Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_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: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 21
Found at i:2124366 original size:24 final size:23
Alignment explanation
Indices: 2124310--2124366 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
2124300 CTGATATGGA
*
2124310 AACAATTTTGTAATCTATTCCAT
1 AACAATTTTGTAATCTAATCCAT
*
2124333 ATAC-ATTTTTTCAATCTAATCCTAT
1 A-ACAATTTTGT-AATCTAATCC-AT
2124358 AACAATTTT
1 AACAATTTT
2124367 ATCCATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
23 7 0.25
24 13 0.46
25 8 0.29
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.46
Consensus pattern (23 bp):
AACAATTTTGTAATCTAATCCAT
Found at i:2124835 original size:21 final size:21
Alignment explanation
Indices: 2124784--2124836 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
2124774 ATTATGACTA
*
2124784 TCGCAATACGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
2124805 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
2124826 TCGCAATGCGA
1 TCGCAATGCGA
2124837 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:2124869 original size:21 final size:21
Alignment explanation
Indices: 2124826--2124919 Score: 127
Period size: 21 Copynumber: 4.5 Consensus size: 21
2124816 TTTTCCCAAT
** *
2124826 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
2124846 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
2124867 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
*
2124888 TCGCAATGCAAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* *
2124909 TCACAACGCGA
1 TCGCAATGCGA
2124920 TACTTAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
20 12 0.18
21 54 0.82
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:2124937 original size:20 final size:20
Alignment explanation
Indices: 2124912--2124961 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
2124902 TGGAAAATCA
*
2124912 CAACGCGATACTTAATTTCG
1 CAACGCGATACTGAATTTCG
* *
2124932 CAACGCAATACTGACTTTCG
1 CAACGCGATACTGAATTTCG
*
2124952 CAACGAGATA
1 CAACGCGATA
2124962 ATACATAATC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (20 bp):
CAACGCGATACTGAATTTCG
Found at i:2125176 original size:22 final size:22
Alignment explanation
Indices: 2125148--2125191 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
2125138 CACTCTCTCA
*
2125148 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
*
2125170 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
2125192 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:2125503 original size:20 final size:20
Alignment explanation
Indices: 2125454--2125512 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
2125444 TTTATTCTCT
* **
2125454 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
2125474 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
2125494 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
2125513 AGAGTATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:2126830 original size:25 final size:24
Alignment explanation
Indices: 2126776--2126830 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
2126766 TGTTTATTAT
* *
2126776 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
2126800 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
2126826 TGTTT
1 TGTTT
2126831 ATTATTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:2127812 original size:18 final size:18
Alignment explanation
Indices: 2127791--2127856 Score: 96
Period size: 18 Copynumber: 3.7 Consensus size: 18
2127781 TCCACTTCGG
2127791 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
* *
2127809 GAGCTATTACCTCACCCA
1 GAGCCATCACCTCACCCA
* *
2127827 GAGCTATTACCTCACCCA
1 GAGCCATCACCTCACCCA
2127845 GAGCCATCACCT
1 GAGCCATCACCT
2127857 GATCGACCCG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.18
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:2128445 original size:19 final size:20
Alignment explanation
Indices: 2128391--2128457 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
2128381 TAGTTTACTT
* *
2128391 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
2128411 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
2128431 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
2128450 TCGCAACG
1 TCGCAACG
2128458 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:2128465 original size:14 final size:14
Alignment explanation
Indices: 2128446--2128504 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
2128436 ATGCGAAATG
2128446 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2128460 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
2128479 AAAATCGCAACGAC
1 AAAATCGCAACGAC
2128493 AAAATCGCAACG
1 AAAATCGCAACG
2128505 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2128472 original size:33 final size:33
Alignment explanation
Indices: 2128430--2128517 Score: 167
Period size: 33 Copynumber: 2.7 Consensus size: 33
2128420 GGAAATGGCT
2128430 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2128463 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2128496 ATCGCAACGCGAAATGAAAATC
1 ATCGCAATGCGAAATGAAAATC
2128518 AAAATGCGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2128484 original size:19 final size:18
Alignment explanation
Indices: 2128430--2128517 Score: 75
Period size: 19 Copynumber: 5.2 Consensus size: 18
2128420 GGAAATGGCT
2128430 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
2128449 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
2128463 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
2128482 ATCGCAA-CG--A-CAAA
1 ATCGCAAGCGAAATGAAA
2128496 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
2128515 ATC
1 ATC
2128518 AAAATGCGAT
Statistics
Matches: 55, Mismatches: 4, Indels: 20
0.70 0.05 0.25
Matches are distributed among these distances:
14 20 0.36
15 2 0.04
16 4 0.07
17 4 0.07
18 2 0.04
19 23 0.42
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:2128598 original size:20 final size:20
Alignment explanation
Indices: 2128566--2128638 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
2128556 GCGATTTTTA
*
2128566 TTTCGCATTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
2128586 TTCCGCGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
*
2128606 TTTCACGTTGCGATAGCCAT
1 TTTCGCGTTGCGATAGCCAT
2128626 TTTCGCGTTGCGA
1 TTTCGCGTTGCGA
2128639 AAGTAAGTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGCCAT
Found at i:2128649 original size:20 final size:20
Alignment explanation
Indices: 2128626--2128664 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2128616 CGATAGCCAT
2128626 TTTCGCGTTGCGAAAGTAAG
1 TTTCGCGTTGCGAAAGTAAG
*
2128646 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCGAAAGTAA
2128665 ACTATTCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTTCGCGTTGCGAAAGTAAG
Found at i:2128656 original size:40 final size:40
Alignment explanation
Indices: 2128573--2128658 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
2128563 TTATTTCGCA
* * *
2128573 TTGCGATAGCCATTTCCGCGTTGCGATAGCCATTTTCACG
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGCAAGTTTCACG
* * **
2128613 TTGCGATAGCCATTTTCGCGTTGCGAAAGTAAGTTTCGTG
1 TTGCGATAGCCATTTCCGCGTTGCGAAAGCAAGTTTCACG
2128653 TTGCGA
1 TTGCGA
2128659 AAGTAAACTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.34
Consensus pattern (40 bp):
TTGCGATAGCCATTTCCGCGTTGCGAAAGCAAGTTTCACG
Found at i:2129038 original size:21 final size:20
Alignment explanation
Indices: 2129007--2129080 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 20
2128997 ACTCACCTGT
*
2129007 CATCCTTCAAGAGTCCCCTC
1 CATCGTTCAAGAGTCCCCTC
* *
2129027 CAATCGTTCAAGAGGCCCCTAT
1 C-ATCGTTCAAGAGTCCCCT-C
**
2129049 CATCCCTCAAGAGTCCCC-C
1 CATCGTTCAAGAGTCCCCTC
*
2129068 CACCGTTCAAGAG
1 CATCGTTCAAGAG
2129081 GCCACTGTCA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
19 10 0.24
20 1 0.02
21 30 0.71
22 1 0.02
ACGTcount: A:0.24, C:0.41, G:0.15, T:0.20
Consensus pattern (20 bp):
CATCGTTCAAGAGTCCCCTC
Found at i:2129092 original size:40 final size:42
Alignment explanation
Indices: 2129003--2129092 Score: 130
Period size: 40 Copynumber: 2.2 Consensus size: 42
2128993 CCCGACTCAC
* * *
2129003 CTGTCATCCTTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
*
2129045 CTATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
2129085 CTGTCATC
1 CTGTCATC
2129093 GTTGAATAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 21 0.49
41 2 0.05
42 20 0.47
ACGTcount: A:0.22, C:0.40, G:0.16, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:2130702 original size:33 final size:34
Alignment explanation
Indices: 2130647--2130725 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 34
2130637 AAAACAGATT
** * *
2130647 ATCGCAACACGAAACTGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAACTGACTATCGCAACGAGAAA
* * *
2130681 ATCGTAATGCGAAA-TGGCTATCGCAACGATAAA
1 ATCGCAATGCGAAACTGACTATCGCAACGAGAAA
2130714 ATCGCAATGCGA
1 ATCGCAATGCGA
2130726 TTTTCATTTC
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
33 26 0.70
34 11 0.30
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAAACTGACTATCGCAACGAGAAA
Found at i:2130769 original size:20 final size:20
Alignment explanation
Indices: 2130744--2130819 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
2130734 TCGCATTGCG
*
2130744 ATTTTCTCATTGCGATAGCC
1 ATTTTCGCATTGCGATAGCC
*
2130764 ATTTTCGCATTGTGATAGCC
1 ATTTTCGCATTGCGATAGCC
* *
2130784 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCATTGCGATAGCC
*
2130804 ATTTTCGCGTTGCGAT
1 ATTTTCGCATTGCGAT
2130820 TTCCCCGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (20 bp):
ATTTTCGCATTGCGATAGCC
Found at i:2131058 original size:20 final size:20
Alignment explanation
Indices: 2131042--2131118 Score: 109
Period size: 20 Copynumber: 3.9 Consensus size: 20
2131032 ATTGCGATTT
*
2131042 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
2131062 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
* *
2131082 CCAGTATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
* *
2131102 TCAGTATTGCGTTGCGA
1 TCAGAATCGCGTTGCGA
2131119 TTTTGTATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:2131145 original size:41 final size:41
Alignment explanation
Indices: 2131086--2131163 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
2131076 CGAAAGCCAG
* *
2131086 TATCGCGTTGCGAAAGTCAGTATTGCGTTGCGATTTTGTAT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
*
2131127 TATCGCGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTT
2131164 CCAAATTCGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTAT
Found at i:2131160 original size:20 final size:20
Alignment explanation
