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 10 of 15
Found at i:2457042 original size:23 final size:23
Alignment explanation
Indices: 2456991--2457042 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
2456981 GGAATCAATA
*
2456991 CCCCCCTTGAAGGGGAACCGATT
1 CCCCCTTTGAAGGGGAACCGATT
2457014 CCCCCTTTGAAGGGGAACCGATT
1 CCCCCTTTGAAGGGGAACCGATT
2457037 CCCCCT
1 CCCCCT
2457043 GTAGGAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.38, G:0.23, T:0.19
Consensus pattern (23 bp):
CCCCCTTTGAAGGGGAACCGATT
Found at i:2464392 original size:17 final size:17
Alignment explanation
Indices: 2464367--2464400 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2464357 TAATTACTTC
*
2464367 GTTTTTTTATTACATAT
1 GTTTGTTTATTACATAT
2464384 GTTTGTTTATTACATAT
1 GTTTGTTTATTACATAT
2464401 ATCATGCCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.62
Consensus pattern (17 bp):
GTTTGTTTATTACATAT
Found at i:2466298 original size:44 final size:44
Alignment explanation
Indices: 2466250--2466387 Score: 170
Period size: 44 Copynumber: 3.1 Consensus size: 44
2466240 TTTGTAATAA
* * * *
2466250 AAAAACGCCGCTATATACCATACATTTT-GTGGTGTTTGTATCCT
1 AAAAATGCCGCTATATACCACAC-TTTTAGCGGCGTTTGTATCCT
*
2466294 AAAAATGCCACTATATACCACACTTTTAGCGGCGTTTGTATCCT
1 AAAAATGCCGCTATATACCACACTTTTAGCGGCGTTTGTATCCT
* * * * *
2466338 AAAAATGCCGCTATATACCAGACCTTTAGCAGCATTTGTATCCA
1 AAAAATGCCGCTATATACCACACTTTTAGCGGCGTTTGTATCCT
2466382 AAAAAT
1 AAAAAT
2466388 ACCACGAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 4 0.05
44 78 0.95
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (44 bp):
AAAAATGCCGCTATATACCACACTTTTAGCGGCGTTTGTATCCT
Found at i:2466640 original size:118 final size:118
Alignment explanation
Indices: 2466432--2466657 Score: 371
Period size: 118 Copynumber: 1.9 Consensus size: 118
2466422 GAAAACGCCG
* * *
2466432 CTATATATATACGCATTTTACGATGTTTGTGTGAAAAATGCCGCTAAAGGTATCGTATATAGCGG
1 CTATATACATACACATTTTACGATGTTTGTGTGAAAAATGCCACTAAAGGTATCGTATATAGCGG
**
2466497 CATTTTTAGGATACACATGCCGCAAAATGTATGGTATATAGCGGTGTTTTTCT
66 CATTTTTAGGATACACACACCGCAAAATGTATGGTATATAGCGGTGTTTTTCT
* *
2466550 CTATATACATACACATTTTACGATGTTTGTGTGAAAAATGCCACTAAAGGTCTCGTATATAGTGG
1 CTATATACATACACATTTTACGATGTTTGTGTGAAAAATGCCACTAAAGGTATCGTATATAGCGG
* *
2466615 CGTTTTTAGGATACATACACCGCAAAATGTATGGTATATAGCG
66 CATTTTTAGGATACACACACCGCAAAATGTATGGTATATAGCG
2466658 ACGTTTGTGA
Statistics
Matches: 99, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (118 bp):
CTATATACATACACATTTTACGATGTTTGTGTGAAAAATGCCACTAAAGGTATCGTATATAGCGG
CATTTTTAGGATACACACACCGCAAAATGTATGGTATATAGCGGTGTTTTTCT
Found at i:2466766 original size:43 final size:43
Alignment explanation
Indices: 2466670--2466784 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
2466660 GTTTGTGAGA
* *
2466670 AAAACGCCGCTAAATATCAACACCTATTACGACATTTTTAGGG
1 AAAACGCCGCTAAATATCAACACCTATTGCGACATTTATAGGG
* ** * * *
2466713 AAAACACCGCTAAACCTTAACACCTATTGCGGCGTTTATA-GG
1 AAAACGCCGCTAAATATCAACACCTATTGCGACATTTATAGGG
2466755 ACAAACGCCGCTAAATATCAACACCTATTG
1 A-AAACGCCGCTAAATATCAACACCTATTG
2466785 TGGTGTTTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 3 0.05
43 56 0.95
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (43 bp):
AAAACGCCGCTAAATATCAACACCTATTGCGACATTTATAGGG
Found at i:2471134 original size:28 final size:28
Alignment explanation
Indices: 2471094--2471150 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
2471084 CTGTCCATTT
* *
2471094 ACATTATGCCATTGAGTCAGTGCTTGAA
1 ACATTATACCATTGAGCCAGTGCTTGAA
2471122 ACATTATACCATTGAGCCAGTGCTTGAA
1 ACATTATACCATTGAGCCAGTGCTTGAA
2471150 A
1 A
2471151 GCAATGACAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (28 bp):
ACATTATACCATTGAGCCAGTGCTTGAA
Found at i:2472605 original size:40 final size:41
Alignment explanation
Indices: 2472561--2472647 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 41
2472551 ATATAAATGT
* * * * *
2472561 CTTTAGCGGCATTTTTAT-ATAAACGCTGCTAAATATTGTA
1 CTTTAGCGGCATTTTAATCACAAACACCGCTAAATATTATA
* **
2472601 CTTTAGTGGTGTTTTAATCACAAACACCGCTAAATATTATA
1 CTTTAGCGGCATTTTAATCACAAACACCGCTAAATATTATA
2472642 CTTTAG
1 CTTTAG
2472648 TGGTCTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 14 0.37
41 24 0.63
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (41 bp):
CTTTAGCGGCATTTTAATCACAAACACCGCTAAATATTATA
Found at i:2472753 original size:16 final size:16
Alignment explanation
Indices: 2472717--2472757 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2472707 AATTTCATCC
2472717 TTATA-TTATATAATA
1 TTATATTTATATAATA
2472732 TATATATTTATTATAA-A
1 T-TATATTTA-TATAATA
2472749 TTATATTTA
1 TTATATTTA
2472758 CATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 12 0.52
17 5 0.22
18 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTTATATAATA
Found at i:2473764 original size:20 final size:19
Alignment explanation
Indices: 2473729--2473769 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
2473719 TAACTATCTT
2473729 TTTATATTACATTATAATA
1 TTTATATTACATTATAATA
* *
2473748 TTTATATATATATTATATTA
1 TTTATAT-TACATTATAATA
2473768 TT
1 TT
2473770 ATTAGTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATTACATTATAATA
Found at i:2473851 original size:18 final size:17
Alignment explanation
Indices: 2473830--2473873 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
2473820 CTTATACGTT
2473830 TTATTATATATATATATA
1 TTATTAT-TATATATATA
*
2473848 TTATTATTGT-TAT-TA
1 TTATTATTATATATATA
2473863 TTATTATTATA
1 TTATTATTATA
2473874 CGTATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 2 0.09
18 7 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
TTATTATTATATATATA
Found at i:2473852 original size:3 final size:3
Alignment explanation
Indices: 2473830--2473872 Score: 50
Period size: 3 Copynumber: 13.3 Consensus size: 3
2473820 CTTATACGTT
*
2473830 TTA TTA TATA TATA TATA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA T
2473873 ACGTATATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 26 0.70
4 11 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2473873 original size:48 final size:51
Alignment explanation
Indices: 2473788--2473898 Score: 124
Period size: 46 Copynumber: 2.2 Consensus size: 51
2473778 TTTACACTCG
*
2473788 TATATATGTATTATTAGTATAGTATTATGTCACTTATACGTTTTATTATATATA
1 TATATAT-TATTATTAGTATAGTATTATGTCACTTATACG-TATA-TATATATA
* *
2473842 TATATATTATTATT-GT-TATTATTAT-T-A-TTATACGTATATATATGTA
1 TATATATTATTATTAGTATAGTATTATGTCACTTATACGTATATATATATA
*
2473888 TATATTTTATT
1 TATATATTATT
2473899 TCTTTTTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
46 17 0.32
47 3 0.06
48 7 0.13
49 1 0.02
50 1 0.02
51 8 0.15
52 2 0.04
53 7 0.13
54 7 0.13
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (51 bp):
TATATATTATTATTAGTATAGTATTATGTCACTTATACGTATATATATATA
Found at i:2485148 original size:1 final size:1
Alignment explanation
Indices: 2485142--2485166 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2485132 TCCTAAGTTG
2485142 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2485167 GAAGAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2486185 original size:105 final size:105
Alignment explanation
Indices: 2485904--2486713 Score: 1496
Period size: 105 Copynumber: 7.8 Consensus size: 105
2485894 GGTTTTACCC
*
2485904 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2485969 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTC-AATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
*
2486008 AAAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2486073 CGAAGGGACCGCTGGTTGTCACTAAACATTTCTCAAATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
2486113 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486178 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
2486218 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486283 CGAAGGGACCGCTGGTTGTCACCAAACA-TT-TCAAATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
2486321 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486386 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
2486426 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486491 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
*
2486531 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486596 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTC-AATTT
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
* *
2486635 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAGGTTC-A--T---GA
1 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
2486694 CGAAGGGACCGCTGGTTGTC
66 CGAAGGGACCGCTGGTTGTC
2486714 GATAAACAAT
Statistics
Matches: 696, Mismatches: 7, Indels: 12
0.97 0.01 0.02
Matches are distributed among these distances:
98 22 0.03
101 1 0.00
103 102 0.15
104 159 0.23
105 412 0.59
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (105 bp):
AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
Found at i:2486473 original size:313 final size:314
Alignment explanation
Indices: 2485904--2486713 Score: 1517
Period size: 313 Copynumber: 2.6 Consensus size: 314
2485894 GGTTTTACCC
2485904 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2485969 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAAAGCCAATTTCAACTTCACAGCGAA
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAGAGCCAATTTCAACTTCACAGCGAA
*
2486034 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACTAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAA
2486099 CATTTCTCAAATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
196 CATTTCTCAAATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
2486164 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
261 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
*
2486218 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2486283 CGAAGGGACCGCTGGTTGTCACCAAACATTTC-AAATTTAGAGCCAATTTCAACTTCACAGCGAA
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAGAGCCAATTTCAACTTCACAGCGAA
2486347 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAA
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAA
2486412 CATTTCTCAAATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
196 CATTTCTCAAATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
2486477 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
261 GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
2486531 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
2486596 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAGAGCCAATTTCAACTTCACAACGAA
66 CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAGAGCCAATTTCAACTTCACAGCGAA
*
2486661 GGATATTGGACTCCAGACAACGCAGGTTC-A--T---GACGAAGGGACCGCTGGTTGTC
131 GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
2486714 GATAAACAAT
Statistics
Matches: 487, Mismatches: 8, Indels: 8
0.97 0.02 0.02
Matches are distributed among these distances:
308 22 0.05
311 1 0.00
313 310 0.64
314 154 0.32
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (314 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAATTTAGAGCCAATTTCAACTTCACAGCGAA
GGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAA
CATTTCTCAAATTTAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAA
GTTCAACTTCACGACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCAAATTT
Found at i:2486819 original size:20 final size:20
Alignment explanation
Indices: 2486794--2486835 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2486784 CCAGAACTCT
*
2486794 GAGTTCGACTTCGACTTCAC
1 GAGTTCGACTTCAACTTCAC
* *
2486814 GAGTTCGATTTCAATTTCAC
1 GAGTTCGACTTCAACTTCAC
2486834 GA
1 GA
2486836 CGAAGGATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (20 bp):
GAGTTCGACTTCAACTTCAC
Found at i:2488086 original size:11 final size:12
Alignment explanation
Indices: 2488045--2488087 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
2488035 TAACTATCTT
*
2488045 TATATTACATTA
1 TATATTATATTA
2488057 TATATTATATATA
1 TATATTATAT-TA
2488070 TATATTATATTA
1 TATATTATATTA
2488082 T-TATTA
1 TATATTA
2488088 GTGTTTTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 5 0.17
