAC
Found at i:3089073 original size:21 final size:22
Alignment explanation
Indices: 3089040--3089080 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3089030 TTCTTTATTC
3089040 AACTTTTCAACTTTT-TTTTCA
1 AACTTTTCAACTTTTCTTTTCA
**
3089061 AACTTTTTGACTTTTCTTTT
1 AACTTTTCAACTTTTCTTTT
3089081 GGTTTTGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.17, G:0.02, T:0.61
Consensus pattern (22 bp):
AACTTTTCAACTTTTCTTTTCA
Found at i:3089244 original size:4 final size:4
Alignment explanation
Indices: 3089235--3089259 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
3089225 CTTTTTTTCA
3089235 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
3089260 TTATTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:3090730 original size:17 final size:17
Alignment explanation
Indices: 3090708--3090741 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3090698 TGTGTGTGAC
3090708 TAATATGAAAA-TAATAA
1 TAATAT-AAAATTAATAA
3090725 TAATATAAAATTAATAA
1 TAATATAAAATTAATAA
3090742 CAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (17 bp):
TAATATAAAATTAATAA
Found at i:3090775 original size:16 final size:16
Alignment explanation
Indices: 3090744--3090773 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3090734 ATTAATAACA
3090744 AAATAATATTATAAAT
1 AAATAATATTATAAAT
3090760 AAATAATATT-TAAA
1 AAATAATATTATAAA
3090774 ATGAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAATAATATTATAAAT
Found at i:3090790 original size:27 final size:28
Alignment explanation
Indices: 3090743--3090796 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
3090733 AATTAATAAC
*
3090743 AAAATAATATTATAAATAAATAATATTT
1 AAAATAATATTATAAAGAAATAATATTT
3090771 AAAATGAAT-TTA-AAAGAAATAATATT
1 AAAAT-AATATTATAAAGAAATAATATT
3090797 AAATTGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 13 0.54
28 8 0.33
29 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (28 bp):
AAAATAATATTATAAAGAAATAATATTT
Found at i:3092037 original size:3 final size:3
Alignment explanation
Indices: 3092031--3092083 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
3092021 ATTATTTATT
* *
3092031 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3092075 TAA TAA TAA
1 TAA TAA TAA
3092084 CTAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:3092053 original size:19 final size:19
Alignment explanation
Indices: 3092031--3092083 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
3092021 ATTATTTATT
* *
3092031 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
3092050 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
*
3092069 AAATAATAATAATAA
1 TAATAATAATAATAA
3092084 CTAAAACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:3092056 original size:22 final size:21
Alignment explanation
Indices: 3092009--3092088 Score: 70
Period size: 22 Copynumber: 3.6 Consensus size: 21
3091999 TGTAAAAATG
* * *
3092009 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
3092031 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
* * *
3092053 TAATAATATTAAAACAAAATAA
1 TAATAATAAT-AAATAATATAA
3092075 TAATAATAACTAAA
1 TAATAATAA-TAAA
3092089 ACAAATGAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 39 0.81
23 9 0.19
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:3092094 original size:22 final size:21
Alignment explanation
Indices: 3092031--3092094 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
3092021 ATTATTTATT
* *
3092031 TAATAATAATAATATAATATAA
1 TAATAATAATAAAACAA-ATAA
*
3092053 TAATAATATTAAAACAAAATAA
1 TAATAATAATAAAAC-AAATAA
3092075 TAATAATAACTAAAACAAAT
1 TAATAATAA-TAAAACAAAT
3092095 GAAATAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 28 0.78
23 8 0.22
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TAATAATAATAAAACAAATAA
Found at i:3092351 original size:20 final size:20
Alignment explanation
Indices: 3092328--3092391 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
3092318 AGTTGAACAG
3092328 ATTCTTCTCATTATGAACTT
1 ATTCTTCTCATTATGAACTT
*
3092348 ATTCTTCTTCA-GATG-A---