Indices: 2131051--2131159 Score: 121
Period size: 20 Copynumber: 5.4 Consensus size: 20
2131041 TTCAGAATCT
*
2131051 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
2131071 CGTTGCGAAAGCCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
2131091 CGTTGCGAAAGTCAGTATTG
1 CGTTGCGAAAGTCAGTATCG
** *
2131111 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
2131132 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
2131152 CATTGCGA
1 CGTTGCGA
2131160 TTTTCCAAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
19 3 0.04
20 57 0.76
21 13 0.17
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:2131197 original size:20 final size:21
Alignment explanation
Indices: 2131149--2131200 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
2131139 ATAGTCAGTA
*
2131149 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
* **
2131170 TCGTATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
2131190 TCGCATTGCGA
1 TCGCATTGCGA
2131201 ATTGGGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:2131302 original size:20 final size:20
Alignment explanation
Indices: 2131211--2131297 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
2131201 ATTGGGAAAA
* *
2131211 TCGCAACGCGATACTTACTT
1 TCGCAACGCGATTCTGACTT
*
2131231 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
2131251 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
* *
2131271 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATTCTGACTT
2131291 TCGCAAC
1 TCGCAAC
2131298 CAGATAATAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:2132059 original size:24 final size:24
Alignment explanation
Indices: 2132032--2132085 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2132022 GTATTCGAAA
*
2132032 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
2132056 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
2132080 TTTGAT
1 TTTGAT
2132086 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:2132277 original size:12 final size:12
Alignment explanation
Indices: 2132260--2132284 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2132250 ATATAATCCT
2132260 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2132272 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2132284 G
1 G
2132285 TCTCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2132616 original size:20 final size:19
Alignment explanation
Indices: 2132588--2132642 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
2132578 CAATCATCTT
*
2132588 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
2132608 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
2132627 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
2132643 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:2132630 original size:19 final size:20
Alignment explanation
Indices: 2132549--2132642 Score: 68
Period size: 20 Copynumber: 4.7 Consensus size: 20
2132539 GGAAATCATT
*
2132549 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* **
2132569 TGACGT-TCGCAATCATC-TTAA
1 TGAC-TATCGCAA-C-GCGGAAA
*
2132590 TGTCTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
*
2132610 TGACTATCGCAATGC-GAAA
1 TGACTATCGCAACGCGGAAA
**
2132629 TGAAAATCGCAACG
1 TGACTATCGCAACG
2132643 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
19 16 0.28
20 27 0.47
21 13 0.23
22 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:2132657 original size:33 final size:33
Alignment explanation
Indices: 2132615--2132741 Score: 209
Period size: 33 Copynumber: 3.8 Consensus size: 33
2132605 GGAAATGACT
2132615 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2132648 ATCGCAATGCAAAATGAAAATCGTAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
2132681 ATCGCAACGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2132714 ATCGCAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2132742 CGAATTTAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 87 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2132704 original size:19 final size:18
Alignment explanation
Indices: 2132595--2132745 Score: 83
Period size: 19 Copynumber: 8.7 Consensus size: 18
2132585 CTTAATGTCT
**
2132595 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
2132615 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
2132634 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
*
2132648 ATCGCAATGCAAAATGAAA
1 ATCGCAA-GCGAAATGAAA
* *
2132667 ATCGTAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
2132681 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
2132700 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
2132714 ATCGCAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
2132733 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
2132746 TTTAGTTTCA
Statistics
Matches: 100, Mismatches: 15, Indels: 33
0.68 0.10 0.22
Matches are distributed among these distances:
14 26 0.26
15 5 0.05
16 5 0.05
17 5 0.05
18 5 0.05
19 45 0.45
20 9 0.09
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:2132783 original size:19 final size:19
Alignment explanation
Indices: 2132741--2132817 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
2132731 AAATCGCAAC
* *
2132741 GCGAATTTAGTTTCACGTT
1 GCGATTTTAGTTTCGCGTT
2132760 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
2132779 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
2132793 GTGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
2132812 GCGATT
1 GCGATT
2132818 CTCTCGTTGC
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
14 11 0.23
16 1 0.02
17 1 0.02
18 1 0.02
19 34 0.71
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.47
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:2132799 original size:33 final size:33
Alignment explanation
Indices: 2132756--2132882 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
2132746 TTTAGTTTCA
* *
2132756 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTCTCT
*
2132789 CGTTGTGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
2132822 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
2132855 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
2132883 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
33 87 0.99
34 1 0.01
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:2132827 original size:14 final size:14
Alignment explanation
Indices: 2132808--2132864 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2132798 TTTCATTTCG
2132808 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2132822 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2132841 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2132855 CGTTGCGATT
1 CGTTGCGATT
2132865 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2132846 original size:19 final size:19
Alignment explanation
Indices: 2132751--2132882 Score: 89
Period size: 19 Copynumber: 7.7 Consensus size: 19
2132741 GCGAATTTAG
*
2132751 TTTCACGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
2132769 GTTTCGCGTTGCGA-TTT--
1 -TTTCGCGTTGCGATTTTCA
* *
2132786 TGT--CGTTGTGATTTTCA
1 TTTCGCGTTGCGATTTTCA
2132803 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
2132819 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
2132836 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
2132852 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
2132869 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
2132883 AGTCATTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 30
0.69 0.08 0.23
Matches are distributed among these distances:
14 27 0.31
15 3 0.03
16 8 0.09
17 8 0.09
18 3 0.03
19 39 0.44
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:2133008 original size:14 final size:14
Alignment explanation
Indices: 2132989--2133025 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2132979 CATCAATTAA
2132989 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2133003 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2133017 ACAAATCAA
1 ACAAATCAA
2133026 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2134461 original size:42 final size:42
Alignment explanation
Indices: 2134415--2134494 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
2134405 CGATGACAGT
* *
2134415 GGCCTCTTGAACGGTAGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
2134457 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
2134495 CAGACGAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:2135048 original size:94 final size:94
Alignment explanation
Indices: 2134887--2135191 Score: 494
Period size: 94 Copynumber: 3.3 Consensus size: 94
2134877 GAATAGTTTC
* *
2134887 AATTGGCAGCAAACGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGATAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
2134952 ACAGTGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
2134981 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
*
2135046 ACAATGTTAAAGAATACACAGTTTAGCAG
66 ACAGTGTTAAAGAATACACAGTTTAGCAG
* *
2135075 AATTGGCAGCAACTGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTT
1 AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTT
*
2135139 CACAGTGTT----AATAAACAGTTTAGCAG
65 CACAGTGTTAAAGAATACACAGTTTAGCAG
* *
2135165 TATTGGCAGCAACCGAATAAATTTACT
1 AATTGGCAGCAACCGAACAAATTTACT
2135192 AAGCAATCTA
Statistics
Matches: 200, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
90 40 0.20
93 19 0.09
94 141 0.70
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (94 bp):
AATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTC
ACAGTGTTAAAGAATACACAGTTTAGCAG
Found at i:2136926 original size:20 final size:18
Alignment explanation
Indices: 2136881--2136969 Score: 60
Period size: 20 Copynumber: 4.9 Consensus size: 18
2136871 TCTTTTGGTT
* *
2136881 GAAATAAAAATCGCAACAA
1 GAAATGAAAATCGCAAC-C
2136900 GATAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAAC-C
**
2136920 GGAAATGACTATCGCAA-C
1 -GAAATGAAAATCGCAACC
*
2136938 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAAC-C
2136954 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2136970 TGCGATTTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
14 9 0.16
15 1 0.02
16 2 0.04
17 1 0.02
18 2 0.04
19 12 0.22
20 26 0.47
21 2 0.04
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.12
Consensus pattern (18 bp):
GAAATGAAAATCGCAACC
Found at i:2137005 original size:14 final size:14
Alignment explanation
Indices: 2136986--2137042 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2136976 TTTGGTTTCG
2136986 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
2137000 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TT-A--TCT
2137019 CGTTGCGATTATCT
1 CGTTGCGATTATCT
2137033 CGTTGCGATT
1 CGTTGCGATT