12 12 0.41
13 12 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
TATATTATATTA
Found at i:2488155 original size:5 final size:5
Alignment explanation
Indices: 2488145--2488199 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
2488135 TTATACGTTT
2488145 TTATA TTATA -TATA TTATA TTATA TTATTA TTATA CGTATATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTA-TA TTATA --T-TATA TTATA
*
2488193 TTTTA TT
1 TTATA TT
2488200 CTTTTTATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 1 0.02
8 4 0.09
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (5 bp):
TTATA
Found at i:2488185 original size:29 final size:29
Alignment explanation
Indices: 2488153--2488209 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
2488143 TTTTATATTA
2488153 TATATATTATATTATATTATTATTATACG
1 TATATATTATATTATATTATTATTATACG
* * *
2488182 TATATATTATATTTTATTCTTTTTATAC
1 TATATATTATATTATATTATTATTATAC
2488210 TATTTTACCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (29 bp):
TATATATTATATTATATTATTATTATACG
Found at i:2488189 original size:16 final size:15
Alignment explanation
Indices: 2488145--2488191 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
2488135 TTATACGTTT
*
2488145 TTATATTATATA-TA
1 TTATAGTATATATTA
*
2488159 TTATATTATATTATTA
1 TTATAGTATA-TATTA
2488175 TTATACGTATATATTA
1 TTATA-GTATATATTA
2488191 T
1 T
2488192 ATTTTATTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 10 0.34
15 2 0.07
16 13 0.45
17 4 0.14
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTATAGTATATATTA
Found at i:2488215 original size:19 final size:19
Alignment explanation
Indices: 2488191--2488252 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2488181 GTATATATTA
2488191 TATTTTATTCTTTTTATAC
1 TATTTTATTCTTTTTATAC
* **
2488210 TATTTTA-CCATTTTTATTT
1 TATTTTATTC-TTTTTATAC
*
2488229 TATTATTATTATTCTTTATAC
1 TATT-TTATTCTT-TTTATAC
2488250 TAT
1 TAT
2488253 CCTTATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.03
19 18 0.56
20 5 0.16
21 8 0.25
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (19 bp):
TATTTTATTCTTTTTATAC
Found at i:2488258 original size:21 final size:24
Alignment explanation
Indices: 2488234--2488285 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 24
2488224 TATTTTATTA
2488234 TTATTATTCT-TTA-TACTA-TCC
1 TTATTATTCTATTATTACTATTCC
*
2488255 TTA-T-TTCTATTATTACTATTCT
1 TTATTATTCTATTATTACTATTCC
2488277 TTATTATTC
1 TTATTATTC
2488286 ATGTAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 4 0.16
20 4 0.16
21 8 0.32
22 5 0.20
23 1 0.04
24 3 0.12
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTATTCTATTATTACTATTCC
Found at i:2488612 original size:20 final size:22
Alignment explanation
Indices: 2488587--2488630 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
2488577 TCTTCATTAA
2488587 TTATTTATTC-CACTTTTA-TT
1 TTATTTATTCTCACTTTTACTT
*
2488607 TTATTTATTCTCCCTTTTACTT
1 TTATTTATTCTCACTTTTACTT
2488629 TT
1 TT
2488631 TACTATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 7 0.33
22 4 0.19
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (22 bp):
TTATTTATTCTCACTTTTACTT
Found at i:2488651 original size:19 final size:18
Alignment explanation
Indices: 2488629--2488683 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 18
2488619 CCTTTTACTT
2488629 TTTACTATTATTATTATTA
1 TTTA-TATTATTATTATTA
2488648 TTTAT-TTATGCTATTA-TA
1 TTTATATTAT--TATTATTA
*
2488666 -TTATATTTTTATTATTA
1 TTTATATTATTATTATTA
2488683 T
1 T
2488684 ATTCGTGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 11
0.71 0.02 0.26
Matches are distributed among these distances:
16 5 0.17
17 10 0.33
18 6 0.20
19 9 0.30
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:2488684 original size:19 final size:19
Alignment explanation
Indices: 2488634--2488686 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 19
2488624 TACTTTTTAC
2488634 TATTATTATTATTATTTATT
1 TATTATTA-TATTATTTATT
2488654 TATGCTATTATATTATATT-TT
1 TAT--TATTATATTAT-TTATT
2488675 TATTATTATATT
1 TATTATTATATT
2488687 CGTGTATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 9 0.30
20 3 0.10
21 11 0.37
22 7 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TATTATTATATTATTTATT
Found at i:2489225 original size:169 final size:171
Alignment explanation
Indices: 2489025--2489366 Score: 670
Period size: 170 Copynumber: 2.0 Consensus size: 171
2489015 TATACATTGT
2489025 TTTTTATATTATTTCGTTTGTCCGCCTTA-TTTTCTATTTTATTACTTTCATTACCTAACCCTTT
1 TTTTTATATTATTTCGTTTGTCCGCCTTATTTTTCTATTTTATTACTTTCATTACCTAACCCTTT
2489089 CCTTGCCTTTTTGAGAGAACTTCAAGCAATCAGTGGTAAGCAATTTGGATCAATATTTTACCTTT
66 CCTTGCCTTTTTGAGAGAACTTCAAGCAATCAGTGGTAAGCAATTTGGATCAATATTTTACCTTT
2489154 TAATTTAACTTTCAATTTTCTTAATTAAAGACAACTGGAAA
131 TAATTTAACTTTCAATTTTCTTAATTAAAGACAACTGGAAA
2489195 TTTTTATATTA-TTCGTTTGTCCGCCTTATTTTTCTATTTTATTACTTTCATTACCTAACCCTTT
1 TTTTTATATTATTTCGTTTGTCCGCCTTATTTTTCTATTTTATTACTTTCATTACCTAACCCTTT
2489259 CCTTGCCTTTTTGAGAGAACTTCAAGCAATCAGTGGTAAGCAATTTGGATCAATATTTTACCTTT
66 CCTTGCCTTTTTGAGAGAACTTCAAGCAATCAGTGGTAAGCAATTTGGATCAATATTTTACCTTT
2489324 TAATTTAACTTTCAATTTTCTTAATTAAAGACAACTGGAAA
131 TAATTTAACTTTCAATTTTCTTAATTAAAGACAACTGGAAA
2489365 TT
1 TT
2489367 ACACAGTACC
Statistics
Matches: 171, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
169 17 0.10
170 154 0.90
ACGTcount: A:0.27, C:0.18, G:0.10, T:0.46
Consensus pattern (171 bp):
TTTTTATATTATTTCGTTTGTCCGCCTTATTTTTCTATTTTATTACTTTCATTACCTAACCCTTT
CCTTGCCTTTTTGAGAGAACTTCAAGCAATCAGTGGTAAGCAATTTGGATCAATATTTTACCTTT
TAATTTAACTTTCAATTTTCTTAATTAAAGACAACTGGAAA
Found at i:2492449 original size:21 final size:21
Alignment explanation
Indices: 2492393--2492451 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
2492383 TGATTTATTA
*
2492393 TTATGGATTTCAAGCTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
2492414 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
2492435 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
2492452 ATTGGATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.20, C:0.08, G:0.22, T:0.49
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:2492721 original size:44 final size:44
Alignment explanation
Indices: 2492673--2492760 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
2492663 TTTTACATTC
*
2492673 ACAAACGCCACTATATGGCACAACATTTGGCGGCATTTTTGGGA
1 ACAAACGCCACTATATGGCACAACATTTAGCGGCATTTTTGGGA
* * * * * **
2492717 ACAAACGTCATTATATGTCATAATATTTAGCGGTGTTTTTGGGA
1 ACAAACGCCACTATATGGCACAACATTTAGCGGCATTTTTGGGA
2492761 TAAAACACCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (44 bp):
ACAAACGCCACTATATGGCACAACATTTAGCGGCATTTTTGGGA
Found at i:2496055 original size:12 final size:12
Alignment explanation
Indices: 2496040--2496065 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2496030 ATCTTATTTT
2496040 TTATCTTCATAA
1 TTATCTTCATAA
2496052 TTATCTTCATAA
1 TTATCTTCATAA
2496064 TT
1 TT
2496066 GAAGTCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATCTTCATAA
Found at i:2496156 original size:44 final size:44
Alignment explanation
Indices: 2496098--2496251 Score: 152
Period size: 43 Copynumber: 3.5 Consensus size: 44
2496088 TATTTTTTCT
2496098 CTTTATAATTGAGGCCCCTAATTTTTGT-AATCTCA-TTTATATAC
1 CTTTATAATTGAGGCCCCTAATTTTTGTCAATCTCACTTT-T-TAC
* ** *
2496142 CTTTATAATAGAGGCCTTTAATTTTTTTTTCAATCTCACTTTTTAC
1 CTTTATAATTGAGGCCCCTAA--TTTTTGTCAATCTCACTTTTTAC
* * ** *
2496188 ATTTATAATTGAGACCCCTAATTTTT-TCAATCAAACTTTTTAT
1 CTTTATAATTGAGGCCCCTAATTTTTGTCAATCTCACTTTTTAC
* *
2496231 ATTTATAATTTAGGCCCCTAA
1 CTTTATAATTGAGGCCCCTAA
2496252 CTTCATTATT
Statistics
Matches: 92, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
43 33 0.36
44 23 0.25
46 25 0.27
47 8 0.09
48 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (44 bp):
CTTTATAATTGAGGCCCCTAATTTTTGTCAATCTCACTTTTTAC
Found at i:2505515 original size:3 final size:3
Alignment explanation
Indices: 2505498--2505594 Score: 162
Period size: 3 Copynumber: 32.7 Consensus size: 3
2505488 CCACATAAAG
2505498 AAT AA- AAT GAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
2505543 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2505590 AAT AA
1 AAT AA
2505595 ATGAATTAAT
Statistics
Matches: 89, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
2 4 0.04
3 82 0.92
4 3 0.03
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2508674 original size:23 final size:23
Alignment explanation
Indices: 2508648--2508692 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2508638 ATACCCCAAT
* *
2508648 CGAACCGTTAACCTGACCTGACC
1 CGAACCATTAACCCGACCTGACC
*
2508671 CGAACTATTAACCCGACCTGAC
1 CGAACCATTAACCCGACCTGAC
2508693 TCATTAGTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.38, G:0.16, T:0.18
Consensus pattern (23 bp):
CGAACCATTAACCCGACCTGACC
Found at i:2515757 original size:22 final size:23
Alignment explanation
Indices: 2515721--2515765 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
2515711 GCATGACATT
2515721 GTACATAGATGTTTTATACATCAA
1 GTACATAGA-GTTTTATACATCAA
2515745 GTACATAGA-TTTTATACATCA
1 GTACATAGAGTTTTATACATCA
2515766 TCAGGAAGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (23 bp):
GTACATAGAGTTTTATACATCAA
Found at i:2520324 original size:11 final size:11
Alignment explanation
Indices: 2520310--2520336 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
2520300 ATATAAAGTT
2520310 AAGATAATCTC
1 AAGATAATCTC
2520321 AAGATAATCTC
1 AAGATAATCTC
2520332 AAGAT
1 AAGAT
2520337 GGCATCTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (11 bp):
AAGATAATCTC
Found at i:2529155 original size:93 final size:91
Alignment explanation
Indices: 2528892--2529195 Score: 331
Period size: 93 Copynumber: 3.3 Consensus size: 91
2528882 GCAATCAATA
* * ** * * * *
2528892 AACTTATCCAAGTTTTTACATTAATGCATTAAAGTTTCAATAGCGTTAAAATGTCTTAAGTAAAT
1 AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAGAGTTGAAATGTCTTAACTAAAT
***
2528957 ACTTATATGTTTACAGAATACTTAGGTT
66 ACTT-TATGTTTAC-GAATAAAGAGGTT
2528985 AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAGTA-TTGAAATGTCTTAACTAAA
1 AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAG-AGTTGAAATGTCTTAACTAAA
* * *
2529049 CACTTTTATGTTTACGTATTAAGGAGGTT
65 TAC-TTTATGTTTACG-AATAAAGAGGTT
* *
2529078 AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAGAGTTGAAATTTCTCAACTAAAT
1 AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAGAGTTGAAATGTCTTAACTAAAT
* * *
2529143 AGTTTGAAGTTTACAAACTAAAGAGGTT
66 ACTTT-ATGTTTACGAA-TAAAGAGGTT
** * *
2529171 AACTTATTTATGTTGTTACAATAAT
1 AACTTATCCAAGTTGTTACATTAAT
2529196 AGATTGCATA
Statistics
Matches: 180, Mismatches: 25, Indels: 12
0.83 0.12 0.06
Matches are distributed among these distances:
92 6 0.03
93 172 0.96
94 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (91 bp):
AACTTATCCAAGTTGTTACATTAATGGATGGAAGTTTAAATAGAGTTGAAATGTCTTAACTAAAT
ACTTTATGTTTACGAATAAAGAGGTT
Found at i:2529508 original size:92 final size:91
Alignment explanation
Indices: 2529198--2529622 Score: 260
Period size: 92 Copynumber: 4.6 Consensus size: 91
2529188 ACAATAATAG
* * * * * * **
2529198 ATTGCATAAGCTAACCTCCTTAGTTCGTAAGCATCAAACTGTTTAGTTAATACATTT-AAGAGCT
1 ATTGGATAAGTTAACCTCTTTAGTTTGTAAACATCAAACTGTTTAGTTAAAACATTTCATCA-CT
* * *
2529262 ATTCAAAATTCCATTTATCAATGTAACA
65 ATTCAAACTTCCA-TTATTAATGAAACA
* * * * * *
2529290 ACTTGGTTAAGTTAACCTCTTTACTTCGTAAACATCAAACTGTTTAGTTTAGATATTTCAATGC-
1 A-TTGGATAAGTTAACCTCTTTAGTTTGTAAACATCAAACTGTTTAGTTAAAACATTTC-AT-CA
* * *
2529354 C-ATTAAAACTTCCATAATGAATATGATAAC-
63 CTATTCAAACTTCCATTAT-TA-ATGA-AACA
* * ** *
2529384 -TTGGATAAGTTAAGCTCCTT-GCCCCT-TAAACATCAAAGTGTTTAGTTAAAACATTTCATCAC
1 ATTGGATAAGTTAACCTCTTTAG--TTTGTAAACATCAAACTGTTTAGTTAAAACATTTCATCAC
*
2529446 TATTCAAACTTCCATCCATTAATGAAACA
64 TATTCAAACTTCCAT-TATTAATGAAACA
* *
2529475 ATTGGATAAGTTAACCTCTTTAGTTTGTGAACATC-AAC-GAATTTAGTTAAGAA-ATTTTAAT-
1 ATTGGATAAGTTAACCTCTTTAGTTTGTAAACATCAAACTG--TTTAGTTAA-AACA-TTTCATC
** * *
2529536 GTTATTCAAACTTCCATGTATTAATGTAGCA
62 ACTATTCAAACTTCCAT-TATTAATGAAACA
* * * * * * * *
2529567 ACTTCGATATGCTAATCTCTTTATTTTATAAACATCAAAATGTTTAGTTAATACAT