1 ATTCTTC-TCATTATGAACTT
*
3092364 GTTCTTCTCATTATGAACTT
1 ATTCTTCTCATTATGAACTT
3092384 ATTCTTCT
1 ATTCTTCT
3092392 TCAGATGAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 9 0.26
17 1 0.03
19 1 0.03
20 17 0.50
21 3 0.09
ACGTcount: A:0.22, C:0.20, G:0.08, T:0.50
Consensus pattern (20 bp):
ATTCTTCTCATTATGAACTT
Found at i:3092369 original size:36 final size:36
Alignment explanation
Indices: 3092329--3092418 Score: 180
Period size: 36 Copynumber: 2.5 Consensus size: 36
3092319 GTTGAACAGA
3092329 TTCTTCTCATTATGAACTTATTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTATTCTTCTTCAGATGAG
3092365 TTCTTCTCATTATGAACTTATTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAACTTATTCTTCTTCAGATGAG
3092401 TTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAACT
3092419 CCTTCTGGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (36 bp):
TTCTTCTCATTATGAACTTATTCTTCTTCAGATGAG
Found at i:3092399 original size:20 final size:20
Alignment explanation
Indices: 3092340--3092399 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
3092330 TCTTCTCATT
3092340 ATGAACTTATTCTTCTTCAG
1 ATGAACTTATTCTTCTTCAG
* *
3092360 ATG-A---GTTCTTC-TCATT
1 ATGAACTTATTCTTCTTCA-G
3092376 ATGAACTTATTCTTCTTCAG
1 ATGAACTTATTCTTCTTCAG
3092396 ATGA
1 ATGA
3092400 GTTCTTCTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 12
0.65 0.09 0.26
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
17 1 0.03
19 1 0.03
20 13 0.43
21 3 0.10
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (20 bp):
ATGAACTTATTCTTCTTCAG
Found at i:3092610 original size:113 final size:113
Alignment explanation
Indices: 3092468--3092890 Score: 456
Period size: 113 Copynumber: 3.7 Consensus size: 113
3092458 ATAGAGTCAT
* ** *
3092468 GCAAAAGGTCGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
3092533 ATTATGAACTTTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCAA
66 ATTATGAACTCTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCAA
* * *
3092581 ACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * ** * * * *
3092646 ATTATGAACTCTAACTGGCACTGCTGATTCACCGAATGATGAATTCAA
66 ATTATGAACTCTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCAA
* * * * *
3092694 GCGAAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* ** **
3092759 ATTATGAACTCT-TCTGGAAAAGTTGATGTTGATCTATCTCTTTCTGTGAT-AGCGTCAA
66 ATTATGAACTCTATCTGG-AAA----A-GTTGATCCA--TC---GAGTGATGA-ATTCAA
* * *
3092817 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATT-CATCTTCAGATGAGCTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
3092881 ATTATGAACT
66 ATTATGAACT
3092891 TCATATGGAA
Statistics
Matches: 253, Mismatches: 45, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
112 4 0.02
113 167 0.66
118 6 0.02
120 1 0.00
122 30 0.12
123 45 0.18
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTATCTGGAAAAGTTGATCCATCGAGTGATGAATTCAA
Found at i:3092748 original size:24 final size:23
Alignment explanation
Indices: 3092713--3092757 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
3092703 TAAACAAGTT
3092713 CTTCTTATTATGAACTTCTTCTTC
1 CTTCTTATTATG-ACTTCTTCTTC
*
3092737 CTTCTTCA-TATGAGTTCTTCT
1 CTTCTT-ATTATGACTTCTTCT
3092758 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 10 0.53
25 1 0.05
ACGTcount: A:0.16, C:0.24, G:0.07, T:0.53
Consensus pattern (23 bp):
CTTCTTATTATGACTTCTTCTTC
Found at i:3092817 original size:123 final size:123
Alignment explanation
Indices: 3092690--3092927 Score: 334
Period size: 123 Copynumber: 1.9 Consensus size: 123
3092680 AATGATGAAT
* * * * * * *
3092690 TCAAGCGAAAGGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCT
1 TCAAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATT-CATCTTCAGATGAGCTCT
* * * *
3092755 TCTCATTATGAAC-TCTTCTGGAAAAGTTGATGTTGATCTATCTCTTTCTGTGATAGCG
65 TCTCATTATGAACTTCATATGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGCG
*
3092813 TCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCATCTTCAGATGAGCTCTT
1 TCAAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCATCTTCAGATGAGCTCTT
* *
3092878 CTCATTATGAACTTCATATGGAAATGTTGGTGCTGATCTATCTCCTTCTG
66 CTCATTATGAACTTCATATGGAAAAGTTGATGCTGATCTATCTCCTTCTG
3092928 GTAATGTTGA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 28 0.28
123 72 0.72
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (123 bp):
TCAAGCAAAAGGTTAAACAAATTCTTCTCATTATGAACTTCTTATTCATCTTCAGATGAGCTCTT
CTCATTATGAACTTCATATGGAAAAGTTGATGCTGATCTATCTCCTTCTGTGATAGCG
Found at i:3093335 original size:73 final size:73
Alignment explanation
Indices: 3093207--3093523 Score: 447
Period size: 73 Copynumber: 4.3 Consensus size: 73
3093197 GAGGTCTTAT
* *
3093207 CATCTTGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
3093272 TTTGA-AA
66 TTTGAGAA
* * *
3093279 GCATCATGCACTGTAGGTCTTACAGATGACCCTGAGGATTTAAGATCAAAATGCTCCTGAAGGCT
1 -CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCT
3093344 TTTTGAGAA
65 TTTTGAGAA
*
3093353 CATCATGCACTGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
3093418 TTTGAGAA
66 TTTGAGAA
* * * *
3093426 CATAATGCACTGTAGGTATTACAGATGACCCTGAGGGTTTTAAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGA-GGCTTT---AAGATCAAAAAGCTCCCGAAG
* *
3093491 GATTTTTGATAA
62 GCTTTTTGAGAA
* * *
3093503 CATCCTGCACTGCAGGGCTTA
1 CATCATGCACTGTAGGTCTTA
3093524 TGGATGTTGG
Statistics
Matches: 218, Mismatches: 21, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
73 165 0.76
74 7 0.03
77 46 0.21
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (73 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
TTTGAGAA
Found at i:3094182 original size:22 final size:22
Alignment explanation
Indices: 3094157--3094216 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
3094147 AATAAAGCTT
* *
3094157 TCATTTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATATA
* *
3094179 TCATCTTTAAAAAGATAATATA
1 TCATCTTTGAAAAGAGAATATA
3094201 TCATCTTTGAAAAGAG
1 TCATCTTTGAAAAGAG
3094217 TGTAGATGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:3098565 original size:9 final size:8
Alignment explanation
Indices: 3098547--3098602 Score: 76
Period size: 8 Copynumber: 6.5 Consensus size: 8
3098537 CTTGGTTCAA
3098547 TTTTTTCC
1 TTTTTTCC
3098555 TTTTTTCCC
1 TTTTTT-CC
3098564 TTTTTTCC
1 TTTTTTCC
3098572 TTTTTTCC
1 TTTTTTCC
3098580 TTTTTTTCTCC
1 --TTTTT-TCC
3098591 TTTTTTCC
1 TTTTTTCC
3098599 TTTT
1 TTTT
3098603 AATTTTTTTC
Statistics
Matches: 44, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
8 23 0.52
9 13 0.30
10 5 0.11
11 3 0.07
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTCC
Found at i:3098569 original size:17 final size:17
Alignment explanation
Indices: 3098547--3098602 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
3098537 CTTGGTTCAA
3098547 TTTTTTCCTTTTTTCCC
1 TTTTTTCCTTTTTTCCC
*
3098564 TTTTTTCCTTTTTTCCTT
1 TTTTTTCCTTTTTTCC-C
3098582 TTTTTCTCCTTTTTT-CC
1 TTTTT-TCCTTTTTTCCC
3098599 TTTT
1 TTTT
3098603 AATTTTTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
17 20 0.57
18 6 0.17
19 9 0.26
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTCCTTTTTTCCC
Found at i:3098611 original size:27 final size:25
Alignment explanation
Indices: 3098547--3098602 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 25
3098537 CTTGGTTCAA
*
3098547 TTTTTTCCTTTTTTCCCTTTTTTCC
1 TTTTTTCTTTTTTTCCCTTTTTTCC
3098572 TTTTTTCCTTTTTTTCTCCTTTTTTCC
1 TTTTTT-CTTTTTTTC-CCTTTTTTCC
3098599 TTTT
1 TTTT
3098603 AATTTTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 6 0.21
26 8 0.29
27 14 0.50
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTTTTCTTTTTTTCCCTTTTTTCC
Found at i:3101493 original size:7 final size:7
Alignment explanation
Indices: 3101459--3101500 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
3101449 ATAAGAGTAT
3101459 AAATGCA
1 AAATGCA
* *
3101466 CAATGAA
1 AAATGCA
3101473 AAATGCA
1 AAATGCA
3101480 AAGATGCA
1 AA-ATGCA
3101488 AAATGC-
1 AAATGCA
3101494 AAATGCA
1 AAATGCA
3101501 TGTATGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.55, C:0.14, G:0.17, T:0.14