2137043 TTCATTTCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.12, C:0.21, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:2137018 original size:33 final size:33
Alignment explanation
Indices: 2136970--2137062 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2136960 AAAATCGCAA
**
2136970 TGCGATTTTGGTTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
2137003 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
2137036 TGCGATTTTCATTTCTGCGTTGCGATT
1 TGCGATTTTCATTTC-GCGTTGCGATT
2137063 GTCATTCTCG
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 46 0.81
34 11 0.19
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTATCTCGT
Found at i:2137058 original size:20 final size:20
Alignment explanation
Indices: 2137000--2137068 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2136990 GCGATTATCT
2137000 CGTTGCGATTTTCATTTC-G
1 CGTTGCGATTTTCATTTCTG
2137019 CGTTGCGA--TT-A--TCT-
1 CGTTGCGATTTTCATTTCTG
2137033 CGTTGCGATTTTCATTTCTG
1 CGTTGCGATTTTCATTTCTG
*
2137053 CGTTGCGATTGTCATT
1 CGTTGCGATTTTCATT
2137069 CTCGAAACTA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 11 0.26
20 15 0.36
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTCTG
Found at i:2137646 original size:20 final size:20
Alignment explanation
Indices: 2137594--2137685 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
2137584 GCTATGTAAA
* *
2137594 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
2137614 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
2137634 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
2137655 TCGCATTGCTATTTACTTAT
1 TCGCATTGCGATTTACGTAT
2137675 TCGCATTGCGA
1 TCGCATTGCGA
2137686 ATTGGGAAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.05
20 42 0.68
21 17 0.27
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:2137700 original size:41 final size:41
Alignment explanation
Indices: 2137614--2137700 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 41
2137604 ATAGTAAGAT
* * * *
2137614 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTGCCAAAA
* * **
2137655 TCGCATTGCTATTTACTTATTCGCATTGCGAATTGGGAAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGAATTGCCAAAA
2137696 TCGCA
1 TCGCA
2137701 ACGCGAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGAATTGCCAAAA
Found at i:2145472 original size:21 final size:21
Alignment explanation
Indices: 2145446--2145498 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
2145436 GTTTCCAGAT
2145446 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
2145467 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
2145488 TCGCAATGCGA
1 TCGCAACGCGA
2145499 TTTACATATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:2145670 original size:6 final size:6
Alignment explanation
Indices: 2145659--2145690 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
2145649 ACGTATTACT
2145659 ACGACC ACGACC ACGACC ACGACC ACGACC AC
1 ACGACC ACGACC ACGACC ACGACC ACGACC AC
2145691 AAAATTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:2146801 original size:6 final size:6
Alignment explanation
Indices: 2146790--2146822 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
2146780 TATTATCTTA
2146790 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
2146823 AATAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
AAATTT
Found at i:2146828 original size:18 final size:18
Alignment explanation
Indices: 2146790--2146828 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
2146780 TATTATCTTA
**
2146790 AAATTTAAATTTAAATTT
1 AAATTTAAATTTAAAAAT
2146808 AAATTTAAATTTAAAAAT
1 AAATTTAAATTTAAAAAT
2146826 AAA
1 AAA
2146829 AATATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTTAAATTTAAAAAT
Found at i:2159663 original size:21 final size:21
Alignment explanation
Indices: 2159614--2159690 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
2159604 GAGGGTCCAC
* *
2159614 GTGGTCCTTCGGGACATATAT
1 GTGGTCCTTTGGAACATATAT
**
2159635 GTAATCCTTTGGAACATATAT
1 GTGGTCCTTTGGAACATATAT
*
2159656 GCGGTCCTTTGAGACACATAT-T
1 GTGGTCCTTTG-GA-ACATATAT
2159678 -TGGTCCTTTGGAA
1 GTGGTCCTTTGGAA
2159691 TATGTATATG
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 34 0.74
22 3 0.07
23 6 0.13
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (21 bp):
GTGGTCCTTTGGAACATATAT
Found at i:2159743 original size:22 final size:22
Alignment explanation
Indices: 2159715--2159760 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2159705 TTAAGTGCAT
*
2159715 TTCTACGCGGTA-TTTCGGTGTA
1 TTCTACGCGGAACTTT-GGTGTA
*
2159737 TTCTACGTGGAACTTTGGTGTA
1 TTCTACGCGGAACTTTGGTGTA
2159759 TT
1 TT
2159761 TATACGAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.15, C:0.15, G:0.26, T:0.43
Consensus pattern (22 bp):
TTCTACGCGGAACTTTGGTGTA
Found at i:2161228 original size:105 final size:105
Alignment explanation
Indices: 2161104--2161307 Score: 300
Period size: 105 Copynumber: 1.9 Consensus size: 105
2161094 TATTGCTAAT
* * *
2161104 AGTATTGAACATTTGGTCACTAAAAAACACTTAGTGTGACAATATTAATCGTCACAAAATATACT
1 AGTATCGAACATTTGGTCACTAAAAAACACTTAGTATAACAATATTAATCGTCACAAAATATACT
* * *
2161169 TTCAGTGTCAAATAAATTCATCACAATTTCTATTGATAGC
66 TTCAGTGTCAAAAAAATTAATCACAATTTATATTGATAGC
* * * * *
2161209 AGTATCGAATATTTGGTCACTAAAAAATACTTAGTATAACAATATTGATGGTCACAAAATATATT
1 AGTATCGAACATTTGGTCACTAAAAAACACTTAGTATAACAATATTAATCGTCACAAAATATACT
*
2161274 TTTAGTGTCAAAAAAATTAATCACAATTTATATT
66 TTCAGTGTCAAAAAAATTAATCACAATTTATATT
2161308 AATAATTGTG
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
105 87 1.00
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (105 bp):
AGTATCGAACATTTGGTCACTAAAAAACACTTAGTATAACAATATTAATCGTCACAAAATATACT
TTCAGTGTCAAAAAAATTAATCACAATTTATATTGATAGC
Found at i:2161390 original size:22 final size:22
Alignment explanation
Indices: 2161358--2161417 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
2161348 ATATCAATCT
2161358 TATATAT--TTTTCCTTATATA
1 TATATATGATTTTCCTTATATA
* *
2161378 TATATATGATTTTCCTTGTGTA
1 TATATATGATTTTCCTTATATA
* *
2161400 TACATTTGATTTTCCTTA
1 TATATATGATTTTCCTTA
2161418 CCTTTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 7 0.21
22 26 0.79
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.57
Consensus pattern (22 bp):
TATATATGATTTTCCTTATATA
Found at i:2164186 original size:51 final size:51
Alignment explanation
Indices: 2164108--2164332 Score: 268
Period size: 51 Copynumber: 4.5 Consensus size: 51
2164098 AAAAATGTTT
* * *
2164108 CACTTAACACATACTTACACTGATGTAAGTGAATAAAATAAACAAGTGTAG
1 CACTTAACACATACTTACACAGGTGTAAGTGAATAAAATAAAAAAGTGTAG
* * *
2164159 CACTTAATACATACTTACACAGGTGTAAGTGAATAAAACAAAAAAATGTAG
1 CACTTAACACATACTTACACAGGTGTAAGTGAATAAAATAAAAAAGTGTAG
* * ** *
2164210 CAATTAGCACATAC-TACACCTGTGTAAGTGAATAAAATAAAAAAGTGTAA
1 CACTTAACACATACTTACACAGGTGTAAGTGAATAAAATAAAAAAGTGTAG
*
2164260 CACTTAACACATACTTACA-ACGGTGT-A---AAT-AAATAAATAA-TGTAG
1 CACTTAACACATACTTACACA-GGTGTAAGTGAATAAAATAAAAAAGTGTAG
*
2164305 CACTTAACACATACTTACACAGATGTAA
1 CACTTAACACATACTTACACAGGTGTAA
2164333 ATATTTACAT
Statistics
Matches: 149, Mismatches: 21, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
45 27 0.18
46 11 0.07
47 3 0.02
50 44 0.30
51 64 0.43
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.25
Consensus pattern (51 bp):
CACTTAACACATACTTACACAGGTGTAAGTGAATAAAATAAAAAAGTGTAG
Found at i:2164272 original size:101 final size:102
Alignment explanation
Indices: 2164097--2164332 Score: 283
Period size: 101 Copynumber: 2.4 Consensus size: 102
2164087 TTCATATTAC
** * * *
2164097 AAAAAATGTTTCACTTAACACATACTTACACTGATGTAAGTGAATAAAATAAACAAGTGTAGCAC
1 AAAAAATGTAGCAATTAACACATACTTACACTGATGTAAGTGAATAAAATAAAAAAGTGTAACAC
* * *
2164162 TTAATACATACTTAC-ACAGGTGTAAGTGAATAAAACA
66 TTAACACATACTTACAAC-GGTGTAAATAAATAAAACA
*
2164199 AAAAAATGTAGCAATTAGCACATAC-TACACCTG-TGTAAGTGAATAAAATAAAAAAGTGTAACA
1 AAAAAATGTAGCAATTAACACATACTTACA-CTGATGTAAGTGAATAAAATAAAAAAGTGTAACA
2164262 CTTAACACATACTTACAACGGTGTAAATAAAT------
65 CTTAACACATACTTACAACGGTGTAAATAAATAAAACA
* * *
2164294 AAATAATGTAGCACTTAACACATACTTACACAGATGTAA
1 AAAAAATGTAGCAATTAACACATACTTACACTGATGTAA
2164333 ATATTTACAT
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
95 24 0.21
96 9 0.08
101 58 0.50
102 26 0.22
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (102 bp):
AAAAAATGTAGCAATTAACACATACTTACACTGATGTAAGTGAATAAAATAAAAAAGTGTAACAC
TTAACACATACTTACAACGGTGTAAATAAATAAAACA
Found at i:2165417 original size:50 final size:51
Alignment explanation
Indices: 2165293--2165420 Score: 186
Period size: 51 Copynumber: 2.5 Consensus size: 51
2165283 TTAGCAGTAA
**
2165293 AGCGCGCCCCCTGCACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* * *
2165344 AGCGCGCCCCCTGAACCGTGCTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* *
2165394 AGCGCGGCCCCTGCAGCGCGCTATACG
1 AGCGCGCCCCCTGCACCGCGCTATACG
2165421 CCACGTAGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.43
51 39 0.57
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:2165510 original size:49 final size:49
Alignment explanation
Indices: 2165432--2165551 Score: 181
Period size: 49 Copynumber: 2.4 Consensus size: 49
2165422 CACGTAGGGG
**
2165432 TATAGCGCGGATCAGGTACCGCGCTATACCTTTACTCCTA-ATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCGCTATACCTTTACTCC-ACATAATTTTA
*
2165481 TCTAGCGCGGGGCAGGTACCGCGAC-ATACCTTTACTCCACATAATTTTA
1 TATAGCGCGGGGCAGGTACCGCG-CTATACCTTTACTCCACATAATTTTA
2165530 TATAGCGCGGGGCAGGTACCGC
1 TATAGCGCGGGGCAGGTACCGC
2165552 ATTTTGTATA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
48 1 0.02
49 63 0.97
50 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (49 bp):
TATAGCGCGGGGCAGGTACCGCGCTATACCTTTACTCCACATAATTTTA
Found at i:2169335 original size:12 final size:12
Alignment explanation
Indices: 2169320--2169363 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
2169310 ATCACCGTCA
2169320 TCGTCGTCATCG
1 TCGTCGTCATCG
* *
2169332 TCGTCGTTATCT
1 TCGTCGTCATCG
**
2169344 TCGTCGTTGTCG
1 TCGTCGTCATCG
2169356 TCGTCGTC
1 TCGTCGTC
2169364 TTGCGCAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.05, C:0.30, G:0.25, T:0.41
Consensus pattern (12 bp):
TCGTCGTCATCG
Found at i:2171376 original size:110 final size:111
Alignment explanation
Indices: 2171182--2171402 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
2171172 ATTACAAAAA
* * * *
2171182 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
2171247 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
* *
2171293 TTAATTATTAATATAATAATTATGCATTAAATAAAT-AACTAAATATTATTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
2171357 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
2171403 ATGATTACTA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 71 0.69