1 A-TTGGATAAGTTAACCTCTTTAGTTTGTAAACATCAAACTGTTTAGTTAAAACAT
2529623 GTTGAGTTAA
Statistics
Matches: 257, Mismatches: 52, Indels: 48
0.72 0.15 0.13
Matches are distributed among these distances:
90 5 0.02
91 10 0.04
92 125 0.49
93 106 0.41
94 6 0.02
95 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (91 bp):
ATTGGATAAGTTAACCTCTTTAGTTTGTAAACATCAAACTGTTTAGTTAAAACATTTCATCACTA
TTCAAACTTCCATTATTAATGAAACA
Found at i:2531824 original size:93 final size:93
Alignment explanation
Indices: 2531692--2532073 Score: 332
Period size: 93 Copynumber: 4.1 Consensus size: 93
2531682 ATTTAAATGA
* * * * * * *
2531692 TATTCAAACTTTAATCCATTAACGGAA-AGCTTTGATAAGTAAAGCTATTTAGTTCTTAAACATC
1 TATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTATTTAGTTCTTAAACATC
* *
2531756 AAAGTGTTTGGTTAAGACATTTCAATGC
66 AAAGTGTTTAGTTAAGACATTTCAACGC
* * * * * *
2531784 TATTAAAACTTTCATCTATCAATGTAAGAACTTGGATAAGTTAA--TATCTACCGCTT-GTAAAC
1 TATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTATTTA--G-TTCTTAAAC
*
2531846 ATCAAAGTGTTTAGTTAAGACATTTGAACGC
63 ATCAAAGTGTTTAGTTAAGACATTTCAACGC
* * * ** **
2531877 TATTCAAACTTCCATCCATTACA-GTAACAACTTGCATAAGGTAACCCCTTTA-ACCTTTAAACA
1 TATTCAAACTTTCATCCATTA-ATGTAACAACTTGGATAAGTTAACCTATTTAGTTC-TTAAACA
* *
2531940 TCAAAGTTTTTAGTTAA-ACTATTTCTACGC
64 TCAAAGTGTTTAGTTAAGAC-ATTTCAACGC
*
2531970 TATTCAAAC-TTCTATCCATTAATGTAACAACTTGGATAAGTTAACCTCTTTAG-TCTATAAACA
1 TATTCAAACTTTC-ATCCATTAATGTAACAACTTGGATAAGTTAACCTATTTAGTTCT-TAAACA
* * * * * * *
2532033 TAAAAGTGATTGGTTAAGAAATTTTAATGA
64 TCAAAGTGTTTAGTTAAGACATTTCAACGC
2532063 TATTCAAACTT
1 TATTCAAACTT
2532074 CAATACGTGG
Statistics
Matches: 230, Mismatches: 44, Indels: 30
0.76 0.14 0.10
Matches are distributed among these distances:
91 5 0.02
92 27 0.12
93 190 0.83
94 5 0.02
95 3 0.01
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (93 bp):
TATTCAAACTTTCATCCATTAATGTAACAACTTGGATAAGTTAACCTATTTAGTTCTTAAACATC
AAAGTGTTTAGTTAAGACATTTCAACGC
Found at i:2532033 original size:186 final size:172
Alignment explanation
Indices: 2531909--2532221 Score: 409
Period size: 172 Copynumber: 1.8 Consensus size: 172
2531899 AGTAACAACT
* *
2531909 TGCATAAGGTAACC-CCTTTAACCTTTAAACATCAAAGTTTTTAGTTAA-ACTATTTCTACGCTA
1 TGCATAAGGTAACCTCATTTAACCCTTAAACATCAAAGTTTTTAGTTAAGAC-ATTTC-ACGCTA
* *
2531972 TTCAAACTTCTATCCATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCTATAAACATAAA
64 TTCAAACTTCTATCCATTAATGTAACAACTTGGATAAGTTAAACTCTTTAGTCTATAAACATCAA
* * *
2532037 AGTGATTGGTTAAGAAATTTTAATGATATTCAAACTTCAATACG
129 AGTGATTAGTTAAGAAATTTGAACGATATTCAAACTTCAATACG
* * ** *
2532081 TGGATAAGTTAACCTCATTTCTCCCTT-AATATCAAAG-TTTTAGGTTAAGACATTTCATCGCTA
1 TGCATAAGGTAACCTCATTTAACCCTTAAACATCAAAGTTTTTA-GTTAAGACATTTCA-CGCTA
* * *
2532144 TTCAAACTTCCATCCATTAATGGAACAACTTGGATAAGTTAAACTCTTTAGTCCATAAACATCAA
64 TTCAAACTTCTATCCATTAATGTAACAACTTGGATAAGTTAAACTCTTTAGTCTATAAACATCAA
* *
2532209 AGTGCTTACTTAA
129 AGTGATTAGTTAA
2532222 TAAGTTTAAA
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
171 6 0.05
172 106 0.87
173 10 0.08
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (172 bp):
TGCATAAGGTAACCTCATTTAACCCTTAAACATCAAAGTTTTTAGTTAAGACATTTCACGCTATT
CAAACTTCTATCCATTAATGTAACAACTTGGATAAGTTAAACTCTTTAGTCTATAAACATCAAAG
TGATTAGTTAAGAAATTTGAACGATATTCAAACTTCAATACG
Found at i:2533416 original size:17 final size:17
Alignment explanation
Indices: 2533314--2533419 Score: 65
Period size: 17 Copynumber: 6.1 Consensus size: 17
2533304 AATTAATATT
* *
2533314 TAGTTTAATAAATTAAC
1 TAGTTTAATCAATGAAC
* * *
2533331 TAGTTTGATGAATGAAA
1 TAGTTTAATCAATGAAC
*
2533348 TAGTTTAATTAATGAAC
1 TAGTTTAATCAATGAAC
* *
2533365 TAACTTTACA-CAATAAAC
1 T-AGTTTA-ATCAATGAAC
*
2533383 T--TGTAATCTTGAATGAAC
1 TAGTTTAATC---AATGAAC
2533401 TAGTTTAATCAATGAAC
1 TAGTTTAATCAATGAAC
2533418 TA
1 TA
2533420 CTTAGTTAAC
Statistics
Matches: 68, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
14 1 0.01
15 4 0.06
17 37 0.54
18 19 0.28
19 1 0.01
20 6 0.09
ACGTcount: A:0.42, C:0.09, G:0.11, T:0.37
Consensus pattern (17 bp):
TAGTTTAATCAATGAAC
Found at i:2537210 original size:138 final size:138
Alignment explanation
Indices: 2536962--2537221 Score: 362
Period size: 138 Copynumber: 1.9 Consensus size: 138
2536952 TAAATTGTAT
* *
2536962 ATAAAAGTTATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTTGTATCAGTACTATGTCTA
1 ATAAAAGTTATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGTACTATATCTA
* * * *
2537027 CTTTTAGCACTAGATGTGCAAGCATGGTATTCATAACGAGTTTGTGAATTACCATTTTGATATAC
66 CTTTCAGCACTAGATGTGCAACCATGGAATTCATAACAAGTTTGTGAATTACCATTTTGATATAC
2537092 AATTATGA
131 AATTATGA
* * * *
2537100 ATAAAAGTTATCGATCGATTTTTTTTAATGTATAACGGTGCATTTTCGTATCAGTACTATATGTA
1 ATAAAAGTTATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGTACTATATCTA
* * * *
2537165 CTTTCGGCACT--ATGTAGGCATCCATGGAATTCATAATAAGTTTGTGAATTTCCATTT
66 CTTTCAGCACTAGATGT--GCAACCATGGAATTCATAACAAGTTTGTGAATTACCATTT
2537222 CGTCACTTCG
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
136 4 0.04
138 102 0.96
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (138 bp):
ATAAAAGTTATCGATCGATTTTGTTTAATGCATAACAGTGCATTTTCGTATCAGTACTATATCTA
CTTTCAGCACTAGATGTGCAACCATGGAATTCATAACAAGTTTGTGAATTACCATTTTGATATAC
AATTATGA
Found at i:2544353 original size:138 final size:137
Alignment explanation
Indices: 2544087--2544370 Score: 383
Period size: 138 Copynumber: 2.1 Consensus size: 137
2544077 TCAAAGGTGT
* * ***
2544087 ATTTCGACATAAATTGTATATAAAAGTTATCGATCGATTTTGTTTAATACATAATGGTGCATTTT
1 ATTTCGATATAAATTATATATAAAAGTTATCGATCGATTTTGTTTAATACATAACAATGCATTTT
* * * *
2544152 CGTATCAGTACTATGCGTACTTTTAGTACTAGATGTGCAATCATGGTTTTCATAATTAGTTTGTG
66 CGTATCAGTACTATACGTACTTTCAGTACTAGATGTGCAATCATGGTATTCATAATGAGTTTGTG
2544217 AATTTCC
131 AATTTCC
* * *
2544224 ATTTCGATATACAATTATGTATAAAAGTTATCGATCGATTTTTTTTAATGCATAACAATGCATTT
1 ATTTCGATATA-AATTATATATAAAAGTTATCGATCGATTTTGTTTAATACATAACAATGCATTT
* * * *
2544289 TCGTATCAGTACTATATGTACTTTCGGTACTATATGTGC-ATCCAT-GTAATTCATAATGGGTTT
65 TCGTATCAGTACTATACGTACTTTCAGTACTAGATGTGCAAT-CATGGT-ATTCATAATGAGTTT
2544352 GTGAATTTCC
128 GTGAATTTCC
2544362 ATTTCGATA
1 ATTTCGATA
2544371 CTTAGGTGCA
Statistics
Matches: 128, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
137 14 0.11
138 114 0.89
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (137 bp):
ATTTCGATATAAATTATATATAAAAGTTATCGATCGATTTTGTTTAATACATAACAATGCATTTT
CGTATCAGTACTATACGTACTTTCAGTACTAGATGTGCAATCATGGTATTCATAATGAGTTTGTG
AATTTCC
Found at i:2550916 original size:24 final size:25
Alignment explanation
Indices: 2550845--2550916 Score: 62
Period size: 24 Copynumber: 3.0 Consensus size: 25
2550835 ACCATTTATC
*
2550845 CCATAAGCTCGTAAGCTTAT-TTTA
1 CCATAAGCTCGTAAGCTTATAATTA
* * *
2550869 CCA-AA-CTACGTACCGTTTAAAATT-
1 CCATAAGCT-CGTA-AGCTTATAATTA
2550893 CCATAAGCTCGTAAGCTTATAATT
1 CCATAAGCTCGTAAGCTTATAATT
2550917 TTTTTTCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
22 2 0.06
23 6 0.17
24 18 0.50
25 8 0.22
26 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (25 bp):
CCATAAGCTCGTAAGCTTATAATTA
Found at i:2551159 original size:40 final size:40
Alignment explanation
Indices: 2551115--2551236 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
2551105 ACCGTAGTGC
2551115 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2551155 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
2551195 TACACATAAGGTCGTACCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2551235 TA
1 TA
2551237 TAAACCTGCA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2557446 original size:23 final size:22
Alignment explanation
Indices: 2557403--2557444 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2557393 TAACATTGAA
*
2557403 TAGTGGGGGAATCGATTCCCTG
1 TAGTAGGGGAATCGATTCCCTG
*
2557425 TAGTAGGGGAATCGGTTCCC
1 TAGTAGGGGAATCGATTCCC
2557445 CTTTTGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (22 bp):
TAGTAGGGGAATCGATTCCCTG
Found at i:2557904 original size:48 final size:47
Alignment explanation
Indices: 2557838--2558016 Score: 172
Period size: 53 Copynumber: 3.8 Consensus size: 47
2557828 TATAAAATCT
*
2557838 CTTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2557883 CTTACCGTTTAAAATTCCATAAGCTCGTAAGCTTATAATTTTTTTTCCAATATA
1 CTTACCATTT-AAATTCCATAAGCTCGTAAGC-T-T-A---TTTTACCAAAATA
* *
2557937 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTA-TTTACCCATATA
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
* * *
2557983 CTTTCCA-TT--ATTCCAAAAGCTCATAAGCTTATTT
1 CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTT
2558017 GTATGCTTAC
Statistics
Matches: 114, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
43 20 0.18
44 2 0.02
45 11 0.10
46 16 0.14
48 18 0.16
49 1 0.01
50 2 0.02
51 2 0.02
52 1 0.01
53 21 0.18
54 20 0.18
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (47 bp):
CTTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTACCAAAATA
Found at i:2558165 original size:40 final size:40
Alignment explanation
Indices: 2558121--2558202 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
2558111 ACCGTAGTGC
2558121 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2558161 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
2558201 TA
1 TA
2558203 TAAACTTGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:2559429 original size:30 final size:30
Alignment explanation
Indices: 2559372--2559435 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
2559362 TTCTTCATCA
* * *
2559372 TTTTCCAAAATTTACGAATTTATCCCAAAC
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
* *
2559402 TTTT-CAAAACTTACGAAATGATCCCCAAT
1 TTTTCCAAAACTTACGAAATGATCCCAAAC
2559431 TTTTC
1 TTTTC
2559436 TATGGCTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.38
Consensus pattern (30 bp):
TTTTCCAAAACTTACGAAATGATCCCAAAC
Found at i:2568616 original size:22 final size:22
Alignment explanation
Indices: 2568576--2568618 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
2568566 ACTGATCATT
* **
2568576 ATATATGATGTTTGTCATGAAC
1 ATATATGATATTTAACATGAAC
2568598 ATATATGATATTTAACATGAA
1 ATATATGATATTTAACATGAA
2568619 TGATATTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.40
Consensus pattern (22 bp):
ATATATGATATTTAACATGAAC
Found at i:2568831 original size:39 final size:39
Alignment explanation
Indices: 2568767--2568863 Score: 115
Period size: 39 Copynumber: 2.5 Consensus size: 39
2568757 GCATATCGAT
* *
2568767 TAAGCACTTCGATGCATATTGTGGGCATGACATTATGTG
1 TAAGCACTTCGATGCATATTGTGGGCACGACATTATCTG
* *
2568806 TAAGCACTTCGATGTATA-TGATGGGCACGACCTTATCTG
1 TAAGCACTTCGATGCATATTG-TGGGCACGACATTATCTG
* * *
2568845 TAAGAACTACGTTGCATAT
1 TAAGCACTTCGATGCATAT
2568864 ATTTGACTCG
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 2 0.04
39 46 0.96
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (39 bp):
TAAGCACTTCGATGCATATTGTGGGCACGACATTATCTG
Found at i:2576113 original size:101 final size:101
Alignment explanation
Indices: 2575932--2576113 Score: 242
Period size: 101 Copynumber: 1.8 Consensus size: 101
2575922 CTTTTTTTTA
* * *
2575932 TACTTCAAGGGGAGTCAGCTCATCACACTACCGTGCCACACTCTAAGTGACATGGGGCACACATT
1 TACTTCAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGACAAGGGGCACACATT
*
2575997 CCACCCTCGATCTAGTAAGGTAGAATTTTTTTAGCT
66 CCACCCTCGAGCTAGTAAGGTAGAATTTTTTTAGCT
* * * ** *
2576033 TACTTTAAGGGGAGTCAGCTCATCACACTACCATCCCGCATTCTAAGTGA-AAGGGAGCATGCCT
1 TACTTCAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGACAAGGG-GCACACAT
2576097 TCCACCAC-CGAGCTAGT
65 TCCACC-CTCGAGCTAGT
2576114 CAAGCAGAGT
Statistics
Matches: 69, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
100 4 0.06
101 64 0.93
102 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (101 bp):
TACTTCAAGGGGAGTCAGCTCATCACACTACCATCCCACACTCTAAGTGACAAGGGGCACACATT
CCACCCTCGAGCTAGTAAGGTAGAATTTTTTTAGCT
Found at i:2576591 original size:37 final size:37
Alignment explanation
Indices: 2576506--2576605 Score: 119
Period size: 37 Copynumber: 2.7 Consensus size: 37
2576496 TCGTCCAAAT
* * *
2576506 AGGATTCAAACTCCTAAAAATAGGATAGAATTTTGCT