Consensus pattern (7 bp):
AAATGCA
Found at i:3103001 original size:8 final size:8
Alignment explanation
Indices: 3102975--3103022 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
3102965 TTAATACTTG
3102975 AATAAAATA
1 AATAAAA-A
3102984 AATAAAAAA
1 AAT-AAAAA
3102993 AATAAAAA
1 AATAAAAA
*
3103001 AATAATAA
1 AATAAAAA
*
3103009 TATAAAAA
1 AATAAAAA
3103017 TAATAA
1 -AATAA
3103023 GTAATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 18 0.55
9 11 0.33
10 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AATAAAAA
Found at i:3103015 original size:14 final size:14
Alignment explanation
Indices: 3102993--3103032 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
3102983 AAATAAAAAA
*
3102993 AATAAAAAAATAAT
1 AATATAAAAATAAT
3103007 AATATAAAAATAAT
1 AATATAAAAATAAT
3103021 AAGTAATAAAAA
1 AA-T-ATAAAAA
3103033 ATTTGAAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 15 0.65
15 1 0.04
16 7 0.30
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (14 bp):
AATATAAAAATAAT
Found at i:3103015 original size:16 final size:18
Alignment explanation
Indices: 3102994--3103034 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
3102984 AATAAAAAAA
3102994 ATAAAAA-AATAA-TAAT
1 ATAAAAATAATAAGTAAT
3103010 ATAAAAATAATAAGTAAT
1 ATAAAAATAATAAGTAAT
3103028 A-AAAAAT
1 ATAAAAAT
3103035 TTGAAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.30
17 11 0.48
18 5 0.22
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAATAATAAGTAAT
Found at i:3103778 original size:2 final size:2
Alignment explanation
Indices: 3103771--3103822 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
3103761 ATTATTTAAA
3103771 AT AT AT AT AT AT AT AT AT AT AT AT AT 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 AT AT AT AT
3103813 AT AT AT AT AT
1 AT AT AT AT AT
3103823 TTATGTGACT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3103852 original size:17 final size:17
Alignment explanation
Indices: 3103832--3103865 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3103822 TTTATGTGAC
3103832 TAATATGAAAA-TAATAA
1 TAATAT-AAAAGTAATAA
3103849 TAATATAAAAGTAATAA
1 TAATATAAAAGTAATAA
3103866 CAAAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATATAAAAGTAATAA
Found at i:3103889 original size:16 final size:16
Alignment explanation
Indices: 3103868--3103903 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
3103858 AGTAATAACA
3103868 AAATAATATTTAAAAT
1 AAATAATATTTAAAAT
3103884 AAATAATATTTAAAAT
1 AAATAATATTTAAAAT
3103900 AAAT
1 AAAT
3103904 TTAAAAGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATATTTAAAAT
Found at i:3103905 original size:27 final size:28
Alignment explanation
Indices: 3103867--3103920 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
3103857 AAGTAATAAC
*
3103867 AAAATAATATTTAAAATAAATAATATTT
1 AAAATAATATTTAAAAGAAATAATATTT
*
3103895 AAAATAA-ATTTAAAAGCAATAATATT
1 AAAATAATATTTAAAAGAAATAATATT
3103921 AAATTGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATAATATTTAAAAGAAATAATATTT
Found at i:3109417 original size:7 final size:7
Alignment explanation
Indices: 3109405--3109432 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
3109395 TTATAAATAA
3109405 TATATAT
1 TATATAT
3109412 TATATAT
1 TATATAT
3109419 TATATAT
1 TATATAT
3109426 TATATAT
1 TATATAT
3109433 CAAATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TATATAT
Found at i:3109476 original size:13 final size:13
Alignment explanation
Indices: 3109458--3109482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3109448 TTTGGTTGAT
3109458 TCGGTTAATTCGG
1 TCGGTTAATTCGG
3109471 TCGGTTAATTCG
1 TCGGTTAATTCG
3109483 TTTAAAAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.28, T:0.40
Consensus pattern (13 bp):
TCGGTTAATTCGG
Found at i:3110320 original size:16 final size:16
Alignment explanation
Indices: 3110299--3110330 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3110289 ACTATTCACA
*
3110299 TGAATAGTGAATTTCG
1 TGAATAGTGAAATTCG
3110315 TGAATAGTGAAATTCG