111 32 0.31
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:2171731 original size:50 final size:50
Alignment explanation
Indices: 2171677--2171800 Score: 135
Period size: 51 Copynumber: 2.5 Consensus size: 50
2171667 AGATATATAT
* * **
2171677 GTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCTCCAGCTCACC
1 GTATAGCGCGATGCAGGGG-CGCGCTATATCCCACGTGGCGCCAAATCACC
* ** *
2171727 GTATAGCGCGGTGCAAGGGGCGCGCTATATCTTACGTGGCGCCAAATCATC
1 GTATAGCGCGATGC-AGGGGCGCGCTATATCCCACGTGGCGCCAAATCACC
*
2171778 GTATAACGCGATGCAGGGG-GCGC
1 GTATAGCGCGATGCAGGGGCGCGC
2171801 ACTTTACTGC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.06
50 27 0.43
51 32 0.51
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.18
Consensus pattern (50 bp):
GTATAGCGCGATGCAGGGGCGCGCTATATCCCACGTGGCGCCAAATCACC
Found at i:2172221 original size:16 final size:16
Alignment explanation
Indices: 2172200--2172236 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
2172190 TTTTTTGTGA
2172200 CACTTTAAAAGAATGC
1 CACTTTAAAAGAATGC
2172216 CACTTTAAAAGAATGC
1 CACTTTAAAAGAATGC
2172232 CACTT
1 CACTT
2172237 GGATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (16 bp):
CACTTTAAAAGAATGC
Found at i:2174516 original size:21 final size:22
Alignment explanation
Indices: 2174472--2174542 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 22
2174462 GGTATAACTC
*
2174472 TAAAATAATAATAAAATGATTA
1 TAAAATAATAATAAAATAATTA
2174494 TAAAAT-A-AATAAAATTAATTA
1 TAAAATAATAATAAAA-TAATTA
*
2174515 TAAAA-AATAACTATAATAAAATTA
1 TAAAATAATAA-TA-AA-ATAATTA
2174539 TAAA
1 TAAA
2174543 TATTTTGAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
20 7 0.17
21 12 0.29
22 8 0.20
23 2 0.05
24 11 0.27
25 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (22 bp):
TAAAATAATAATAAAATAATTA
Found at i:2174517 original size:16 final size:15
Alignment explanation
Indices: 2174501--2174538 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
2174491 TTATAAAATA
*
2174501 AATAAAATTAATTAT
1 AATAAAATTAACTAT
2174516 AA-AAAA-TAACTAT
1 AATAAAATTAACTAT
2174529 AATAAAATTA
1 AATAAAATTA
2174539 TAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 8 0.40
14 8 0.40
15 4 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (15 bp):
AATAAAATTAACTAT
Found at i:2174521 original size:23 final size:23
Alignment explanation
Indices: 2174472--2174542 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
2174462 GGTATAACTC
*
2174472 TAAAATAAT-AATAAAA-TGATTA
1 TAAAA-AATAAATAAAATTAATTA
2174494 T--AAAATAAATAAAATTAATTA
1 TAAAAAATAAATAAAATTAATTA
* * *
2174515 TAAAAAATAACTATAATAAAATTA
1 TAAAAAATAAATAAAAT-TAATTA
2174539 TAAA
1 TAAA
2174543 TATTTTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 3 0.08
20 9 0.22
21 6 0.15
22 1 0.03
23 12 0.30
24 9 0.22
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
TAAAAAATAAATAAAATTAATTA
Found at i:2179847 original size:40 final size:39
Alignment explanation
Indices: 2179738--2179849 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
2179728 AGCAATATAG
* *
2179738 TATAATTTTTGAAAATGCTTTTAAAAAA-ATATGTAATA
1 TATAATTTTTGAAAACGCTTTTAAAAAATATATATAATA
* *** *
2179776 TATAATTTTTAGAAAACGGTTTCCGAAAATATATATATTA
1 TATAATTTTT-GAAAACGCTTTTAAAAAATATATATAATA
**
2179816 TATAATTTTTGAAAACATTTTTAAAATAATATAT
1 TATAATTTTTGAAAACGCTTTTAAAA-AATATAT
2179850 GGTTTTGAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
38 10 0.17
39 24 0.41
40 25 0.42
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (39 bp):
TATAATTTTTGAAAACGCTTTTAAAAAATATATATAATA
Found at i:2179867 original size:30 final size:32
Alignment explanation
Indices: 2179822--2179881 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
2179812 ATTATATAAT
2179822 TTTTGAAAACATTTTT-AAAATA-ATATATGG
1 TTTTGAAAACATTTTTGAAAATACATATATGG
** *
2179852 TTTTGAAAATGTTTTTGCAAATACATATAT
1 TTTTGAAAACATTTTTGAAAATACATATAT
2179882 ATTATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.56
31 5 0.20
32 6 0.24
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (32 bp):
TTTTGAAAACATTTTTGAAAATACATATATGG
Found at i:2179919 original size:36 final size:35
Alignment explanation
Indices: 2179878--2180137 Score: 179
Period size: 36 Copynumber: 7.3 Consensus size: 35
2179868 GCAAATACAT
2179878 ATATATTATATATA-TTTTTAAAACATTTTTAAAA
1 ATATATTATATATAGTTTTTAAAACATTTTTAAAA
* * * *
2179912 ACTTATATAATATATAGTTTTTAAAATATTTTGAAAT
1 A--TATATTATATATAGTTTTTAAAACATTTTTAAAA
* * * * * * * *
2179949 ATATA-TATATATA-TATAT-ATATATATATATAT
1 ATATATTATATATAGTTTTTAAAACATTTTTAAAA
*
2179981 ATATA-TATATATAGTTTTTAAAACATTTTTTGAAA
1 ATATATTATATATAGTTTTTAAAACA-TTTTTAAAA
** * *
2180016 ACGTATAATATATAGTTTTTAAAACATTTTGAAAA
1 ATATATTATATATAGTTTTTAAAACATTTTTAAAA
* * *
2180051 CATATAAATATTATATAAGGTTTGAAAACATTTTTAAAA
1 -ATAT-ATTA-TATAT-AGTTTTTAAAACATTTTTAAAA
* * * * **
2180090 ATATATAATATATAATTTTCAAAAACGTTTTGGAAA
1 ATATATTATATATAGTTTT-TAAAACATTTTTAAAA
2180126 ATATATTATATA
1 ATATATTATATA
2180138 ATTTTAAAAG
Statistics
Matches: 172, Mismatches: 42, Indels: 22
0.73 0.18 0.09
Matches are distributed among these distances:
32 22 0.13
33 6 0.03
34 11 0.06
35 22 0.13
36 61 0.35
37 22 0.13
38 9 0.05
39 19 0.11
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (35 bp):
ATATATTATATATAGTTTTTAAAACATTTTTAAAA
Found at i:2179954 original size:2 final size:2
Alignment explanation
Indices: 2179947--2179993 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
2179937 ATATTTTGAA
2179947 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2179989 AT AT A
1 AT AT A
2179994 GTTTTTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2180045 original size:102 final size:98
Alignment explanation
Indices: 2179876--2180067 Score: 278
Period size: 102 Copynumber: 1.9 Consensus size: 98
2179866 TTGCAAATAC
*
2179876 ATATATATTATATATATTTTTAAAACATTTTTAAAAACTTATATAATATATAGTTTTTAAAATAT
1 ATATATATTATATATATTTTTAAAACATTTTTAAAAAC-TATATAATATATAGTTTTTAAAACAT
* *
2179941 TTTGAAATATATATATATATATATATATATATATAT
65 TTTGAAA-ACATATAAATAT-TATATATATATATAT
* *
2179977 ATATATATATATATATAGTTTTTAAAACATTTTTTGAAAAC-GTATAATATATAGTTTTTAAAAC
1 ATATATAT-TATATATA-TTTTTAAAACA-TTTTTAAAAACTATATAATATATAGTTTTTAAAAC
2180041 ATTTTGAAAACATATAAATATTATATA
63 ATTTTGAAAACATATAAATATTATATA
2180068 AGGTTTGAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 7
0.87 0.05 0.07
Matches are distributed among these distances:
100 6 0.07
101 18 0.22
102 38 0.46
103 11 0.13
104 10 0.12
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (98 bp):
ATATATATTATATATATTTTTAAAACATTTTTAAAAACTATATAATATATAGTTTTTAAAACATT
TTGAAAACATATAAATATTATATATATATATAT
Found at i:2180085 original size:74 final size:79
Alignment explanation
Indices: 2179975--2180131 Score: 189
Period size: 74 Copynumber: 2.1 Consensus size: 79
2179965 ATATATATAT
* * * * * * *
2179975 ATATATATATATATATATAGTTTTTAAAACATTTTTTGAAAACGTATAATATATAGTTTT-TAAA
1 ATATAAATATATATATATAGGTTTGAAAACATTTTTTAAAAACATATAATATATAATTTTCAAAA
2180039 ACATTTT-GAAAAC
66 ACATTTTGGAAAAC
*
2180052 ATATAAATAT-TATATA-AGGTTTGAAAACA-TTTTTAAAAATATATAATATATAATTTTCAAAA
1 ATATAAATATATATATATAGGTTTGAAAACATTTTTTAAAAACATATAATATATAATTTTCAAAA
* *
2180114 ACGTTTTGGAAAAT
66 ACATTTTGGAAAAC
2180128 ATAT
1 ATAT
2180132 TATATAATTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
74 24 0.35
75 20 0.29
76 15 0.22
77 9 0.13
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (79 bp):
ATATAAATATATATATATAGGTTTGAAAACATTTTTTAAAAACATATAATATATAATTTTCAAAA
ACATTTTGGAAAAC
Found at i:2181522 original size:26 final size:26
Alignment explanation
Indices: 2181467--2181525 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
2181457 TACTTTTAAA
*
2181467 TATTTTTTTAACTTAACCTTTTGTTAT
1 TATTTTTTTAACTTAA-CTTTCGTTAT
* *
2181494 TATTTTTTTAACTTTA-TTTCGTTTTT
1 TATTTTTTTAACTTAACTTTCG-TTAT
2181520 TATTTT
1 TATTTT
2181526 ATTTTGGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 9 0.32
27 15 0.54
ACGTcount: A:0.19, C:0.08, G:0.03, T:0.69
Consensus pattern (26 bp):
TATTTTTTTAACTTAACTTTCGTTAT
Found at i:2184654 original size:75 final size:76
Alignment explanation
Indices: 2184531--2184681 Score: 286
Period size: 75 Copynumber: 2.0 Consensus size: 76
2184521 ATAGGTTGGA
*
2184531 GTTCAAATTGGTACATTTAAGCTGCCACAAAATTATAAAGATTACACTT-AAAAAAAACTCGTTG
1 GTTCAAATTGGTACATTTAAGCTGCCAAAAAATTATAAAGATTACACTTAAAAAAAAACTCGTTG
2184595 AAGTGAGATAG
66 AAGTGAGATAG
2184606 GTTCAAATTGGTACATTTAAGCTGCCAAAAAATTATAAAGATTACACTTAAAAAAAAACTCGTTG
1 GTTCAAATTGGTACATTTAAGCTGCCAAAAAATTATAAAGATTACACTTAAAAAAAAACTCGTTG
2184671 AAGTGAGATAG
66 AAGTGAGATAG
2184682 ACACAAAGAA
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
75 48 0.65
76 26 0.35
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.28
Consensus pattern (76 bp):
GTTCAAATTGGTACATTTAAGCTGCCAAAAAATTATAAAGATTACACTTAAAAAAAAACTCGTTG
AAGTGAGATAG
Found at i:2186018 original size:2 final size:2
Alignment explanation
Indices: 2186013--2186056 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2186003 TTTTAATCAT
2186013 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2186055 TA
1 TA
2186057 ATGATATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2191552 original size:15 final size:15
Alignment explanation
Indices: 2191532--2191561 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2191522 CGGTCGACCG
*
2191532 TTGGGTGACGGTAAA
1 TTGGGTCACGGTAAA
2191547 TTGGGTCACGGTAAA
1 TTGGGTCACGGTAAA
2191562 CGGCAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (15 bp):
TTGGGTCACGGTAAA
Found at i:2194093 original size:21 final size:21
Alignment explanation
Indices: 2194058--2194107 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
2194048 CCATGAATAA
*
2194058 TAATTAAAAACTATTATTATTT
1 TAATT-AAAACTATTATCATTT
*
2194080 TAATTAAAATTATTATCATTT
1 TAATTAAAACTATTATCATTT
2194101 TAATTAA
1 TAATTAA
2194108 TTTCTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTAAAACTATTATCATTT
Found at i:2194890 original size:121 final size:121
Alignment explanation
Indices: 2194665--2194892 Score: 311
Period size: 121 Copynumber: 1.9 Consensus size: 121
2194655 CACATGTTTA
** * **
2194665 GTACCTAAACTATCAATTTTGGTCCATTTTAGTATCTAAACTTTCATTTTTTCCAAAATCATTCT
1 GTACCTAAACTATCAATTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCAAAATCAACCT
2194730 CAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTTAACACACTCG
66 CAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTTAACACACTCG
*
2194786 GTACCTAAACTAT-AAGTTTTAATCCATTTTAGTACCTAAACTTTCATTTTTT-TAAAATCAAAC
1 GTACCTAAACTATCAA-TTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCAAAATC-AAC
* * *
2194849 CT-AATGTTTAGTTTTTGTTTCATTTTAGTACTCCGCC-GTTAAAA