1 AGGATTCAAACTCCTAAAAATAGGATAGAATTCTACA
* *
2576543 AGGATTCAAACTCCTAAAAATATGATAGAGTTCTACA
1 AGGATTCAAACTCCTAAAAATAGGATAGAATTCTACA
** * *
2576580 ATTATTTAAACTCCTAAAGATAGGAT
1 AGGATTCAAACTCCTAAAAATAGGAT
2576606 TCACGAGCAT
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
AGGATTCAAACTCCTAAAAATAGGATAGAATTCTACA
Found at i:2577022 original size:8 final size:8
Alignment explanation
Indices: 2577009--2577033 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2576999 ATTATTTATT
2577009 TGTATATA
1 TGTATATA
2577017 TGTATATA
1 TGTATATA
2577025 TGTATATA
1 TGTATATA
2577033 T
1 T
2577034 TTAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (8 bp):
TGTATATA
Found at i:2577118 original size:21 final size:20
Alignment explanation
Indices: 2577094--2577141 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
2577084 TGCGTTATAT
2577094 TATATTATT-TTCCTATTATTA
1 TATATTATTATT--TATTATTA
2577115 TATATATATTATTTATTATTA
1 TATAT-TATTATTTATTATTA
2577136 T-TATTA
1 TATATTA
2577142 GTTTACTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.08
20 3 0.12
21 14 0.56
22 4 0.16
23 2 0.08
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTATTATTTATTATTA
Found at i:2577132 original size:18 final size:17
Alignment explanation
Indices: 2577109--2577152 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
2577099 TATTTTCCTA
2577109 TTATTATATATATATTA-T
1 TTATTAT-TAT-TATTAGT
2577127 TTATTATTATTATTAGT
1 TTATTATTATTATTAGT
2577144 TTACTTATT
1 TTA-TTATT
2577153 TACTATGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 5 0.21
17 7 0.29
18 12 0.50
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTAGT
Found at i:2577134 original size:24 final size:23
Alignment explanation
Indices: 2577088--2577139 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
2577078 TTTCTTTGCG
2577088 TTATATTATATTATTTTCCTATTA
1 TTATATTATATTATTTT-CTATTA
2577112 TTATATATATATTATTTAT-TATTA
1 TTATAT-TATATTATTT-TCTATTA
2577136 TTAT
1 TTAT
2577140 TAGTTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 15 0.58
25 10 0.38
26 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (23 bp):
TTATATTATATTATTTTCTATTA
Found at i:2577344 original size:25 final size:25
Alignment explanation
Indices: 2577301--2577370 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
2577291 TAGTATTTTA
* *
2577301 TTATAGTATACATACATTTTA-TATTT
1 TTATA-TATATATATATTTTATTA-TT
2577327 TTATATATATATATATTTTATTATT
1 TTATATATATATATATTTTATTATT
* *
2577352 TTATTTATACTATTTATTT
1 TTATATATA-TATATATTT
2577371 ATTTTCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 23 0.61
26 15 0.39
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (25 bp):
TTATATATATATATATTTTATTATT
Found at i:2578662 original size:19 final size:19
Alignment explanation
Indices: 2578638--2578674 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
2578628 ACCTTACTAA
2578638 CTCTTTTCATTTT-TTTCCT
1 CTCTTTT-ATTTTATTTCCT
2578657 CTCTTTTATTTTATTTCC
1 CTCTTTTATTTTATTTCC
2578675 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (19 bp):
CTCTTTTATTTTATTTCCT
Found at i:2582048 original size:7 final size:7
Alignment explanation
Indices: 2582036--2582116 Score: 76
Period size: 7 Copynumber: 11.6 Consensus size: 7
2582026 CAATCAGAAC
2582036 AAAAAGA
1 AAAAAGA
2582043 AAAAAGA
1 AAAAAGA
2582050 AAAAAGA
1 AAAAAGA
2582057 AAAGAAGCA
1 AAA-AAG-A
2582066 AAAAAGA
1 AAAAAGA
*
2582073 AGAAA-A
1 AAAAAGA
*
2582079 CAAAAGA
1 AAAAAGA
2582086 AAAAAGA
1 AAAAAGA
* *
2582093 AAGAA-C
1 AAAAAGA
**
2582099 AAAAATC
1 AAAAAGA
2582106 AAAAAGA
1 AAAAAGA
2582113 AAAA
1 AAAA
2582117 GGGACAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
6 8 0.13
7 43 0.70
8 6 0.10
9 4 0.07
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.01
Consensus pattern (7 bp):
AAAAAGA
Found at i:2582068 original size:23 final size:24
Alignment explanation
Indices: 2582042--2582086 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
2582032 GAACAAAAAG
*
2582042 AAAAAAGAA-AAAAGAAAAGAAGC
1 AAAAAAGAAGAAAACAAAAGAAGC
2582065 AAAAAAGAAGAAAACAAAAGAA
1 AAAAAAGAAGAAAACAAAAGAA
2582087 AAAAGAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAGAAAACAAAAGAAGC
Found at i:2582103 original size:20 final size:20
Alignment explanation
Indices: 2582031--2582114 Score: 80
Period size: 20 Copynumber: 4.0 Consensus size: 20
2582021 AGATTCAATC
*
2582031 AGAACAAAAAGAAAAAAGAA
1 AGAAAAAAAAGAAAAAAGAA
*
2582051 AAAAGAAAAGAAGCAAAAAAG-A
1 AGAA-AAAA-AAG-AAAAAAGAA
2582073 AGAAAACAAAAGAAAAAAGAA
1 AGAAAA-AAAAGAAAAAAGAA
* **
2582094 AGAACAAAAATCAAAAAGAA
1 AGAAAAAAAAGAAAAAAGAA
2582114 A
1 A
2582115 AAGGGACAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
20 23 0.43
21 14 0.26
22 9 0.17
23 7 0.13
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AGAAAAAAAAGAAAAAAGAA
Found at i:2582760 original size:22 final size:22
Alignment explanation
Indices: 2582732--2582787 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
2582722 AGCTACCCCA
2582732 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
2582754 TCAAACCTTTGAGCATCAAATG
1 TCAAACCTTTGAGCATCAAATG
*
2582776 CCAAACCTTTGA
1 TCAAACCTTTGA
2582788 CCAAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (22 bp):
TCAAACCTTTGAGCATCAAATG
Found at i:2583704 original size:119 final size:119
Alignment explanation
Indices: 2583487--2583704 Score: 257
Period size: 119 Copynumber: 1.8 Consensus size: 119
2583477 TCGAGAGTGA
* * *
2583487 ATTTCAACTTCACGACGAAGGATATCTAGCTCGAAGCCAAACTTCACAATAAAGGGGTCTCCACG
1 ATTTCAACTTCACGACGAAGGATATCAAGCTCGAAGCCAAACTTCACAATAAAGGGCTATCCACG
** **
2583552 ATTTCAACTTCACGGTGAAGGGAATTGTGTCCACCCACAACATATAATACTTAG
66 ATTTCAACTTCACGACGAAGGGAATCATGTCCACCCACAACATATAATACTTAG
*
2583606 ATTTCAACTTCACGACGAAGGATATTCAAG-TC-AAGGCTC-AACTTCACAATGAAGTGGCTATC
1 ATTTCAACTTCACGACGAAGGATA-TCAAGCTCGAA-GC-CAAACTTCACAATAAAG-GGCTATC
* * *
2583668 CGCGATTTTAACTTCACGACGGA-GGATATCAT-TCCAC
62 CACGATTTCAACTTCACGACGAAGGGA-ATCATGTCCAC
2583705 TCGAGACAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
118 2 0.02
119 50 0.60
120 31 0.37
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (119 bp):
ATTTCAACTTCACGACGAAGGATATCAAGCTCGAAGCCAAACTTCACAATAAAGGGCTATCCACG
ATTTCAACTTCACGACGAAGGGAATCATGTCCACCCACAACATATAATACTTAG
Found at i:2584767 original size:106 final size:106
Alignment explanation
Indices: 2583703--2584766 Score: 1583
Period size: 106 Copynumber: 10.0 Consensus size: 106
2583693 ATATCATTCC
* * * *
2583703 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2583768 AAATTCAAAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
2583809 ACTCCAGACAACACAAGTTCAACTTCACGATGAAGCGAACGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2583874 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
2583915 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2583980 AATTTCAGAGCCAATTTCAACTTCACAGA-GAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACA-ACGAAGGATATTGG
* * * * * *
2584021 ACTCAAGACAATGCAAGTTCAACTTTATGACGAAGGGACCGCTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2584086 AATTTCAGAGCTAATTTCAACTTCACAACGATGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
2584127 ACTCCAAACAACGTAAGTTCAACTTCACGATGAAGGGACCGTTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
2584192 AATTTTAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2584233 ACTCCAGACAACGCAAGTTCAACTTCACGAAGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
2584298 ATTTTCAGAGCCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * *
2584339 ACTCGAGACAACGCAAGTTCAACTTCACAATGAATGGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2584404 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * **
2584445 ACTCCAGACAACTCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAAACAACTTTTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
2584510 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
2584551 ACACCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
2584616 AATTTTAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * *
2584657 ACTCGAGACAACGCAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAATAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
* * * * *
2584721 CGATTCCAGAGCAAATTTCAACTTCACGACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2584763 ACTC
1 ACTC
2584767 GGAACAATGC
Statistics
Matches: 865, Mismatches: 90, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
105 3 0.00
106 861 1.00
107 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2585605 original size:37 final size:37
Alignment explanation
Indices: 2585515--2585619 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
2585505 CTTTTTCGTC
*
2585515 CTACTAGGATTCAAACTCCTAAAAATAAGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
2585552 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
** * *
2585589 CTACTATTATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2585620 TCACAAGCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:2586287 original size:19 final size:17
Alignment explanation
Indices: 2586241--2586302 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
2586231 TTTTAGTTAA
*
2586241 TATTATATGTA-TATTTT
1 TATTATATTTAGTA-TTT
*
2586258 TCATT-TATTTATTATTAT
1 T-ATTATATTTAGTATT-T
2586276 TATTAATATTTAGTATTT
1 TATT-ATATTTAGTATTT
2586294 TATTATATT
1 TATTATATT
2586303 ACATACATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 16 0.42
18 12 0.32
19 10 0.26
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.65
Consensus pattern (17 bp):
TATTATATTTAGTATTT
Found at i:2586342 original size:20 final size:20
Alignment explanation
Indices: 2586263--2586349 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 20
2586253 ATTTTTCATT
*
2586263 TATTTATTATTATTATTAATATT
1 TATTT-TTATTATT-TT-ATATA
* *
2586286 TAGTATTTTATTATATTACATA
1 TA-T-TTTTATTATTTTATATA
* *
2586308 CATTTTTATTTTTTTATATA
1 TATTTTTATTATTTTATATA
*
2586328 TATTTTTATTATTTTATTTA
1 TATTTTTATTATTTTATATA
2586348 TA
1 TA
2586350 CTATTTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
20 33 0.63
21 1 0.02
22 4 0.08
23 4 0.08
24 8 0.15
25 2 0.04
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (20 bp):
TATTTTTATTATTTTATATA
Found at i:2591993 original size:55 final size:56
Alignment explanation
Indices: 2591934--2592296 Score: 274
Period size: 55 Copynumber: 6.6 Consensus size: 56
2591924 CTATTAATAT
* *
2591934 GAAAATTCATAAAATTATTATGAATCTCTTAGTTTTGCACACAAAGTGCCCATA-G
1 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACG
* * * * *
2591989 GAAAATTCATAAACTTATTATGAATTTCTTATTTTTTCATACACACATTGCCCAAACG
1 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGC--ACACAAAGTGCCCATACG
* *
2592047 G-AAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACA
1 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACG
* ** * * * * * *
2592102 G-ACATTCATCCACTTAGTATCAATTTCTTAAG-TTTACGCATAAAGTGCCCATAAG
1 GAAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAAAGTGCCCATACG
** * ** ** * * *
2592157 G-AAATTCATCTACTTAGTATGAATTTCTTAAATTCACGCATAAAGTGCCCATAAG
1 GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACG
** * ** * * *
2592212 G-AAATTCATCCACTTAGTATGAATTTCTTAAG-TTTAAACATAAAATGCTCATACG
1 GAAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAAAGTGCCCATACG
* ** *
2592267 G-AAATTTATCCACTTAGTATGAATTTCTTA
1 GAAAATTCATAAACTTATTATGAATTTCTTA
2592297 AGTATACACA
Statistics
Matches: 264, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
54 2 0.01
55 211 0.80
56 3 0.01
57 46 0.17
58 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (56 bp):
GAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACG
Found at i:2592297 original size:55 final size:55
Alignment explanation
Indices: 2592037--2592299 Score: 316
Period size: 55 Copynumber: 4.8 Consensus size: 55
2592027 ATACACACAT
** * * * * *
2592037 TGCCCA-AACGGAAATTCATAAACTTATTATAAATTTCTT-AGTTTTGCACACAAAG
1 TGCCCATAA-GGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACGCATAAAG
* *
2592092 TGCCCATACA-GACATTCATCCACTTAGTATCAATTTCTTAAGTTTACGCATAAAG