1 TGAATAGTGAAATTCG
3110331 GTCGGCGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAATAGTGAAATTCG
Found at i:3116163 original size:75 final size:75
Alignment explanation
Indices: 3116040--3116190 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
3116030 TAATTGTCAT
3116040 GTTTGATATATAAATTGAGCTAAATGCTTTATCTGATATTAATAAAAGTTTTGTGATGATATGAT
1 GTTTGATATATAAATTGAGCTAAATGCTTTATCTGATATTAATAAAAGTTTTGTGATGATATGAT
3116105 AATGTAAATA
66 AATGTAAATA
3116115 GTTTGATATATAAATTGAGCTAAATGCTTTATCTGATATTAATAAAAGTTTTGTGATGATATGAT
1 GTTTGATATATAAATTGAGCTAAATGCTTTATCTGATATTAATAAAAGTTTTGTGATGATATGAT
3116180 AATGTAAATA
66 AATGTAAATA
3116190 G
1 G
3116191 CCATTTTCGT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (75 bp):
GTTTGATATATAAATTGAGCTAAATGCTTTATCTGATATTAATAAAAGTTTTGTGATGATATGAT
AATGTAAATA
Found at i:3116557 original size:11 final size:11
Alignment explanation
Indices: 3116541--3116620 Score: 79
Period size: 11 Copynumber: 7.0 Consensus size: 11
3116531 AAAACTTGAA
3116541 ATTCAAACTCG
1 ATTCAAACTCG
*
3116552 ATTCAAACTCA
1 ATTCAAACTCG
*
3116563 ATTCAAACTCA
1 ATTCAAACTCG
*
3116574 ATTCAAACTCA
1 ATTCAAACTCG
*
3116585 ATTGAAACTCAAG
1 ATTCAAACTC--G
*
3116598 AATTTAAACTCG
1 -ATTCAAACTCG
*
3116610 ATTCAAGCTCG
1 ATTCAAACTCG
3116621 TGGATTGTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
11 50 0.83
12 1 0.02
14 9 0.15
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (11 bp):
ATTCAAACTCG
Found at i:3116568 original size:22 final size:22
Alignment explanation
Indices: 3116540--3116596 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
3116530 TAAAACTTGA
*
3116540 AATTCAAACTCGATTCAAACTC
1 AATTCAAACTCAATTCAAACTC
3116562 AATTCAAACTCAATTCAAACTC
1 AATTCAAACTCAATTCAAACTC
*
3116584 AATTGAAACTCAA
1 AATTCAAACTCAA
3116597 GAATTTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.46, C:0.25, G:0.04, T:0.26
Consensus pattern (22 bp):
AATTCAAACTCAATTCAAACTC
Found at i:3118282 original size:7 final size:7
Alignment explanation
Indices: 3118267--3118334 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
3118257 CATAATCAGA
3118267 TTTAGGG
1 TTTAGGG
*
3118274 TTTATGG
1 TTTAGGG
* *
3118281 TTTATGT
1 TTTAGGG
3118288 TTTAGGG
1 TTTAGGG
**
3118295 TTTAGTT
1 TTTAGGG
3118302 TTTAGGG
1 TTTAGGG
***
3118309 TTTATAA
1 TTTAGGG
3118316 TTTAGGG
1 TTTAGGG
*
3118323 TTTAAGG
1 TTTAGGG
3118330 TTTAG
1 TTTAG
3118335 ACATTAATTA
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (7 bp):
TTTAGGG
Found at i:3118333 original size:28 final size:28
Alignment explanation
Indices: 3118267--3118334 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
3118257 CATAATCAGA
* * **
3118267 TTTAGGGTTTATGGTTTATGTTTTAGGG
1 TTTAAGGTTTAGGGTTTATAATTTAGGG
*
3118295 TTT-AGTTTTTAGGGTTTATAATTTAGGG
1 TTTAAG-GTTTAGGGTTTATAATTTAGGG
3118323 TTTAAGGTTTAG
1 TTTAAGGTTTAG
3118335 ACATTAATTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
27 1 0.03
28 29 0.91
29 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (28 bp):
TTTAAGGTTTAGGGTTTATAATTTAGGG
Found at i:3118393 original size:14 final size:14
Alignment explanation
Indices: 3118374--3118424 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
3118364 ATAAGGTAAG
*
3118374 TATGATTTAGGGTT
1 TATGATTTAGAGTT
3118388 TATGATTTAGAGTT
1 TATGATTTAGAGTT
* * *
3118402 TAGGGTTTATAGTT
1 TATGATTTAGAGTT
*
3118416 TAAGATTTA
1 TATGATTTA
3118425 TTGTTTATGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TATGATTTAGAGTT
Found at i:3118417 original size:21 final size:20
Alignment explanation
Indices: 3118379--3118447 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
3118369 GTAAGTATGA
3118379 TTTAGGGTTTATGATTTAGAG
1 TTTAGGGTTTATG-TTTAGAG
3118400 TTTAGGGTTTATAGTTTA-AG
1 TTTAGGGTTTAT-GTTTAGAG
** *
3118420 ATTTATTGTTTATGGTTA-AGG
1 -TTTAGGGTTTATGTTTAGA-G
3118441 TTTAGGG
1 TTTAGGG
3118448 CTCATTGTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 12 0.30
21 27 0.68
22 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (20 bp):
TTTAGGGTTTATGTTTAGAG
Done.