64 CTCAAAGTTTAGTTTTTATTTCAATTTAGTAC-CC-CCTGTTAAAA
2194893 CCTCAACATG
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
120 34 0.36
121 58 0.62
122 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (121 bp):
GTACCTAAACTATCAATTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCAAAATCAACCT
CAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTTAACACACTCG
Found at i:2194916 original size:121 final size:121
Alignment explanation
Indices: 2194656--2194917 Score: 298
Period size: 121 Copynumber: 2.2 Consensus size: 121
2194646 AGGGTAAACC
** *
2194656 ACATGTTTAGTACCTAAACTATCAATTTTGGTCCATTTTAGTATCTAAACTTTCATTTTTTCCAA
1 ACATGTTTAGTACCTAAACTATCAATTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCAA
** *
2194721 AATCATTCTCAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTTA
66 AATCAACCTCAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTCA
*** ** *
2194777 ACACACTCGGTACCTAAACTAT-AAGTTTTAATCCATTTTAGTACCTAAACTTTCATTTTTT-TA
1 ACATGTTTAGTACCTAAACTATCAA-TTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCA
* * * *
2194840 AAATCAAACCT-AATGTTTAGTTTTTGTTTCATTTTAGTACTCCGCC-GTTAAAACCTCA
65 AAATC-AACCTCAAAGTTTAGTTTTTATTTCAATTTAGTAC-CC-CCTGTTAAAAACTCA
* *
2194898 ACATGTTTAGTGCATAAACT
1 ACATGTTTAGTACCTAAACT
2194918 TAACGATAGA
Statistics
Matches: 114, Mismatches: 23, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
120 34 0.30
121 78 0.68
122 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.42
Consensus pattern (121 bp):
ACATGTTTAGTACCTAAACTATCAATTTTAATCCATTTTAGTACCTAAACTTTCATTTTTTCCAA
AATCAACCTCAAAGTTTAGTTTTTATTTCAATTTAGTACCCCCTGTTAAAAACTCA
Found at i:2204086 original size:16 final size:16
Alignment explanation
Indices: 2204065--2204097 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2204055 CTATAATCCC
2204065 CAGTGAGTTCAAATCT
1 CAGTGAGTTCAAATCT
2204081 CAGTGAGTTCAAATCT
1 CAGTGAGTTCAAATCT
2204097 C
1 C
2204098 TATGGCCCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (16 bp):
CAGTGAGTTCAAATCT
Found at i:2207918 original size:21 final size:21
Alignment explanation
Indices: 2207894--2207937 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2207884 CAATTGTCTT
2207894 ATTCCCTT-TTCTTCTCTTCTC
1 ATTCCCTTATT-TTCTCTTCTC
*
2207915 ATTCTCTTATTTTCTCTTCTC
1 ATTCCCTTATTTTCTCTTCTC
2207936 AT
1 AT
2207938 CAGTGGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.09, C:0.32, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTCCCTTATTTTCTCTTCTC
Found at i:2210521 original size:19 final size:19
Alignment explanation
Indices: 2210497--2210567 Score: 83
Period size: 19 Copynumber: 3.7 Consensus size: 19
2210487 AATGCATTTT
2210497 ATGCATCGATGCACATACC
1 ATGCATCGATGCACATACC
*
2210516 ATGCATCGATGCAC-T-CA
1 ATGCATCGATGCACATACC
* *
2210533 ATGCATTTGATGCACAAGACC
1 ATGCA-TCGATGCAC-ATACC
2210554 ATGCATCGATGCAC
1 ATGCATCGATGCAC
2210568 TCAGACTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.14
18 9 0.21
19 14 0.33
20 8 0.19
21 6 0.14
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (19 bp):
ATGCATCGATGCACATACC
Found at i:2212577 original size:21 final size:21
Alignment explanation
Indices: 2212553--2212592 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2212543 AAGACTCTAT
2212553 TTTCAAAATAT-AAAAATGATG
1 TTTCAAAAT-TGAAAAATGATG
2212574 TTTCAAAATTGAAAAATGA
1 TTTCAAAATTGAAAAATGA
2212593 AAATAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.53, C:0.05, G:0.10, T:0.33
Consensus pattern (21 bp):
TTTCAAAATTGAAAAATGATG
Found at i:2218426 original size:14 final size:15
Alignment explanation
Indices: 2218401--2218429 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2218391 TTGTTTTTGA
2218401 TGTTTCTGGATTGTT
1 TGTTTCTGGATTGTT
2218416 TGTTT-TGGATTGTT
1 TGTTTCTGGATTGTT
2218430 AATTGCTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.07, C:0.03, G:0.28, T:0.62
Consensus pattern (15 bp):
TGTTTCTGGATTGTT
Found at i:2219236 original size:26 final size:26
Alignment explanation
Indices: 2219174--2219239 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
2219164 TGCACATACC
*
2219174 ATGCATCGATGCACTCAATGCATTTT
1 ATGCATCGATGCACTCAATGCATTTG
**
2219200 ATTTATCGATGCACTCAATGCATTTG
1 ATGCATCGATGCACTCAATGCATTTG
*
2219226 ATGCATTGATGCAC
1 ATGCATCGATGCAC
2219240 AAGACCATGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (26 bp):
ATGCATCGATGCACTCAATGCATTTG
Found at i:2219403 original size:29 final size:30
Alignment explanation
Indices: 2219369--2219432 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
2219359 CTGATGTACC
2219369 GATGCACCTA-GGGTATGCATCGATGCACT
1 GATGCACCTAGGGGTATGCATCGATGCACT
2219398 GATGCACCTAGGGGTATGCATCGATGCACT
1 GATGCACCTAGGGGTATGCATCGATGCACT
2219428 GATGC
1 GATGC
2219433 TCCCAACTGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.23
Consensus pattern (30 bp):
GATGCACCTAGGGGTATGCATCGATGCACT
Found at i:2222504 original size:18 final size:18
Alignment explanation
Indices: 2222481--2222519 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
2222471 ACCGGTCATA
*
2222481 ACCCGACCCGACCCGTTG
1 ACCCGACCCAACCCGTTG
2222499 ACCCGACCCAACCCGTTG
1 ACCCGACCCAACCCGTTG
2222517 ACC
1 ACC
2222520 GACGTTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.51, G:0.18, T:0.10
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:2224343 original size:12 final size:12
Alignment explanation
Indices: 2224323--2224416 Score: 75
Period size: 12 Copynumber: 7.8 Consensus size: 12
2224313 GATACATTAC
*
2224323 CTGAATTCTGTT
1 CTGATTTCTGTT
*
2224335 CTGATTTCTGAT
1 CTGATTTCTGTT
2224347 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* * *
2224359 CTTATATCTGAT
1 CTGATTTCTGTT
2224371 CTGGA-TTCTGTT
1 CT-GATTTCTGTT
* *
2224383 CTGATATCTGAT
1 CTGATTTCTGTT
*
2224395 CTGAATTCTGTT
1 CTGATTTCTGTT
*
2224407 TTGATTTCTG
1 CTGATTTCTG
2224417 ATATCTCCGT
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
11 3 0.05
12 56 0.90
13 3 0.05
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (12 bp):
CTGATTTCTGTT
Found at i:2224354 original size:24 final size:24
Alignment explanation
Indices: 2224327--2224418 Score: 139
Period size: 24 Copynumber: 3.8 Consensus size: 24
2224317 CATTACCTGA
*
2224327 ATTCTGTTCTGATTTCTGATCTGG
1 ATTCTGTTCTGATATCTGATCTGG
*
2224351 ATTCTGTTCTTATATCTGATCTGG
1 ATTCTGTTCTGATATCTGATCTGG
*
2224375 ATTCTGTTCTGATATCTGATCTGA
1 ATTCTGTTCTGATATCTGATCTGG
* *
2224399 ATTCTGTTTTGATTTCTGAT
1 ATTCTGTTCTGATATCTGAT
2224419 ATCTCCGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 62 1.00
ACGTcount: A:0.16, C:0.15, G:0.17, T:0.51
Consensus pattern (24 bp):
ATTCTGTTCTGATATCTGATCTGG
Found at i:2224357 original size:48 final size:48
Alignment explanation
Indices: 2224286--2224417 Score: 153
Period size: 48 Copynumber: 2.8 Consensus size: 48
2224276 AAATATTTTA
* *
2224286 TCTGATTTCCGA-CTTGAATTCTGTTTTGATA-CATTACCTGAATTCTGT
1 TCTGATTTCTGATC-TGAATTCTGTTTTGATATC-TGACCTGAATTCTGT
* * *
2224334 TCTGATTTCTGATCTGGATTCTGTTCTT-ATATCTGATCTGGATTCTGT
1 TCTGATTTCTGATCTGAATTCTGTT-TTGATATCTGACCTGAATTCTGT
* *
2224382 TCTGATATCTGATCTGAATTCTGTTTTGATTTCTGA
1 TCTGATTTCTGATCTGAATTCTGTTTTGATATCTGA
2224418 TATCTCCGTT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
47 2 0.03
48 66 0.92
49 4 0.06
ACGTcount: A:0.18, C:0.17, G:0.17, T:0.48
Consensus pattern (48 bp):
TCTGATTTCTGATCTGAATTCTGTTTTGATATCTGACCTGAATTCTGT
Found at i:2226548 original size:18 final size:18
Alignment explanation
Indices: 2226498--2226548 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
2226488 TCCGTTTACC
*
2226498 CGACACGTTGACCCAACT
1 CGACACGTTGACCCGACT
*
2226516 CGACTCGTTGACCCGACT
1 CGACACGTTGACCCGACT
*
2226534 CGACCCGTTGACCCG
1 CGACACGTTGACCCG
2226549 TTGACCACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.20, C:0.41, G:0.22, T:0.18
Consensus pattern (18 bp):
CGACACGTTGACCCGACT
Found at i:2229586 original size:20 final size:22
Alignment explanation
Indices: 2229547--2229586 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
2229537 TTTAATTAAG
*
2229547 TTTTACAATATGTGATTATGCA
1 TTTTACAATATGTAATTATGCA
2229569 TTTT-CAATAT-TAATTATG
1 TTTTACAATATGTAATTATG
2229587 TATAATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (22 bp):
TTTTACAATATGTAATTATGCA
Found at i:2230260 original size:20 final size:19
Alignment explanation
Indices: 2230209--2230261 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
2230199 GTTCAAAGAG
2230209 AAATTAAAA-TAAATTAAA
1 AAATTAAAATTAAATTAAA
* * *
2230227 AAATTTATATTTAAATTACA
1 AAA-TTAAAATTAAATTAAA
2230247 AAATTAAAAATTAAA
1 AAATT-AAAATTAAA
2230262 ATAGTGTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.11
19 6 0.22
20 18 0.67
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATTAAAATTAAATTAAA
Found at i:2231254 original size:23 final size:23
Alignment explanation
Indices: 2231228--2231275 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2231218 ATAAAGTACA
*
2231228 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2231251 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2231274 AT
1 AT
2231276 TTACTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2231750 original size:23 final size:23
Alignment explanation
Indices: 2231724--2231786 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2231714 ATATAAGCAG
2231724 TACCTATTACATTATATAAACGC
1 TACCTATTACATTATATAAACGC
** *
2231747 TACCTATTGTATTATATAAGCGC
1 TACCTATTACATTATATAAACGC
*
2231770 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2231787 TTTTACCTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGC
Found at i:2232183 original size:23 final size:23
Alignment explanation
Indices: 2232154--2232216 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2232144 ATATAACCAC
2232154 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
2232177 TATCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2232200 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2232217 TTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2232498 original size:427 final size:430
Alignment explanation
Indices: 2231548--2233272 Score: 3187
Period size: 427 Copynumber: 4.0 Consensus size: 430
2231538 ATGTTTATTG
*
2231548 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
*
2231613 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGATAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
* * *
2231678 TATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCAGTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* **
2231743 ACGCTACCTATTGTATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
* *
2231808 TGTCCATACTTTTTATAAAAAGGATCGATACATCTTTTAAAGTTATGTAATTTATGTTTCAATAT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