1 TGCCCATA-AGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACGCATAAAG
* * *
2592147 TGCCCATAAGGAAATTCATCTACTTAGTATGAATTTCTTAAATTCACGCATAAAG
1 TGCCCATAAGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACGCATAAAG
** *
2592202 TGCCCATAAGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATAAAA
1 TGCCCATAAGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACGCATAAAG
* * *
2592257 TGCTCATACGGAAATTTATCCACTTAGTATGAATTTCTTAAGT
1 TGCCCATAAGGAAATTCATCCACTTAGTATGAATTTCTTAAGT
2592300 ATACACATTA
Statistics
Matches: 182, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
54 1 0.01
55 177 0.97
56 3 0.02
57 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (55 bp):
TGCCCATAAGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACGCATAAAG
Found at i:2592609 original size:19 final size:19
Alignment explanation
Indices: 2592585--2592622 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2592575 TTTACAAAGG
2592585 CATGCACCGATGCATCAAT
1 CATGCACCGATGCATCAAT
*
2592604 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
2592623 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.24
Consensus pattern (19 bp):
CATGCACCGATGCATCAAT
Found at i:2592672 original size:19 final size:19
Alignment explanation
Indices: 2592648--2592686 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2592638 TCGAATGCAT
2592648 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
2592667 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
2592686 T
1 T
2592687 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:2592727 original size:64 final size:64
Alignment explanation
Indices: 2592604--2592812 Score: 203
Period size: 64 Copynumber: 3.2 Consensus size: 64
2592594 ATGCATCAAT
* * * * *
2592604 CATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGCATTCCATGCACCGATGCACTCT
1 CATGCATCGATGCACTC--TGATTTAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCT
2592668 C
64 C
* **
2592669 CATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTTGATGCATCGATGCACAATC
1 CATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTC
* * * *
2592733 CATGCATCGATACACTAGGCT-ATTT--TTCAAACATCGAATACACTTCATGCATCGATGCACTC
1 CATGCATCGATGCACT---CTGATTTAATTAAAACATCGAATGCATTTCATGCATCGATGCACTC
2592795 T-
63 TC
* *
2592796 TAGTGCACCGATGCACT
1 CA-TGCATCGATGCACT
2592813 AGGAGTCCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 98 0.81
65 14 0.12
66 6 0.05
67 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (64 bp):
CATGCATCGATGCACTCTGATTTAATTAAAACATCGAATGCATTTCATGCATCGATGCACTCTC
Found at i:2598636 original size:24 final size:22
Alignment explanation
Indices: 2598608--2598687 Score: 83
Period size: 24 Copynumber: 3.5 Consensus size: 22
2598598 CACTTAACAA
2598608 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
2598632 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
2598652 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
*
2598676 CGCATCGATGCA
1 TGCATCGATGCA
2598688 CAAGACCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.09
21 12 0.26
22 2 0.04
23 12 0.26
24 17 0.36
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:2601262 original size:21 final size:21
Alignment explanation
Indices: 2601238--2601277 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2601228 TTTTCAAAGG
2601238 CATGCACCGATGCATCAATAT
1 CATGCACCGATGCATCAATAT
*
2601259 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
2601278 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAT
Found at i:2601327 original size:19 final size:18
Alignment explanation
Indices: 2601291--2601339 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
2601281 TAAATTGAAA
2601291 CATCGAATGCA-TTCCATG
1 CATCG-ATGCACTTCCATG
2601309 CATCGATGCACTCTCCATG
1 CATCGATGCACT-TCCATG
*
2601328 CATCGATACACT
1 CATCGATGCACT
2601340 ATGATTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 5 0.18
18 6 0.21
19 17 0.61
ACGTcount: A:0.27, C:0.33, G:0.14, T:0.27
Consensus pattern (18 bp):
CATCGATGCACTTCCATG
Found at i:2601412 original size:56 final size:55
Alignment explanation
Indices: 2601313--2601430 Score: 130
Period size: 56 Copynumber: 2.1 Consensus size: 55
2601303 TCCATGCATC
** * * *
2601313 GATGCACTCTCCATGCATCGATACACTATGATTTAATTAAAACATCGAATGCATTT
1 GATGCACAATCCATGCATCGATACACCATGATTT-ATTAAAACATCAAATGCACTT
* *
2601369 GATGCACAATCCATGCATCGATACACCAGTCTATTT-TTCAAACATCAAATGCACTT
1 GATGCACAATCCATGCATCGATACACCA-T-GATTTATTAAAACATCAAATGCACTT
*
2601425 CATGCA
1 GATGCA
2601431 TCGATGTACT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
56 47 0.90
57 1 0.02
58 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.30
Consensus pattern (55 bp):
GATGCACAATCCATGCATCGATACACCATGATTTATTAAAACATCAAATGCACTT
Found at i:2606206 original size:31 final size:31
Alignment explanation
Indices: 2606170--2606229 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2606160 AACTTAAAAG
* *
2606170 AGTTTTCCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
2606201 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
2606230 CATACAACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:2607996 original size:39 final size:39
Alignment explanation
Indices: 2607941--2608037 Score: 122
Period size: 39 Copynumber: 2.5 Consensus size: 39
2607931 GTATATCGAT
* * *
2607941 TAAGCACTTCGGTGCATATGGTGTGCACGACATTATGTA
1 TAAGCACTGCGATGCATATGGTGGGCACGACATTATGTA
* * * *
2607980 TAAGCACTGCGATGCATATGGTGGGCATGTCCTTATGTG
1 TAAGCACTGCGATGCATATGGTGGGCACGACATTATGTA
*
2608019 TAAGCACTGCGAGGCATAT
1 TAAGCACTGCGATGCATAT
2608038 ATTTGACTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (39 bp):
TAAGCACTGCGATGCATATGGTGGGCACGACATTATGTA
Found at i:2621939 original size:29 final size:29
Alignment explanation
Indices: 2621904--2621961 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
2621894 TTGTTAGGAA
*
2621904 TTTATTTTCCAAAGTATGCATGTGTTAGT
1 TTTATTTTCCAAAGTATGCATATGTTAGT
*
2621933 TTTATTTTCCAAAGTATGCCTATGTTAGT
1 TTTATTTTCCAAAGTATGCATATGTTAGT
2621962 AAGATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (29 bp):
TTTATTTTCCAAAGTATGCATATGTTAGT
Found at i:2623252 original size:39 final size:39
Alignment explanation
Indices: 2623158--2623255 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
2623148 CCATATCAAT
* * * *
2623158 TAAGTACTTCAGTGCATATGGTTGGCACGACCTTATGTG
1 TAAGCACTTCGGTGCATATAGTGGGCACGACCTTATGTG
*
2623197 TAAGCACTTCGATGCATATAGTGGGCACGACCTTATGTG
1 TAAGCACTTCGGTGCATATAGTGGGCACGACCTTATGTG
2623236 TAAGCACTAT-GGTGCATATA
1 TAAGCACT-TCGGTGCATATA
2623256 TTTGACTCGA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 51 0.98
40 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (39 bp):
TAAGCACTTCGGTGCATATAGTGGGCACGACCTTATGTG
Found at i:2629460 original size:39 final size:39
Alignment explanation
Indices: 2629398--2629483 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
2629388 GCATATCGAT
** *
2629398 TAAGCACTTCGGTGAATAGGGTGGGCATGACCTTATGTG
1 TAAGCACTTCAATGAATAGGGTGGGAATGACCTTATGTG
* * *
2629437 TAAGCACTTCAATGCATATGGTGGGAATGACCTTATGTT
1 TAAGCACTTCAATGAATAGGGTGGGAATGACCTTATGTG
2629476 TAAGCACT
1 TAAGCACT
2629484 ATGGTGCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (39 bp):
TAAGCACTTCAATGAATAGGGTGGGAATGACCTTATGTG
Found at i:2636135 original size:20 final size:19
Alignment explanation
Indices: 2636100--2636140 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
2636090 AATTATTCAG
2636100 AAAAAAGAAATCAAAAAAT
1 AAAAAAGAAATCAAAAAAT
2636119 AAAAAATGACAAT-AAAAAAT
1 AAAAAA-GA-AATCAAAAAAT
2636139 AA
1 AA
2636141 TTTTATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 11 0.55
21 3 0.15
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (19 bp):
AAAAAAGAAATCAAAAAAT
Found at i:2642712 original size:2 final size:2
Alignment explanation
Indices: 2642705--2642731 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2642695 TCAATCTACA
2642705 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2642732 ATTTACGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2642912 original size:13 final size:13
Alignment explanation
Indices: 2642896--2642939 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
2642886 GCAATGAGCA
2642896 TCATAAATGCGCG
1 TCATAAATGCGCG
* *
2642909 TCATAAATGTGTG
1 TCATAAATGCGCG
2642922 TCATAAATGCGCG
1 TCATAAATGCGCG
2642935 TCATA
1 TCATA
2642940 GATTTATGAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (13 bp):
TCATAAATGCGCG
Found at i:2650104 original size:58 final size:58
Alignment explanation
Indices: 2649976--2650190 Score: 335
Period size: 58 Copynumber: 3.7 Consensus size: 58
2649966 TATATTTCCC
** *
2649976 ATACGGAAATTTTTACACTTAATATGAATTTCTTAACATTTTTGCACACGAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTT-CACACGAAGTGCCCA
*
2650035 ATACGGAAATTCATACATTTAGTATGAATTTCTTAACATTTTTCACACGAAGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTCACACGAAGTGCCCA
* * * *
2650093 ATACGGAAATTCATACACTTAGTATGAATTTCTTAAAATCTTACACACGAACTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTCACACGAAGTGCCCA
2650151 ATACGGAAATTC--ACACTTAGTATGAATTTCTTAACATTTT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTT
2650191 GTAATCACCA
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
56 26 0.18
58 80 0.55
59 39 0.27
ACGTcount: A:0.35, C:0.19, G:0.11, T:0.34
Consensus pattern (58 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTCACACGAAGTGCCCA
Found at i:2652718 original size:20 final size:22
Alignment explanation
Indices: 2652693--2652732 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2652683 TGTTGTATAT
2652693 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2652713 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2652733 TCTACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2652986 original size:22 final size:23
Alignment explanation
Indices: 2652953--2652995 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2652943 ATGGATGCAC
2652953 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
2652976 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
2652996 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:2653022 original size:21 final size:21
Alignment explanation
Indices: 2652982--2653024 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2652972 CTAGTGCAGG
**
2652982 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTAAAGGGA
*
2653003 TGCATGGGTGCACTAAAGGGA
1 TGCATGGATGCACTAAAGGGA
2653024 T
1 T
2653025 TTAGAGTGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.37, T:0.21
Consensus pattern (21 bp):
TGCATGGATGCACTAAAGGGA
Found at i:2653184 original size:32 final size:34
Alignment explanation
Indices: 2653147--2653216 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2653137 ACCTTATAAC
* * *
2653147 TCCCTAG-TTTTTC-CGGGCTAAACTATAACCTT
1 TCCCTAGATTTTACACGGGATAAACTACAACCTT
*
2653179 TCCCTAGATTTTACACGGGATAAGCTACAACCTT
1 TCCCTAGATTTTACACGGGATAAACTACAACCTT
2653213 TCCC
1 TCCC
2653217 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (34 bp):
TCCCTAGATTTTACACGGGATAAACTACAACCTT
Found at i:2653457 original size:20 final size:22
Alignment explanation
Indices: 2653432--2653471 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2653422 TGTTGTATAT
2653432 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
2653452 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
2653472 TCTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:2653709 original size:21 final size:21
Alignment explanation
Indices: 2653683--2653734 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
2653673 TGCAGGTGCG
2653683 TGGATGCACTGCAGGGATGCA
1 TGGATGCACTGCAGGGATGCA
*
2653704 TGGATGCACTGCAGGGGTGCA
1 TGGATGCACTGCAGGGATGCA
2653725 TGGATGCACT
1 TGGATGCACT
2653735 TTGACACCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (21 bp):
TGGATGCACTGCAGGGATGCA
Found at i:2654060 original size:145 final size:146
Alignment explanation
Indices: 2653882--2654178 Score: 481
Period size: 147 Copynumber: 2.0 Consensus size: 146
2653872 TCCCTTAAAT
**
2653882 TGTTATATCAAAAACATACTTCAACAATCTCCCCCTTTTTGAT-ATAACAAAACATTTG-ATTTT
1 TGTTATATCAAAAACATACTTCAACAATCTCCCCCTTTTTGATAAT-ACAAAACATTTGAAAATT
* * * *
2653945 TTTTTTTGCAAAACTCCCCCTTAATAAATTGTTTAATGAAAAAGATATTAATTGTTAACAATTGT
65 ATTTTTGGCAAAACTCCCCCTTAATAAATTATTTAATGAAAAAGATATCAATTGTTAACAATTGT
2654010 TGGAAAATATATGAAAA
130 TGGAAAATATATGAAAA
* *
2654027 TGTTATATCAAAAACATAGTTCAACAATTTCCCCCTTTTTGATAATACAAAACATTTGAAAAATT
1 TGTTATATCAAAAACATACTTCAACAATCTCCCCCTTTTTGATAATACAAAACATTTG-AAAATT
2654092 ATTTTTGGCAAAACTCCCCCTTAATAAATTATTTAATGAAAAAGATATCAATTGTTAACAATTGT
65 ATTTTTGGCAAAACTCCCCCTTAATAAATTATTTAATGAAAAAGATATCAATTGTTAACAATTGT
*
2654157 TGGAAAATATTTGAAAA
130 TGGAAAATATATGAAAA
2654174 TGTTA
1 TGTTA
2654179 AGCTCCCCCT
Statistics
Matches: 140, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
145 53 0.38
146 2 0.01
147 85 0.61
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (146 bp):
TGTTATATCAAAAACATACTTCAACAATCTCCCCCTTTTTGATAATACAAAACATTTGAAAATTA
TTTTTGGCAAAACTCCCCCTTAATAAATTATTTAATGAAAAAGATATCAATTGTTAACAATTGTT
GGAAAATATATGAAAA
Found at i:2655338 original size:19 final size:20
Alignment explanation
Indices: 2655295--2655342 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
2655285 TCTAAATCCT
*
2655295 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
2655315 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
2655334 TTTTCAAAA
1 TTTTCAAAA
2655343 GAAAACCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:2656659 original size:20 final size:20
Alignment explanation
Indices: 2656628--2656701 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
2656618 GCAGCTTTCG
*
2656628 TGCATTGATGCACAGCAGGA
1 TGCATCGATGCACAGCAGGA
* * **
2656648 TACATCGATGCATAGCCTTGA
1 TGCATCGATGCACAG-CAGGA
* *
2656669 TGCATCGATGCACAGAAGTA
1 TGCATCGATGCACAGCAGGA
2656689 TGCATCGATGCAC
1 TGCATCGATGCAC
2656702 TAATTGCATT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (20 bp):
TGCATCGATGCACAGCAGGA
Found at i:2656880 original size:29 final size:29
Alignment explanation
Indices: 2656859--2656915 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
2656849 AAACTTTGAA
2656859 TAAATCCAAGT-AAGTCCAAAAACATTTTG
1 TAAATCCAAGTGAAGTCCAAAAACA-TTTG
* *
2656888 TAAATTCAATTGAAGTCCAAAAACATTT
1 TAAATCCAAGTGAAGTCCAAAAACATTT
2656916 TGCCTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.30
Consensus pattern (29 bp):
TAAATCCAAGTGAAGTCCAAAAACATTTG
Found at i:2657254 original size:21 final size:21
Alignment explanation
Indices: 2657225--2657270 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2657215 GAATATGTAG
* *
2657225 TATCGATACTGATTCAATCGA
1 TATCAATACTGATTCAATCAA
*
2657246 TATCAATACTGATTTAATCAA
1 TATCAATACTGATTCAATCAA
2657267 TATC
1 TATC
2657271 GATATCGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (21 bp):
TATCAATACTGATTCAATCAA
Found at i:2657998 original size:54 final size:54
Alignment explanation
Indices: 2657718--2657999 Score: 357
Period size: 54 Copynumber: 5.2 Consensus size: 54
2657708 CCAAATAGGC
** *
2657718 ACTAAGTGTGCATTTCACATAATTCATCCTATGTGGATGAATAACCATTTCGGT
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
* * * **
2657772 ACTAAGTATGCATTTCACGGGATTCATCCTATGTGGATTAATAACCGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
* * * * * * *
2657826 ACTATGTGAGTATTTCACGGAATTTATCCTATATGGATGAATAACCATTTTGGT
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
**
2657880 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGAC
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
* * * * *
2657934 ACTAATTGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACTGTTTTGGT
1 ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
*
2657988 ACTATGTGTGCA
1 ACTAAGTGTGCA
2658000 AAACACGGAG
Statistics
Matches: 190, Mismatches: 38, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 190 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
ACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGGT
Found at i:2658008 original size:108 final size:108
Alignment explanation
Indices: 2657717--2657999 Score: 417
Period size: 108 Copynumber: 2.6 Consensus size: 108
2657707 ACCAAATAGG
* * * *
2657717 CACTAAGTGTGCATTTCAC-ATAATTCATCCTATGTGGATGAATAACCATTTCGGTACTAAGTAT
1 CACTAATTGTGCATTTCACGA-AATTTATCCTATGTGGATGAATAACCATTTTGGTACTAAGTGT
* *
2657781 GCATTTCACGGGATTCATCCTATGTGGATTAATAACCGTTTCGA
65 GCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
* * * *
2657825 CACT-ATGTGAGTATTTCACGGAATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGT
1 CACTAAT-TGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACCATTTTGGTACTAAGTGT
2657889 GCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
65 GCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
** *
2657933 CACTAATTGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACTGTTTTGGTACTATGTGTG
1 CACTAATTGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACCATTTTGGTACTAAGTGTG
2657998 CA
66 CA
2658000 AAACACGGAG
Statistics
Matches: 155, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 1 0.01
108 152 0.98
109 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (108 bp):
CACTAATTGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACCATTTTGGTACTAAGTGTG
CATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
Found at i:2658053 original size:108 final size:108
Alignment explanation
Indices: 2657717--2658054 Score: 336
Period size: 108 Copynumber: 3.1 Consensus size: 108
2657707 ACCAAATAGG
* * * * *
2657717 CACTAAGTGTGCATTTCAC-ATAATTCATCCTATGTGGATGAATAACCATTTCGGTACTAAGTAT
1 CACTAAGGGTGCATTTCACGA-AATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGT
*** * * * *
2657781 GCATTTCACGGGATTCATCCTATGTGGATTAATAACCGTTTCGA
65 GCAAAACACGGAATTCATACTATGTGGATGAATAACCGTATCGA
* * * * *
2657825 CACTATGTGAGTATTTCACGGAATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGTG
1 CACTAAGGGTGCATTTCACGAAATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGTG
*** * *
2657890 CATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCGA
66 CAAAACACGGAATTCATACTATGTGGATGAATAACCGTATCGA
** * ** *
2657933 CACTAATTGTGCATTTCACGAAATTTATCCTATGTGGATGAATAACTGTTTTGGTACTATGTGTG
1 CACTAAGGGTGCATTTCACGAAATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGTG
* * ** * * *
2657998 CAAAACACGGAGTTCATAGTATGTTTATGAATGACCGTATGGG
66 CAAAACACGGAATTCATACTATGTGGATGAATAACCGTATCGA
*
2658041 CACTACGGGTGCAT
1 CACTAAGGGTGCAT
2658055 CACAAATAAA
Statistics
Matches: 195, Mismatches: 34, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
108 195 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.34
Consensus pattern (108 bp):
CACTAAGGGTGCATTTCACGAAATTTATCCTATATGGATGAATAACCATTTTGGTACTAAGTGTG
CAAAACACGGAATTCATACTATGTGGATGAATAACCGTATCGA
Found at i:2663867 original size:20 final size:20
Alignment explanation
Indices: 2663842--2663933 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
2663832 GATTCAATTG
*
2663842 GTATCGATACCGAAGGGTGA
1 GTATCGATACCGAAGGATGA
*
2663862 GTATCGATACCTAAGGATGA
1 GTATCGATACCGAAGGATGA
**
2663882 GTATCGATACCGAAATATAGTA
1 GTATCGATACCGAAGGAT-G-A
* *
2663904 GTATCGATACC-ATGGTATGG
1 GTATCGATACCGAAGG-ATGA
2663924 GTATCGATAC
1 GTATCGATAC
2663934 TGAGGAGCCA
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
20 43 0.72
21 3 0.05
22 14 0.23
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (20 bp):
GTATCGATACCGAAGGATGA
Found at i:2664378 original size:29 final size:29
Alignment explanation
Indices: 2664292--2664378 Score: 69
Period size: 27 Copynumber: 3.1 Consensus size: 29
2664282 ATTCATCCTA
2664292 TGTGGATGAATAATC-GTTTCGGCACTAAG
1 TGTGGATGAATAA-CAGTTTCGGCACTAAG
* * * **
2664321 TGTGCAT--TTCACAGATTTCATC-CT-A-
1 TGTGGATGAATAACAG-TTTCGGCACTAAG
2664346 TGTGGATGAATAACAGTTTCGGCACTAAG
1 TGTGGATGAATAACAGTTTCGGCACTAAG
2664375 TGTG
1 TGTG
2664379 CATTTCACGA
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
25 6 0.15
26 7 0.17
27 12 0.29
28 6 0.15
29 10 0.24
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (29 bp):
TGTGGATGAATAACAGTTTCGGCACTAAG
Found at i:2664888 original size:54 final size:54
Alignment explanation
Indices: 2664259--2664850 Score: 810
Period size: 54 Copynumber: 11.0 Consensus size: 54
2664249 TACCAAATAT
* * *
2664259 GCACTAAGTGTGCATTTCATGAAATTCATCCTATGTGGATGAATAATCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * *
2664313 GCACTAAGTGTGCATTTCACAGATTTCATCCTATGTGGATGAATAACAGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * * *
2664367 GCACTAAGTGTGCATTTCACGAAATTCATCATATGTGGAT-AAGTAACAGTTTCA
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAA-TAACCGTTTCG
** * * * *
2664421 AAACTACGTATGCATTTCACAGAATTCATCCTATGTGGATGAATGACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* ** * *
2664475 GCATTAAGTGTGCATTTCACATAATTCATCCTCTATGGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * * *
2664529 GCACTAAGTGTGCATTTCACGGAATTCATCATATGTGGATAAATAACCATTTTG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* *
2664583 GCACTAAGTGTGCATTTCACGGATTTCATCCTATGTAGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
** * * *
2664637 GCACTAAGTGTGCATTTCACATAATTTATCCCATGTGGATGAATAACCATTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
*
2664691 GCACTAAGTTTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
* * **
2664745 GAAATAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAATCATTTTC-
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAA-CCGTTTCG
*
2664799 GAACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTT
1 GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTT
2664851 TGACACTATT
Statistics
Matches: 469, Mismatches: 66, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
53 6 0.01
54 456 0.97
55 7 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.33
Consensus pattern (54 bp):
GCACTAAGTGTGCATTTCACGGAATTCATCCTATGTGGATGAATAACCGTTTCG
Found at i:2668482 original size:92 final size:93
Alignment explanation
Indices: 2668309--2668548 Score: 225
Period size: 92 Copynumber: 2.6 Consensus size: 93
2668299 TCCATCCACT
* * * * * ** * * **
2668309 AATGTAACAACTTAGATTAGTTAACCTATATAGTCCATAAACATTGAAGTGTTT-AGTTAAGACA
1 AATGTAACAACTTAGATAAGTTAACATCTTTAGTCCAAAAACATAAAAGTGTTTAAG-CAATATT
* * * *
2668373 TTTCAATGATATCTAAACTTTC-ATCCATT
65 TTTAAATGATATCTAAAC-TACAATACATC
* * * **
2668402 AATTTAACAACTTGGATAAGTTAACCTC-TTAGTCTGAAAACATAAAAGTGTTTAAGCAATATTT
1 AATGTAACAACTTAGATAAGTTAACATCTTTAGTCCAAAAACATAAAAGTGTTTAAGCAATATTT
* * *
2668466 TTAAATGTTATTTAAACTACAATATATC
66 TTAAATGATATCTAAACTACAATACATC
*
2668494 AATGTAACAACTTAGATAAGTTAACATCTTTAGTCCAAAAACATCAAAGTGTTTA
1 AATGTAACAACTTAGATAAGTTAACATCTTTAGTCCAAAAACATAAAAGTGTTTA
2668549 GTTAAATAGA
Statistics
Matches: 117, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
91 2 0.02
92 66 0.56
93 49 0.42
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.35
Consensus pattern (93 bp):
AATGTAACAACTTAGATAAGTTAACATCTTTAGTCCAAAAACATAAAAGTGTTTAAGCAATATTT
TTAAATGATATCTAAACTACAATACATC
Found at i:2669229 original size:93 final size:95
Alignment explanation
Indices: 2669055--2669254 Score: 206
Period size: 93 Copynumber: 2.1 Consensus size: 95
2669045 TTGATCCAAA
* * * * * * *
2669055 CAAAGTGTTTAGTTAAGACATTTCAAAATTATTCAAACTTTCATCCATTATTTTAATAACTCGGA
1 CAAAGTGTTTAGGTAAGACATTTCAAAACTATTCAAACTATCATCCATCAATGTAACAACTCGGA
* * *
2669120 CAAGTTACCCTCTTTAG-C-CCAAAAACAT
66 CAAGTTAACATATTTAGTCTCCAAAAACAT
* * * * * *
2669148 CAAAGTGTTTAGGTAATATATTTCAATACTATTCAAACTATCATCTATCAATGTAACAACTTGGG
1 CAAAGTGTTTAGGTAAGACATTTCAAAACTATTCAAACTATCATCCATCAATGTAACAACTCGGA
* ** *
2669213 TAAGTTAACATATTTAGTCTGTAAACACAT
66 CAAGTTAACATATTTAGTCTCCAAAAACAT
2669243 CAAAGTGTTTAG
1 CAAAGTGTTTAG
2669255 TTAAATACGT
Statistics
Matches: 85, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
93 65 0.76
94 1 0.01
95 19 0.22
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (95 bp):
CAAAGTGTTTAGGTAAGACATTTCAAAACTATTCAAACTATCATCCATCAATGTAACAACTCGGA
CAAGTTAACATATTTAGTCTCCAAAAACAT
Found at i:2670564 original size:93 final size:93
Alignment explanation
Indices: 2670415--2670711 Score: 285
Period size: 93 Copynumber: 3.2 Consensus size: 93
2670405 AACAAAAAGG
* * * * *