2231873 TTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
*
2231938 TATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
2231978 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
* *
2232043 AAATTAATATCTTAAAACTCATTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
2232108 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
*
2232173 ACGATATCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTA-TATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
2232237 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
2232301 TTTTAATAGTG-TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
2232365 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
2232405 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
2232470 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
2232535 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
* *
2232600 ATGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
2232665 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
2232730 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
326 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
2232795 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
391 TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
2232835 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
1 TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
*
2232900 AAATTAATATCTTTAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
66 AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
2232965 TATAGACAC-TTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACA-TATATAA
131 TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
2233028 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATA-TTTTACCTATTATATTGAAAG
196 ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
2233092 TGTCCATACTTTTTATAAAAAGGATCGATACTT-TGTTTAAAGTTATGTAATTTATGTTTCAATT
261 TGTCCATACTTTTTATAAAAAGGATCGATACTTCT-TTTAAAGTTATGTAATTTATGTTTCAATT
2233156 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
325 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
* *
2233221 TTATTTGATTGTTTTGATATTTTATAAAATAATATTTATAA
390 TTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
*
2233262 -TTTAAATTTAA
1 TTTTTAATTTAA
2233273 CAACATTAAC
Statistics
Matches: 1264, Mismatches: 27, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
426 11 0.01
427 520 0.41
428 133 0.11
429 132 0.10
430 468 0.37
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (430 bp):
TTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACT
AAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAG
TATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAA
ACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
TATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAA
Found at i:2232634 original size:23 final size:23
Alignment explanation
Indices: 2232571--2232643 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
2232561 ATACTTTACA
* *
2232571 ATATAACCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* * *
2232594 ATATAAATGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2232617 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2232640 ATAT
1 ATAT
2232644 TTTTACCTAT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2232984 original size:20 final size:20
Alignment explanation
Indices: 2232959--2232997 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2232949 TCCACAGTGA
*
2232959 AAAAAGTATAGACACTTTAT
1 AAAAAGGATAGACACTTTAT
*
2232979 AAAAAGGATAGATACTTTA
1 AAAAAGGATAGACACTTTA
2232998 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.28
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2233058 original size:23 final size:23
Alignment explanation
Indices: 2233000--2233071 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
2232990 ATACTTTACA
* *
2233000 ATATAACCACTACCTATTACA-T
1 ATATAAACGCTACCTATTACATT
*
2233022 ATATAAACGATACCTATTACATT
1 ATATAAACGCTACCTATTACATT
* *
2233045 ATATAAGCGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
2233068 ATAT
1 ATAT
2233072 TTTACCTATT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 18 0.42
23 25 0.58
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:2233200 original size:857 final size:858
Alignment explanation
Indices: 2231344--2233272 Score: 3269
Period size: 857 Copynumber: 2.2 Consensus size: 858
2231334 TTACATTATA
* **
2231344 ATATGTTGAAAGTGTCCATACTTTTTATAAAAATTATCGATACTTTTTTTAAAGTTATGTAATTT
1 ATATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAGTTATGTAATTT
*
2231409 ATGTTTCAATTTTTTTTAATATTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
65 ATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
* * * * *
2231474 TTGCACAAAAAATTATTTGACGCCTATAATATTAACCAAAGATA-ATAATAAATATGTAATATAT
129 TTACACAAAAAATTATTTGA----T-T-GT-TT------TGATATTTAATAAA-A--TAATATTT
* *
2231538 ATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCC
178 A-G---A--ATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCC
2231603 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACA
237 TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACA
* * * *
2231668 GTGATAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCAGTACCTATTA
302 GTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTA
* * **
2231733 CATTATATAAACGCTACCTATTGTATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
367 CATTATATAAACGATACATATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATT
2231798 ATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACATCTTTTAAAGTTATGTAATTTAT
432 ATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACATCTTTTAAAGTTATGTAATTTAT
* *
2231863 GTTTCAATATTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTG
497 GTTTCAATATTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTA
*
2231928 CACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTTTAATTTAATAA
562 CACAAAAAATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAA
2231993 TAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
627 TAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAA
* *
2232058 AACTCATTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAGGTATAGACACTTTTAT
692 AACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTAT
*
2232123 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATATCTATTACA
757 AAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTATTACA
2232188 TTATATAAGCGCTACCTATTACATCATATTTTTACCT
822 TTATATAAGCGCTACCTATTACATCATATTTTTACCT
2232225 ATATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
1 ATATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT-TTTTAAAGTTATGTAATTT
2232290 ATGTTTCAA-TTTTTTAATAGTG-TTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
65 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
2232353 TACACAAAAAATTATTTGATTGTTTTGATATTTGATAAAATAATATTTAGAATTTTTAATTTAAT
130 TACACAAAAAATTATTTGATTGTTTTGATATTTAATAAAATAATATTTAGAATTTTTAATTTAAT
2232418 AATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
195 AATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTT
2232483 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
260 AAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTT
*
2232548 ATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAATGATACATATTA
325 ATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTA
2232613 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
390 CATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTT
* *
2232678 TATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTT
455 TATAAAAAGGATCGATACATCTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTAATAGTGTT
2232743 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTT
520 TCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTT
2232808 TGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAA
585 TGATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAA
*
2232873 AGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTTAAACTCACTCAAAAGATAACCTTA
650 AGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
2232938 AATTAATGTTTTCCACAGTGAAAAAAGTATAGACAC-TTTATAAAAAGGATAGATACTTTACAAT
715 AATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAAT
2233002 ATAACCACTACCTATTACA-TATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACA
780 ATAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACA
2233066 TCATA-TTTTACCT
845 TCATATTTTTACCT
2233079 ATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTGTTTAAAGTTATGTAATT
1 A-TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTT-TTTAAAGTTATGTAATT
2233144 TATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
64 TATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCAT
* * *
2233209 TTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTATAA-TTTAAATTTAA
129 TTACACAAAAAATTATTTGATTGTTTTGATATTTAATAAAATAATATTTAGAATTTTTAATTTAA
2233273 CAACATTAAC
Statistics
Matches: 1009, Mismatches: 33, Indels: 37
0.94 0.03 0.03
Matches are distributed among these distances:
854 10 0.01
855 120 0.12
856 70 0.07
857 642 0.64
859 1 0.00
862 1 0.00
863 8 0.01
865 5 0.00
866 6 0.01
871 2 0.00
872 1 0.00
873 1 0.00
874 1 0.00
878 59 0.06
879 12 0.01
880 2 0.00
881 68 0.07
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (858 bp):
ATATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
ACACAAAAAATTATTTGATTGTTTTGATATTTAATAAAATAATATTTAGAATTTTTAATTTAATA
ATAATATATATCGTAACGTAAAAAAGAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTA
TAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACATATTAC
ATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTT
ATAAAAAGGATCGATACATCTTTTAAAGTTATGTAATTTATGTTTCAATATTTTTAATAGTGTTT
CATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTT
GATATTTGATAAAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA
GAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
ATTAATGTTTTCCACAGTGAAAAAAGTATAGACACTTTTATAAAAAGGATAGATACTTTACAATA
TAACCACTACCTATTACATTATATAAACGATACCTATTACATTATATAAGCGCTACCTATTACAT
CATATTTTTACCT
Found at i:2233444 original size:25 final size:25
Alignment explanation
Indices: 2233416--2233480 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
2233406 ACTCAAAAGA
*
2233416 TGTATATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
2233441 TGTACATACCTAAATATGTAGTTAT
1 TGTACATACCTAAATATGTAGTTAT
2233466 TGTACATACCTAAAT
1 TGTACATACCTAAAT
2233481 TTAATGATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (25 bp):
TGTACATACCTAAATATGTAGTTAT
Found at i:2237024 original size:23 final size:23
Alignment explanation
Indices: 2236998--2237060 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
2236988 ATATAACCAC
2236998 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