2670415 TGTTTAGTTAAAATATTTCAACGCTTTTCAAACTTCTAACCATTAATGTAACAACTTGGATAAGT
1 TGTTTAGTTAAGACATTTCAACGCTATTCAAACTTCTAACAATTAATGTAATAACTTGGATAAGT
*
2670480 GAACCTATTTAGTCCGTAAACATTAAAA
66 TAACCTATTTAGTCCGTAAACATTAAAA
* * * * *
2670508 TGTTTGGTTAAGACATTTCAACACTATTCAAACCTCTAACAATTAATGTAATAACTTGAATATGT
1 TGTTTAGTTAAGACATTTCAACGCTATTCAAACTTCTAACAATTAATGTAATAACTTGGATAAGT
* * * * *
2670573 TAATCTATTCAGTCTGTAAACATCAAAG
66 TAACCTATTTAGTCCGTAAACATTAAAA
* * * * * * * * *
2670601 TGTTTAGTTAATATAATTCAACGTTATTCAAACTTCCATCATTTAATGTAACTTA-TTCGATAAG
1 TGTTTAGTTAAGACATTTCAACGCTATTCAAACTTCTAACAATTAATGTAA-TAACTTGGATAAG
* * *
2670665 TTAACCTCTTTAGTACAT-AA-ATGTAAAA
65 TTAACCTATTTAGTCCGTAAACAT-TAAAA
*
2670693 GTGTTGAGTTAAGACATTT
1 -TGTTTAGTTAAGACATTT
2670712 TAATAGTATT
Statistics
Matches: 159, Mismatches: 42, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
91 2 0.01
92 5 0.03
93 150 0.94
94 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (93 bp):
TGTTTAGTTAAGACATTTCAACGCTATTCAAACTTCTAACAATTAATGTAATAACTTGGATAAGT
TAACCTATTTAGTCCGTAAACATTAAAA
Found at i:2671327 original size:18 final size:18
Alignment explanation
Indices: 2671304--2671339 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2671294 TCTTTGTTTA
2671304 TATTTTTT-ACATTTTTTT
1 TATTTTTTCA-ATTTTTTT
2671322 TATTTTTTCAATTTTTTT
1 TATTTTTTCAATTTTTTT
2671340 GTACCTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
TATTTTTTCAATTTTTTT
Found at i:2671568 original size:93 final size:93
Alignment explanation
Indices: 2671393--2672029 Score: 547
Period size: 93 Copynumber: 6.8 Consensus size: 93
2671383 TCAAAATAAG
* * * *
2671393 ATCAAAGTGTTTAGTGCAA--ACATTTCAACT-CTATTCGAACTTCCAACCATTAGTGTAACAAC
1 ATCAAAGTGTTTAGT-TAAGGA-ATTTCAA-TGCTATTCAAACTTCCATCCATTAATGTAACAAC
* *
2671455 TTGTATAATTTAACCTCTTTAGTCTGTAAAC
63 TTGGATAAGTTAACCTCTTTAGTCTGTAAAC
* * * * * * * *
2671486 ATCAAATTGTTTAGTTAAGGCATTTCAATGCTATTTAAACTTCTAGCCATTAATGGAGCAATTTG
1 ATCAAAGTGTTTAGTTAAGGAATTTCAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTG
* * * *
2671551 AATAAGTTATCCGCTTTAGTCCGTAAAC
66 GATAAGTTAACCTCTTTAGTCTGTAAAC
* * * * * * *
2671579 ATCAAAGTGTTTAGTTCAGAAATTTCAATCCCATTCAAACATCCATCGATTAATGTAACAACATG
1 ATCAAAGTGTTTAGTTAAGGAATTTCAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTG
* *
2671644 GATAAGTTAACATCTTTAGT-TCGTAAAT
66 GATAAGTTAACCTCTTTAGTCT-GTAAAC
* * * * *
2671672 GTCAAAGTGTTTAGTTTA-TAATATTCAATACTATTCAAA-TTACCATCCATTAACGTAACAACT
1 ATCAAAGTGTTTAGTTAAGGAAT-TTCAATGCTATTCAAACTT-CCATCCATTAATGTAACAACT
* * * * *
2671735 TGGATAATTTAACCTATTCAGTATGAAAAC
64 TGGATAAGTTAACCTCTTTAGTCTGTAAAC
* * * * * **
2671765 ATCAAAGTGTTTAGTTAAGGCATTTCAACGCTATTTAAACTTCCATCTATTAATGTGATTACTTG
1 ATCAAAGTGTTTAGTTAAGGAATTTCAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTG
* *
2671830 GATAAGTTAACCTCCTTAATACT-TAAAC
66 GATAAGTTAACCTCTTTAGT-CTGTAAAC
* * * * * *
2671858 ATC-AAGCTGTTTAGTTAAGAAATTTCAACGTTATTCAACCTTCCATCGAATT-TTGTAACAACT
1 ATCAAAG-TGTTTAGTTAAGGAATTTCAATGCTATTCAAACTTCCATC-CATTAATGTAACAACT
* **
2671921 TGGATATGTTAACCTCTTTAGTCCATAAAC
64 TGGATAAGTTAACCTCTTTAGTCTGTAAAC
** * * * * * *
2671951 ATCAAAGTGTTTAGTTAAGTCATTTTAA-CCATATTAAAACATCCATACATTAATGTAACTACTT
1 ATCAAAGTGTTTAGTTAAGGAATTTCAATGC-TATTCAAACTTCCATCCATTAATGTAACAACTT
2672015 GGATAAGTTAACCTC
65 GGATAAGTTAACCTC
2672030 CTTAATACAT
Statistics
Matches: 430, Mismatches: 98, Indels: 32
0.77 0.17 0.06
Matches are distributed among these distances:
92 14 0.03
93 404 0.94
94 12 0.03
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.36
Consensus pattern (93 bp):
ATCAAAGTGTTTAGTTAAGGAATTTCAATGCTATTCAAACTTCCATCCATTAATGTAACAACTTG
GATAAGTTAACCTCTTTAGTCTGTAAAC
Found at i:2671905 original size:279 final size:279
Alignment explanation
Indices: 2671447--2671966 Score: 679
Period size: 279 Copynumber: 1.9 Consensus size: 279
2671437 AACCATTAGT
* * * * * *
2671447 GTAACAACTTGTATAATTTAACCTCTTTAGTCTGTAAACATCAAATTGTTTAGTTAAGGCATTTC
1 GTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAGGCATTTC
* * * * * * *
2671512 AATGCTATTTAAACTTCTAGCCATTAATGGAGCAATTTGAATAAGTTATCCGCTTTAGTCCGTAA
66 AACGCTATTTAAACTTCCAGCCATTAATGGAGCAACTTGAATAAGTTAACCGCCTTAATACGTAA
*
2671577 ACATCAAAGTGTTTAGTTCAGAAATTTCAATCCCATTCAAACATCCATCG-ATTAATGTAACAAC
131 ACATCAAAGTGTTTAGTTAAGAAATTTCAATCCCATTCAAACATCCATCGAATT-ATGTAACAAC
* * **
2671641 ATGGATAAGTTAACATCTTTAGTTCGTAAATGTCAAAGTGTTTAGTTTATAATATTCAATACTAT
195 ATGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTTTATAATATTCAATACTAT
2671706 TCAAATTACCATCCATTAAC
260 TCAAATTACCATCCATTAAC
2671726 GTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAGGCATTTC
1 GTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAGGCATTTC
* * ** * * *
2671791 AACGCTATTTAAACTTCCATCTATTAATGTGA-TTACTTGGATAAGTTAACCTCCTTAATACTTA
66 AACGCTATTTAAACTTCCAGCCATTAATG-GAGCAACTTGAATAAGTTAACCGCCTTAATACGTA
** * * *
2671855 AACATC-AAGCTGTTTAGTTAAGAAATTTCAA-CGTTATTCAACCTTCCATCGAATTTTGTAACA
130 AACATCAAAG-TGTTTAGTTAAGAAATTTCAATC-CCATTCAAACATCCATCGAATTATGTAACA
* * *
2671918 ACTTGGATATGTTAACCTCTTTAGTCCATAAACATCAAAGTGTTTAGTT
193 ACATGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTT
2671967 AAGTCATTTT
Statistics
Matches: 204, Mismatches: 33, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
278 4 0.02
279 195 0.96
280 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (279 bp):
GTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAGGCATTTC
AACGCTATTTAAACTTCCAGCCATTAATGGAGCAACTTGAATAAGTTAACCGCCTTAATACGTAA
ACATCAAAGTGTTTAGTTAAGAAATTTCAATCCCATTCAAACATCCATCGAATTATGTAACAACA
TGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTTTATAATATTCAATACTATT
CAAATTACCATCCATTAAC
Found at i:2672017 original size:279 final size:279
Alignment explanation
Indices: 2671440--2672028 Score: 670
Period size: 279 Copynumber: 2.1 Consensus size: 279
2671430 AACTTCCAAC
* * * * * * *
2671440 CATTAGTGTAACAACTTGTATAATTTAACCTCTTTAGTCTGTAAACATCAAATTGTTTAGTTAAG
1 CATTAATGTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAG
* * * * * *
2671505 GCATTTCAATGCTATTTAAACTTCTAGCCATTAATGGAGCAATTTGAATAAGTTATCCGCTTTAG
66 GCATTTCAACGCTATTTAAACTTCCAGCCATTAATGGAGCAACTTGAATAAGTTAACCGCCTTAA
* *
2671570 TCCGTAAACATCAAAGTGTTTAGTTCAGAAATTTCAATCCCATTCAAACATCCATCGATTAATGT
131 TACGTAAACATCAAAGTGTTTAGTTAAGAAATTTCAATCCCATTCAAACATCCATCGATTAATGT
* * ** *
2671635 AACAACATGGATAAGTTAACATCTTTAGTTCGTAAATGTCAAAGTGTTTAGTTTATAATATTCAA
196 AACAACATGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTTAATAATATTCAA
* * * *
2671700 TACTATTCAAATTACCATC
261 CACTATTAAAAATACCATA
*
2671719 CATTAACGTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAG
1 CATTAATGTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAG
* * ** * *
2671784 GCATTTCAACGCTATTTAAACTTCCATCTATTAATGTGA-TTACTTGGATAAGTTAACCTCCTTA
66 GCATTTCAACGCTATTTAAACTTCCAGCCATTAATG-GAGCAACTTGAATAAGTTAACCGCCTTA
* ** * *
2671848 ATACTTAAACATC-AAGCTGTTTAGTTAAGAAATTTCAA-CGTTATTCAACCTTCCATCGAATT-
130 ATACGTAAACATCAAAG-TGTTTAGTTAAGAAATTTCAATC-CCATTCAAACATCCATCG-ATTA
* * * * *
2671910 TTGTAACAACTTGGATATGTTAACCTCTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGTCAT-
192 ATGTAACAACATGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTTAA-TAATA
*
2671974 TTTAAC-CATATTAAAACAT-CCATA
256 TTCAACAC-TATTAAAA-ATACCATA
* *
2671998 CATTAATGTAACTACTTGGATAAGTTAACCT
1 CATTAATGTAACAACTTGGATAATTTAACCT
2672029 CCTTAATACA
Statistics
Matches: 258, Mismatches: 45, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
278 5 0.02
279 244 0.95
280 9 0.03
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (279 bp):
CATTAATGTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAAAGTGTTTAGTTAAG
GCATTTCAACGCTATTTAAACTTCCAGCCATTAATGGAGCAACTTGAATAAGTTAACCGCCTTAA
TACGTAAACATCAAAGTGTTTAGTTAAGAAATTTCAATCCCATTCAAACATCCATCGATTAATGT
AACAACATGGATAAGTTAACATCTTTAGTCCATAAACATCAAAGTGTTTAGTTAATAATATTCAA
CACTATTAAAAATACCATA
Found at i:2672027 original size:186 final size:184
Alignment explanation
Indices: 2671564--2672332 Score: 516
Period size: 186 Copynumber: 4.2 Consensus size: 184
2671554 AAGTTATCCG
* * * * *
2671564 CTTTAGTCCGTAAACATCAAAGTGTTTAGTTCAGAAATTTCAATCCCATTCAAACATCCATCGAT
1 CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGACATTTCAA-CCTATTAAAACATCCATCGAT
* * * * * * * ** * *
2671629 TAATGTAACAACATGGATAAGTTAACATCTTTAGTTCGTAAATGTCAAAGTGTTTAGTTTATAAT
65 TAATGTAACTACTTGGATAAGTTAACCTCCTTAATACATAAACATC-AAGTGTTTAGTTAAAAAT
* *
2671694 ATTCAATACTATTCAAATTACCATCCATTAACGTAACAACTTGGATAATTTAACCT
129 ATTCAACACTATTCAAATTACCATCAATTAACGTAACAACTTGGATAATTTAACCT
* * * * * *
2671750 ATTCAGT--ATGAAAACATCAAAGTGTTTAGTTAAGGCATTTCAACGCTATTTAAACTTCCATCT
1 CTTTAGTCCAT--AAACATCAAAGTGTTTAGTTAAGACATTTCAAC-CTATTAAAACATCCATCG
* * *
2671813 ATTAATGTGATTACTTGGATAAGTTAACCTCCTTAATACTTAAACATCAAGCTGTTTAGTTAAGA
63 ATTAATGTAACTACTTGGATAAGTTAACCTCCTTAATACATAAACATCAAG-TGTTTAGTTAA-A
** * **
2671878 AAT-TTCAACGTTATTCAACCTT-CCATCGAATT-TTGTAACAACTTGGAT-ATGTTAACCT
126 AATATTCAACACTATTCAA-ATTACCATC-AATTAACGTAACAACTTGGATAAT-TTAACCT
* *
2671936 CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGTCATTTTAACCATATTAAAACATCCATAC-A
1 CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGACATTTCAACC-TATTAAAACATCCAT-CGA
* *
2672000 TTAATGTAACTACTTGGATAAGTTAACCTCCTTAATACATACACATCACATTGTTTAG-T-----
64 TTAATGTAACTACTTGGATAAGTTAACCTCCTTAATACATAAACATCA-AGTGTTTAGTTAAAAA
* * *
2672059 T-TTCAA-AC--TTC-CA-T-CCAT-TATT---GTAACAACTTGGATAAGTTAACCT
128 TATTCAACACTATTCAAATTACCATCAATTAACGTAACAACTTGGATAATTTAACCT
** * * ** * *
2672105 CTTTAGTCTGTAAACATCAAAG-GTTTACTTAAGTCATTTCAACCCTATTAAAATTTACATCTAT
1 CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGACATTTCAA-CCTATTAAAACATCCATCGAT
** * * * * * * *** * * * *
2672169 TAAACTAACAACTTGTATAAATGAACCTCTTTAGTTTGTAAGCATCAAAGTATCTAGTTAAGACA
65 TAATGTAACTACTTGGATAAGTTAACCTCCTTAATACATAAACATC-AAGTGTTTAGTTAA-AAA
* * * * ** * *
2672234 T-TTCACCGCTATTCAAA-CATCCATCCATTATTGTAACAACCTAGAT-ATGTTAA-CT
128 TATTCAACACTATTCAAATTA-CCATCAATTAACGTAACAACTTGGATAAT-TTAACCT
* *
2672289 ACCTTAGTCCATAAACATCAATGTGTTTAGTTAAGACATTTCAA
1 -CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGACATTTCAA
2672333 TGTTAATCAA
Statistics
Matches: 462, Mismatches: 84, Indels: 74
0.75 0.14 0.12
Matches are distributed among these distances:
167 1 0.00
168 71 0.15
169 45 0.10
170 1 0.00
171 3 0.01
173 5 0.01
175 5 0.01
176 4 0.01
178 3 0.01
179 7 0.02
181 4 0.01
182 3 0.01
184 4 0.01
185 42 0.09
186 252 0.55
187 10 0.02
188 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (184 bp):
CTTTAGTCCATAAACATCAAAGTGTTTAGTTAAGACATTTCAACCTATTAAAACATCCATCGATT
AATGTAACTACTTGGATAAGTTAACCTCCTTAATACATAAACATCAAGTGTTTAGTTAAAAATAT
TCAACACTATTCAAATTACCATCAATTAACGTAACAACTTGGATAATTTAACCT
Found at i:2672373 original size:354 final size:355
Alignment explanation
Indices: 2671705--2672383 Score: 798
Period size: 354 Copynumber: 1.9 Consensus size: 355
2671695 TTCAATACTA
*
2671705 TTCAAATTACCATCCATTAACGTAACAACTTGGATAATTTAACCTATTCAGTATGAAAACATCAA
1 TTCAAATTACCATCCATTAACGTAACAACTTGGATAAGTTAACCTATTCAGTATGAAAACATCAA
* * * * ** * **
2671770 AGTGTTTAGTTAAGGCATTTCAACGCTATTTAAACTTCCATCTATTAATGTGATTACTTGGATAA
66 AGTGTTTACTTAAGGCATTTCAACCCTATTAAAACTTACATCTATTAAACTAACAACTTGGATAA
* * * * * * *
2671835 GTTAACCTCCTTAATACTTAAACATCAAGCTGTTTAGTTAAGAAATTTCAACGTTATTCAACCTT
131 ATGAACCTCCTTAATACTTAAACATCAAGCTATCTAGTTAAGAAATTTCAACGCTATTCAAACAT
* * *
2671900 CCATCGAATTTTGTAACAACTTGGATATGTTAACCTCTTTAGTCCATAAACATCAAAGTGTTTAG
196 CCATCGAATTTTGTAACAACCTAGATATGTTAACCTCCTTAGTCCATAAACATCAAAGTGTTTAG
* * * * * *
2671965 TTAAGTCATTTTAACCATATTAAAACATCCATACATTAATGTAACTACTTGGATAAGTTAACCTC
261 TTAAGACATTTCAACCATAATAAAACATCCATACATGAATATAACAACTTGGATAAGTTAACCTC
2672030 CTTAATACATACACATCACATTGTTTAGTT
326 CTTAATACATACACATCACATTGTTTAGTT
** * * * *
2672060 TTCAAACTT-CCATCCATTATTGTAACAACTTGGATAAGTTAACCTCTTTAGTCTGTAAACATCA
1 TTCAAA-TTACCATCCATTAACGTAACAACTTGGATAAGTTAACCTATTCAGTATGAAAACATCA
* * *
2672124 AAG-GTTTACTTAAGTCATTTCAACCCTATTAAAATTTACATCTATTAAACTAACAACTTGTATA
65 AAGTGTTTACTTAAGGCATTTCAACCCTATTAAAACTTACATCTATTAAACTAACAACTTGGATA
* * * * * *
2672188 AATGAACCTCTTTAGT-TTGTAAGCATCAAAG-TATCTAGTTAAGACATTTCACCGCTATTCAAA
130 AATGAACCTCCTTAATACT-TAAACATC-AAGCTATCTAGTTAAGAAATTTCAACGCTATTCAAA
* *
2672251 CATCCATC-CATTATTGTAACAACCTAGATATGTTAA-CTACCTTAGTCCATAAACATCAATGTG
193 CATCCATCGAATT-TTGTAACAACCTAGATATGTTAACCT-CCTTAGTCCATAAACATCAAAGTG
*** * * *
2672314 TTTAGTTAAGACATTTCAATGTTAATCAAACTTCCAT-CAATGAATATGAA-AATTTGGATAAGT
256 TTTAGTTAAGACATTTCAACCATAATAAAACATCCATAC-ATGAATAT-AACAACTTGGATAAGT
2672377 TAACCTC
319 TAACCTC
2672384 TTTAGTTTGT
Statistics
Matches: 268, Mismatches: 49, Indels: 15
0.81 0.15 0.05
Matches are distributed among these distances:
353 7 0.03
354 197 0.74
355 62 0.23
356 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (355 bp):
TTCAAATTACCATCCATTAACGTAACAACTTGGATAAGTTAACCTATTCAGTATGAAAACATCAA
AGTGTTTACTTAAGGCATTTCAACCCTATTAAAACTTACATCTATTAAACTAACAACTTGGATAA
ATGAACCTCCTTAATACTTAAACATCAAGCTATCTAGTTAAGAAATTTCAACGCTATTCAAACAT
CCATCGAATTTTGTAACAACCTAGATATGTTAACCTCCTTAGTCCATAAACATCAAAGTGTTTAG
TTAAGACATTTCAACCATAATAAAACATCCATACATGAATATAACAACTTGGATAAGTTAACCTC
CTTAATACATACACATCACATTGTTTAGTT
Found at i:2672415 original size:186 final size:185
Alignment explanation
Indices: 2672060--2672415 Score: 421
Period size: 186 Copynumber: 1.9 Consensus size: 185
2672050 TTGTTTAGTT
* * * * **
2672060 TTCAAACTTCCATCCATTATTGTAACAACTTGGATAAGTTAACCTCTTTAGTCTGTAAACATCAA
1 TTCAAACATCCATCCATTATTGTAACAACCTAGATAAGTTAACCTCCTTAGTCCATAAACATCAA
* * * * * *
2672125 AGGTTTACTTAAGTCATTTCAACCCTATTAAAATTTACATCTATTAAACTAACAACTTGTATAAA
66 AGGTTTACTTAAGACATTTCAACCCTAATAAAACTTACATCAATGAAACTAACAACTTGGATAAA
*
2672190 TGAACCTCTTTAGTTTGTAAGCATCAAAGTATCTAGTTAAGACATTTCACCGCTA
131 TGAACCTCTTTAGTTTGTAAACATCAAAGTATCTAGTTAAGACATTTCACCGCTA
*
2672245 TTCAAACATCCATCCATTATTGTAACAACCTAGATATGTTAA-CTACCTTAGTCCATAAACATCA
1 TTCAAACATCCATCCATTATTGTAACAACCTAGATAAGTTAACCT-CCTTAGTCCATAAACATCA
* * *** * * *
2672309 ATGTGTTTAGTTAAGACATTTCAATGTTAATCAAACTTCCATCAATGAATA-TGAA-AATTTGGA
65 AAG-GTTTACTTAAGACATTTCAACCCTAATAAAACTTACATCAATGAA-ACT-AACAACTTGGA
* * * *
2672372 TAAGTTAACCTCTTTAGTTTGTAAACATCAAAGTGTTTAGTTAA
127 TAAATGAACCTCTTTAGTTTGTAAACATCAAAGTATCTAGTTAA
2672416 TTTCAACGTT
Statistics
Matches: 141, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
184 2 0.01
185 56 0.40
186 80 0.57
187 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (185 bp):
TTCAAACATCCATCCATTATTGTAACAACCTAGATAAGTTAACCTCCTTAGTCCATAAACATCAA
AGGTTTACTTAAGACATTTCAACCCTAATAAAACTTACATCAATGAAACTAACAACTTGGATAAA
TGAACCTCTTTAGTTTGTAAACATCAAAGTATCTAGTTAAGACATTTCACCGCTA
Found at i:2672624 original size:93 final size:94
Alignment explanation
Indices: 2672514--2672734 Score: 239
Period size: 93 Copynumber: 2.4 Consensus size: 94
2672504 TACCATATAT
* * * *
2672514 CAATGTAACAACATGGATAAGTTAACATCTTTAGTTC-GTCAACATCGAATTCTTTAGGTAAGAC
1 CAATGTAACAACTTGGATAAGTTAACATCTTTAGTTCGGTAAACATCAAAGTCTTTAGGTAAGAC
** **
2672578 ATTTAAACTTTATTCAAACTTGCATCCTC
66 ATTTAAACGCTATTCAAACTTGCATCCAA
* ** * * * * *
2672607 CAATGCAACAACTTGGATAAGTGGACCTCTTTCG-TCGGTAAACATCAAAGTGTTTAGTTAATAC
1 CAATGTAACAACTTGGATAAGTTAACATCTTTAGTTCGGTAAACATCAAAGTCTTTAGGTAAGAC
* * *
2672671 TTTTCAACGCTATTCAAACTTTCATCCAA
66 ATTTAAACGCTATTCAAACTTGCATCCAA
* *
2672700 TAATGTAACAACTTGGATAAGTTAACATCGTTAGT
1 CAATGTAACAACTTGGATAAGTTAACATCTTTAGT
2672735 CAATGCTAGT
Statistics
Matches: 100, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
92 2 0.02
93 98 0.98
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (94 bp):
CAATGTAACAACTTGGATAAGTTAACATCTTTAGTTCGGTAAACATCAAAGTCTTTAGGTAAGAC
ATTTAAACGCTATTCAAACTTGCATCCAA
Found at i:2672887 original size:93 final size:93
Alignment explanation
Indices: 2672744--2673696 Score: 704
Period size: 93 Copynumber: 10.2 Consensus size: 93
2672734 TCAATGCTAG
* * * * * *
2672744 TCAAACATCCATTTATTTATGTAACAACATT-TATAAGTTAATCTCCTTAGTCGATAAACATCAA
1 TCAAACTTCCATCTATTAATGTAACAAC-TTGGATAAGTTAACCTCTTTAGTCGATAAACATCAA
**
2672808 AGTGTTTAGTTAAGACATTTCAATGCTAT
65 AGTGTTTAGTTAAGACATTTCAACACTAT
* * * * * * *
2672837 TAAAACTTCCATCTATTATTGTATCTACTTAGTTAAGTTAACCTCTTTAGTCCG-TAAACAACAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGT-CGATAAACATCAA
** ** * *
2672901 TTTACTTAGTTAAGACCTTTCAATACTAT
65 AGTGTTTAGTTAAGACATTTCAACACTAT
* * * * *
2672930 TCAAACGTCCATCAATTAGTGTAACAACTTGGATAAGTTAACCTCTTCAGT-TAGTAAACATCAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCGA-TAAACATCAA
* * ** *
2672994 GGTGTTTAATTTCGACATTTCAACGCTAT
65 AGTGTTTAGTTAAGACATTTCAACACTAT
* * * * * * * **
2673023 TCAAACTTCCACCTATTAATGGAACAACTTGGATAAGTTAACCTATTTATTCTAGAAGCAAAAAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCGATAAACATCAAA
* * ** *
2673088 ATGTTTACTTAAGGTATTTCAATACTAT
66 GTGTTTAGTTAAGACATTTCAACACTAT
* * * * * *
2673116 TCAGACTTCCATCCATTAATGTAACAATTTAGATAATATGTTAACATCTTTATTC-ATTAAACAT
1 TCAAACTTCCATCTATTAATGTAACAACTTGGAT-A-A-GTTAACCTCTTTAGTCGA-TAAACAT
* *
2673180 CAAAGTGTTCAGTTAATACATTTCAACACTAT
62 CAAAGTGTTTAGTTAAGACATTTCAACACTAT
* * ** * * * * * *
2673212 TCAAACTTTCATCCATTAATGTAACAACTTACATATGTTAAACTTTTTACTCCATAAATATCAAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCGATAAACATCAAA
*
2673277 GTGTTTAGTTAAGACATTTCAACGCTAT
66 GTGTTTAGTTAAGACATTTCAACACTAT
* * * * * * * *
2673305 TTAAACTTCCAACTATTGATGCAATAACTTGGATAAGTTAACCTATTTAGTCTG-TAAATATCGA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTC-GATAAACATCAA
* *
2673369 AGAGTTTAGTTAAGACATTTCAACGCTAT
65 AGTGTTTAGTTAAGACATTTCAACACTAT
* ** * * * * * * *
2673398 TCAAATTTCCATCTAACAATGTAACAACTTGAATAATTTAATCTATTTTGTCAATAACCATCAAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCGATAAACATCAAA
* * *
2673463 -TAGTTTATTTAAGAAATTTCAACACGAT
66 GT-GTTTAGTTAAGACATTTCAACACTAT
* * * * *
2673491 TCAAACTTCCATCTATTATTGTGACAACTTGGATAACTTAACCTCCTTAGTTCG-TAAATATCAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAG-TCGATAAACATCAA
* * *
2673555 AGTATTTAGTTAA-AAATTTCAACGA-GAT
65 AGTGTTTAGTTAAGACATTTCAAC-ACTAT
* * * * * * * * * * * *
2673583 GCAAACTTGCATCCATTAATGTAACAAGTTCGCTAGGCTAAACTCTTTAGTTTG-TAAATAACAA
1 TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAG-TCGATAAACATCAA
* * * * *
2673647 AATCTTTAGTGAATACATTTCAACGCTAT
65 AGTGTTTAGTTAAGACATTTCAACACTAT
2673676 TCAAACTTCCATAC-ATTAATG
1 TCAAACTTCCAT-CTATTAATG
2673697 AGATATATGA
Statistics
Matches: 673, Mismatches: 168, Indels: 38
0.77 0.19 0.04
Matches are distributed among these distances:
92 74 0.11
93 514 0.76
94 10 0.01
95 3 0.00
96 72 0.11
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (93 bp):
TCAAACTTCCATCTATTAATGTAACAACTTGGATAAGTTAACCTCTTTAGTCGATAAACATCAAA
GTGTTTAGTTAAGACATTTCAACACTAT
Found at i:2674663 original size:19 final size:18
Alignment explanation
Indices: 2674636--2674681 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
2674626 AGGATAATGA
* *
2674636 ATATTAAGACAATGAATAT
1 ATATAAAGACAAT-AAGAT
2674655 ATATAAAGACAATAAGAT
1 ATATAAAGACAATAAGAT
*
2674673 AGATAAAGA
1 ATATAAAGA
2674682 TGATTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 12 0.50
19 12 0.50
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (18 bp):
ATATAAAGACAATAAGAT
Found at i:2674680 original size:18 final size:19
Alignment explanation
Indices: 2674641--2674681 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
2674631 AATGAATATT
* *
2674641 AAGACAATGAATATATATA
1 AAGACAATGAAGATAGATA
2674660 AAGACAAT-AAGATAGATA
1 AAGACAATGAAGATAGATA
2674678 AAGA
1 AAGA
2674682 TGATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.61, C:0.05, G:0.15, T:0.20
Consensus pattern (19 bp):
AAGACAATGAAGATAGATA
Found at i:2674872 original size:93 final size:92
Alignment explanation
Indices: 2674739--2674966 Score: 296
Period size: 93 Copynumber: 2.4 Consensus size: 92
2674729 TTGTTAAAAA
* * * ** *
2674739 GTCTTAACTAAACACTTTGATGTTTACGGAATAAAAAGGTTAACTTATTAAAGTTGTTTTATTAA
1 GTCTTAACTAAACACTTTGATGTTTA-TGAATAAAGAGGTTAACTTATCAAAGTTGTTACATAAA
2674804 TAGATGGAAGATTGAATAGCGTTGAAAT
65 TAGATGGAAGATTGAATAGCGTTGAAAT
* * *
2674832 GTCTTAACTAATCATTTTGATGTTTATGAACTAAAGAGGTTAACTTATCCAAGTTGTTACATAAA
1 GTCTTAACTAAACACTTTGATGTTTATGAA-TAAAGAGGTTAACTTATCAAAGTTGTTACATAAA
* * * *
2674897 TGGATGGAAGTTTGAATAGTGTTTAAAT
65 TAGATGGAAGATTGAATAGCGTTGAAAT
2674925 GTCTTAACTAAACACTTTGATGTTTACAT-AATAAAGAGGTTA
1 GTCTTAACTAAACACTTTGATGTTT--ATGAATAAAGAGGTTA
2674967 CAACTTGGTT
Statistics
Matches: 117, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
92 3 0.03
93 110 0.94
94 2 0.02
95 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (92 bp):
GTCTTAACTAAACACTTTGATGTTTATGAATAAAGAGGTTAACTTATCAAAGTTGTTACATAAAT
AGATGGAAGATTGAATAGCGTTGAAAT
Found at i:2679232 original size:19 final size:19
Alignment explanation
Indices: 2679205--2679249 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2679195 ACATCATCTG
*
2679205 AACCATCTCGAACAAGACA
1 AACCTTCTCGAACAAGACA
*
2679224 AACCTTCTCGTACAAGACA
1 AACCTTCTCGAACAAGACA
2679243 AACCTTC
1 AACCTTC
2679250 AGTTTCAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.33, G:0.09, T:0.18
Consensus pattern (19 bp):
AACCTTCTCGAACAAGACA
Found at i:2690279 original size:101 final size:102
Alignment explanation
Indices: 2690136--2690434 Score: 367
Period size: 101 Copynumber: 2.9 Consensus size: 102
2690126 ACATAAGCCT
* * *
2690136 TTGAGATT-ATTTCTCTCAAAAC-AATTTTGTC-T-CATTTGAGATAGTTTTCCCTTGAAACACA
1 TTGAGATTGTTTTC-CTAAAAACAAATTTTGTCTTGC-TTT-AGATAATTTTCCCTTGAAACA-A
*
2690197 AAA-TTTGAAATTGTTTCACTTGAAA-AAAATTGATATCCC
62 AAATTTTGAAATTGTTTCACTTGAAACAAAATTGATATCAC
2690236 TTGAGATTGTTTTCCTAAAAACAAATTTTGTCTTGCTTTAGATAATTTTCCCTTGAAACAAAAAA
1 TTGAGATTGTTTTCCTAAAAACAAATTTTGTCTTGCTTTAGATAATTTTCCCTTGAAAC-AAAAA
* * *
2690301 TTTTGAAATTTTTTCACTTAAAACAAAATTGATCTCAC
65 TTTTGAAATTGTTTCACTTGAAACAAAATTGATATCAC
* * * * * *
2690339 TTGAGATTGTTTTCCTTAATAAAAAAAATTTGTCTCGCTTGAGATAATTTTCTCTCGAAACAAAA
1 TTGAGATTGTTTTCC-TAA-AAACAAATTTTGTCTTGCTTTAGATAATTTTCCCTTGAAACAAAA
*
2690404 ATTTTGAAATTGTTTCACTCGAAACAAAATT
64 ATTTTGAAATTGTTTCACTTGAAACAAAATT
2690435 TATCACACCT
Statistics
Matches: 174, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
100 15 0.09
101 36 0.21
102 25 0.14
103 28 0.16
104 35 0.20
105 35 0.20
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.39
Consensus pattern (102 bp):
TTGAGATTGTTTTCCTAAAAACAAATTTTGTCTTGCTTTAGATAATTTTCCCTTGAAACAAAAAT
TTTGAAATTGTTTCACTTGAAACAAAATTGATATCAC
Found at i:2690430 original size:104 final size:102
Alignment explanation
Indices: 2690161--2690449 Score: 375
Period size: 104 Copynumber: 2.8 Consensus size: 102
2690151 TCAAAACAAT
** *
2690161 TTTGTCTCATTTGAGATAGTTTTCCCTTGAAACACAAAA-TTTGAAATTGTTTCACTTGAAA-AA
1 TTTGTCTCGCTTGAGATAATTTTCCCTTGAAACA-AAAATTTTGAAATTGTTTCACTTGAAACAA
* * * *
2690224 AATTGATATCCCTTGAGATTGTTTTCCTAAAAACAAAT
65 AATTGATCTCACTTGAGATTGTTTTCCTAAAAAAAAAA
* * * *
2690262 TTTGTCTTGCTTTAGATAATTTTCCCTTGAAACAAAAAATTTTGAAATTTTTTCACTTAAAACAA
1 TTTGTCTCGCTTGAGATAATTTTCCCTTGAAAC-AAAAATTTTGAAATTGTTTCACTTGAAACAA
2690327 AATTGATCTCACTTGAGATTGTTTTCCTTAATAAAAAAAA
65 AATTGATCTCACTTGAGATTGTTTTCC-TAA-AAAAAAAA
* * *
2690367 TTTGTCTCGCTTGAGATAATTTTCTCTCGAAACAAAAATTTTGAAATTGTTTCACTCGAAACAAA
1 TTTGTCTCGCTTGAGATAATTTTCCCTTGAAACAAAAATTTTGAAATTGTTTCACTTGAAACAAA
* * *
2690432 ATTTATCACACCTGAGAT
66 ATTGATCTCACTTGAGAT
2690450 AGGTTCTCTA
Statistics
Matches: 162, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
101 32 0.20
102 21 0.13
103 27 0.17
104 47 0.29
105 35 0.22
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (102 bp):
TTTGTCTCGCTTGAGATAATTTTCCCTTGAAACAAAAATTTTGAAATTGTTTCACTTGAAACAAA
ATTGATCTCACTTGAGATTGTTTTCCTAAAAAAAAAA
Found at i:2691914 original size:20 final size:21
Alignment explanation
Indices: 2691875--2691915 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2691865 CAACAGACCT
2691875 AAAATAGTGCAAAGTATACAC
1 AAAATAGTGCAAAGTATACAC
2691896 AAAATCAGT-CAAA-TATACAC
1 AAAAT-AGTGCAAAGTATACAC
2691916 CCAATCCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 9 0.47
22 3 0.16
ACGTcount: A:0.54, C:0.17, G:0.10, T:0.20
Consensus pattern (21 bp):
AAAATAGTGCAAAGTATACAC
Done.