2237021 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
2237044 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2237061 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2237442 original size:16 final size:16
Alignment explanation
Indices: 2237417--2237449 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2237407 ATCTATTACA
*
2237417 TTTTTCAATCGACACT
1 TTTTTAAATCGACACT
2237433 TTTTTAAATCGACACT
1 TTTTTAAATCGACACT
2237449 T
1 T
2237450 GTTGTGGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (16 bp):
TTTTTAAATCGACACT
Found at i:2238639 original size:6 final size:6
Alignment explanation
Indices: 2238628--2238722 Score: 91
Period size: 6 Copynumber: 15.8 Consensus size: 6
2238618 GTTTGGATCA
* * * * * *
2238628 TCATCT TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG TCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
2238676 TCATCG TCATCA TCATCA TCATCT TCATCG TCAGCT TCATCT TCATC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATC
2238723 GACCGCTTGG
Statistics
Matches: 74, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (6 bp):
TCATCT
Found at i:2238646 original size:9 final size:9
Alignment explanation
Indices: 2238624--2238704 Score: 81
Period size: 9 Copynumber: 9.0 Consensus size: 9
2238614 ACTTGTTTGG
2238624 ATCATCATC
1 ATCATCATC
* *
2238633 TTCATCTTC
1 ATCATCATC
2238642 ATCATCATC
1 ATCATCATC
*
2238651 ATCGTCATC
1 ATCATCATC
*
2238660 ATCTTCATC
1 ATCATCATC
* * *
2238669 GTCAGCTTC
1 ATCATCATC
*
2238678 ATCGTCATC
1 ATCATCATC
2238687 ATCATCATC
1 ATCATCATC
*
2238696 ATCTTCATC
1 ATCATCATC
2238705 GTCAGCTTCA
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
9 56 1.00
ACGTcount: A:0.23, C:0.33, G:0.05, T:0.38
Consensus pattern (9 bp):
ATCATCATC
Found at i:2238678 original size:36 final size:36
Alignment explanation
Indices: 2238628--2238722 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
2238618 GTTTGGATCA
* * *
2238628 TCATCTTCATCTTCATCATCATCATCGTCATCATCT
1 TCATCGTCAGCTTCATCATCATCATCATCATCATCT
*
2238664 TCATCGTCAGCTTCATCGTCATCATCATCATCATCT
1 TCATCGTCAGCTTCATCATCATCATCATCATCATCT
*
2238700 TCATCGTCAGCTTCATCTTCATC
1 TCATCGTCAGCTTCATCATCATC
2238723 GACCGCTTGG
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.21, C:0.34, G:0.06, T:0.39
Consensus pattern (36 bp):
TCATCGTCAGCTTCATCATCATCATCATCATCATCT
Found at i:2238730 original size:18 final size:18
Alignment explanation
Indices: 2238658--2238730 Score: 76
Period size: 18 Copynumber: 4.1 Consensus size: 18
2238648 ATCATCGTCA
*
2238658 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
* * *
2238676 TCATCGTCATC-ATCATCA
1 TCATCTTCATCGA-CAGCT
*
2238694 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGACAGCT
*
2238712 TCATCTTCATCGACCGCT
1 TCATCTTCATCGACAGCT
2238730 T
1 T
2238731 GGTTGTCCAC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.19, C:0.34, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGACAGCT
Found at i:2240595 original size:200 final size:199
Alignment explanation
Indices: 2240183--2241749 Score: 2840
Period size: 200 Copynumber: 7.9 Consensus size: 199
2240173 TTTAAATTAG
*
2240183 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2240247 CTTGTACAGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
2240312 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
2240377 AAAA
196 AAAA
2240381 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2240446 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* * *
2240511 TCGACACTTTTTATATATGGATCGAAATTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2240576 AAAAA
195 AAAAA
* *
2240581 TACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2240646 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
2240711 CGACAC-TTTT-TATATGGATCGACAC-TTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
2240773 AAAA
196 AAAA
2240777 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2240842 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGGA
* * *
2240907 TCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCAACCTGTTTTCCATTCATTCAGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2240972 AAAAA
195 AAAAA
*
2240977 TACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2241042 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTAGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
2241107 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
2241172 AAAA
196 AAAA
2241176 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2241240 CTTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
*
2241304 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTTTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
2241369 AAAA
196 AAAA
* *
2241373 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATTTTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2241438 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGAA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
** *
2241503 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACTATGTTTTCCATTCATTCTGGAAC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACC
2241568 AAAAA
195 AAAAA
2241573 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
2241638 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGA
*
2241703 TCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2241750 GGCCATATTG
Statistics
Matches: 1316, Mismatches: 44, Indels: 16
0.96 0.03 0.01
Matches are distributed among these distances:
196 150 0.11
197 165 0.13
198 150 0.11
199 257 0.20
200 594 0.45
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (199 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
AAAA
Found at i:2240932 original size:396 final size:399
Alignment explanation
Indices: 2240186--2241749 Score: 2872
Period size: 396 Copynumber: 3.9 Consensus size: 399
2240176 AAATTAGTAT
*
2240186 CGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATACTT
1 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
*
2240250 GTACAGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
2240315 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
131 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
2240380 ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
196 ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
2240445 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
261 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
*
2240510 ATCGACACTTTTTATATATGGATCGAAATTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGAC
326 ATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGAC
2240575 CAAAAATAC
391 CAAAAATAC
*
2240584 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAAACCGGTATACTT
1 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
2240649 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
2240714 CAC-TTTT-TATATGGATCGACAC-TTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
131 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
2240776 ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
196 ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
2240841 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
261 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
*
2240906 ATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCAACCTGTTTTCCATTCATTCAGGAC
326 ATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGAC
2240971 CAAAAATAC
391 CAAAAATAC
2240980 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
1 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
*
2241045 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTAGGGATCGA
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
2241110 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
131 CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
2241175 ATATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
196 ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
* *
2241239 ACTTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTTGGG
261 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
* **
2241302 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTTTGGAC
326 ATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGAC
*
2241367 CAAAAATAT
391 CAAAAATAC
* *
2241376 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATTTTCTCTCATAAAATCGGTATACTT
1 CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
*
2241441 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGAATCG
66 GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATGTTTTTGGGATCG
** *
2241506 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACTATGTTTTCCATTCATTCTGGAACAAA
130 ACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAA
2241571 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
195 AATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
* *
2241636 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGG
260 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGG
* *
2241701 GATCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
325 GATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTT
2241750 GGCCATATTG
Statistics
Matches: 1135, Mismatches: 23, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
396 564 0.50
397 145 0.13
398 160 0.14
399 204 0.18
400 62 0.05
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (399 bp):
CGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTT
GTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATCGA
CACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCAAAA
ATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAT
ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGG
ATCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGAC
CAAAAATAC
Found at i:2241347 original size:596 final size:593
Alignment explanation
Indices: 2240183--2241749 Score: 2818
Period size: 596 Copynumber: 2.6 Consensus size: 593
2240173 TTTAAATTAG
*
2240183 TATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
2240247 CTTGTACAGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGGGAT
*
2240312 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGACCA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCAACCTGTTTTCCATTCATTCTGGACCA
2240377 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
*
2240442 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATT
261 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTT-TT
* *
2240507 GGGATCGACACTTTTTATATATGGATCGAAATTTTATGGTTGCACCCTGTTTTCCATTCATTCAG
324 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCAG
2240572 GACCAAAAATACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAA
389 GACCAAAAATACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAA
2240637 ACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGT
454 ACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGT
2240702 TTTTGGGATCGACACTTTTTATATGGATCGACACTTATGGTTGCACCCTGTTTTCCATTCATTCT
519 TTTTGGGATCGACACTTTTTATATGGATCGACACTTATGGTTGCACCCTGTTTTCCATTCATTCT
2240767 GGACCAAAAA
584 GGACCAAAAA
2240777 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2240842 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTATTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TTTCGATGTTTTTGGGA
* *
2240907 TCGACACTTTTTATATATGGATCGAAACTTTATGGTTGCAACCTGTTTTCCATTCATTCAGGACC
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAACCTGTTTTCCATTCATTCTGGACC
*
2240972 AAAAATACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
2241037 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTA
260 GTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTT-
*
2241102 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
324 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCAG
* *
2241167 GACCAAAAATATCGACACAAACT-AAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAA
389 GACCAAAAATACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAA
2241231 ACCGGTATACTTGTACCGGTTAGA-TGAAAAATTACATATTACATTATACTTTTGGGTTCGATGT
454 ACCGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGT
2241295 TTTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCAT
519 TTTTGGGATCGACAC-TTTT-TATATGGATCGACAC-TTATGGTTGCACCCTGTTTTCCATTCAT
*
2241360 TTTGGACCAAAAA
581 TCTGGACCAAAAA
* *
2241373 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATTTTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
2241438 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTTTGGAA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGTTTCGATGTTTTTGGGA
* *
2241503 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGC-ACTATGTTTTCCATTCATTCTGGAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCAAC-CTGTTTTCCATTCATTCTGGAC
2241567 CAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
194 CAAAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACC
2241632 GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTT
259 GGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGG-TTCGATG-TT
*
2241697 TTGGGATCGACACTTTTTATATATGGTTCGACACTTTATGGTTGCACCCTGTT
322 TTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
2241750 GGCCATATTG
Statistics
Matches: 938, Mismatches: 25, Indels: 17
0.96 0.03 0.02
Matches are distributed among these distances:
593 55 0.06
594 84 0.09
595 205 0.22
596 531 0.57
597 59 0.06
598 4 0.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (593 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTCGATGTTTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTTGCAACCTGTTTTCCATTCATTCTGGACCA
AAAATATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCAGGA
CCAAAAATACCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACATATTCTATCATAAAAC
CGGTATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTT
TTGGGATCGACACTTTTTATATGGATCGACACTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
ACCAAAAA
Found at i:2241914 original size:19 final size:19
Alignment explanation
Indices: 2241868--2241916 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
2241858 TTATATTCAC
*
2241868 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
2241887 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
2241906 ATACAAAATTA
1 ATACAAAATTA
2241917 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:2244705 original size:17 final size:18
Alignment explanation
Indices: 2244683--2244725 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
2244673 ATATATCCGG
2244683 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
2244700 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
2244720 TATCAT
1 TATCAT
2244726 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:2244743 original size:20 final size:19
Alignment explanation
Indices: 2244688--2244734 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
2244678 TCCGGTATCA
2244688 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2244707 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2244728 TTTTACC
1 TTTTACC
2244735 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2244914 original size:20 final size:19
Alignment explanation
Indices: 2244869--2244914 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
2244859 TCCGGTAACA
2244869 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2244888 TTGTTACCGGTTTTATTATAT
1 TT-TTACCGGTTTTATCAT-T
2244909 TTTTAC
1 TTTTAC
2244915 ATGGTATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.59
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2244959 original size:181 final size:181
Alignment explanation
Indices: 2244655--2245127 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 181
2244645 CGTACTTACG
*
2244655 AAAGTATCGACACTTTCAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* *
2244720 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATATATATTTTTAAAGTATCGACACATTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACAT-TTTTTAAAGTATCGACACATTAT
*
2244785 AAGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
130 AAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
*
2244836 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGTTACCGGTTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
* * * *
2244901 TATTATATTTTTACATGGTATATCGTTTTGGATCGATACATTTTTTAAAAGTATCGACACTTTAT
66 TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTT-AAAGTATCGACACATTAT
* ** *
2244966 AGGATTTAAAACTGCTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATT
130 AAGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
* * * * * ** *
2245018 AAAGTACCGACACTTTAAATGTATCTGGTAGCGCTTTACCGATTTTATCATTTCT-ATACCGGTT
1 AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTT-TGATACCGGTT
* * * *
2245082 TTGTCATAGTTTTACCTGTTATATTGTTTTGGATCGACACATTTTT
65 TTATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTT
2245128 AATTTGGATC
Statistics
Matches: 260, Mismatches: 29, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
180 5 0.02
181 161 0.62
182 93 0.36
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (181 bp):
AAAGTATCGACACTTTCAATATATCCGGTAACATTTTACCGGTTTTATCATTTTGATACCGGTTT
TATCATATTTTTACCTGTTATATCGTTTTGGATCGATACATTTTTTAAAGTATCGACACATTATA
AGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATT
Found at i:2245648 original size:229 final size:228
Alignment explanation
Indices: 2245194--2245688 Score: 902
Period size: 229 Copynumber: 2.2 Consensus size: 228
2245184 ACCTACTTTT
2245194 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
2245259 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
66 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
*
2245324 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACT
131 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
* *
2245389 AAATATAATAATAAATATGTTTTCCACAGTGAA
196 AAAGATAATAATAAATATATTTTCCACAGTGAA
*
2245422 ATAAGTATGGACACTTTTATAAAAATGATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCA
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
2245487 ATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
66 A-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAA
* *
2245552 AAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAT
130 AAAATTATTTGATT-ATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAA
2245617 CCAAAGATAATAATAAATATATTTT-CACAGTGAA
194 CCAAAGATAATAATAAATATATTTTCCACAGTGAA
*
2245651 ATAAGTATGGACACTTTTATAAAAATGATAGATACTTT
1 ATAAGTATGGACACTTTTATAAAAATGATATATACTTT
2245689 ACAATATAAC
Statistics
Matches: 257, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 65 0.25
229 122 0.47
230 70 0.27
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (228 bp):
ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAA
AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
AAAGATAATAATAAATATATTTTCCACAGTGAA
Found at i:2245951 original size:11 final size:11
Alignment explanation
Indices: 2245935--2245959 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2245925 ATCCGGTAAT
2245935 ACCGTATATTA
1 ACCGTATATTA
2245946 ACCGTATATTA
1 ACCGTATATTA
2245957 ACC
1 ACC
2245960 CACCTTTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (11 bp):
ACCGTATATTA
Found at i:2247746 original size:35 final size:35
Alignment explanation
Indices: 2247697--2247793 Score: 113
Period size: 35 Copynumber: 2.7 Consensus size: 35
2247687 AACATATTCA
*
2247697 TCAATTTACATTCTAAACCCCAAATTCCAAAATGCT
1 TCAA-TTACATTCTAAACCCCAAATTCCAAAATACT
* * *
2247733 TCAATTATATTCTAAACCTCAAATTCCAAGATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAATACT
* * **
2247768 TTAATTACATGCCCAACCCCAAATTC
1 TCAATTACATTCTAAACCCCAAATTC
2247794 ATAATCCATT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
35 47 0.92
36 4 0.08
ACGTcount: A:0.38, C:0.28, G:0.03, T:0.31
Consensus pattern (35 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAATACT
Found at i:2248824 original size:35 final size:35
Alignment explanation
Indices: 2248749--2248825 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
2248739 GTTGGGCATA
* *
2248749 TAATTAAAGTATTTTAGAATTTGAGATTTAGAATG
1 TAATTGAAGCATTTTAGAATTTGAGATTTAGAATG
* *
2248784 TAATTGAAGCATTTTGGAATTTGGGATTTAGAATG
1 TAATTGAAGCATTTTAGAATTTGAGATTTAGAATG
2248819 TAATTGA
1 TAATTGA
2248826 TGATCGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (35 bp):
TAATTGAAGCATTTTAGAATTTGAGATTTAGAATG
Found at i:2249900 original size:21 final size:21
Alignment explanation
Indices: 2249876--2249922 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
2249866 TTGTTGACCC
2249876 AGTGTAACAAATGGGAAAGAG
1 AGTGTAACAAATGGGAAAGAG
2249897 AGTGTAACAAATGGGAAAGAG
1 AGTGTAACAAATGGGAAAGAG
2249918 AGTGT
1 AGTGT
2249923 TTGCTTTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.34, T:0.17
Consensus pattern (21 bp):
AGTGTAACAAATGGGAAAGAG
Found at i:2253774 original size:3 final size:3
Alignment explanation
Indices: 2253766--2253790 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2253756 TACAAAATGT
2253766 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
2253791 ACGCAGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:2265154 original size:15 final size:15
Alignment explanation
Indices: 2265134--2265169 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
2265124 CATTTTTACA
2265134 AGTACTCAACTTAGT
1 AGTACTCAACTTAGT
2265149 AGTACTCAACTTAGT
1 AGTACTCAACTTAGT
2265164 AGTACT
1 AGTACT
2265170 AGGAAACACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (15 bp):
AGTACTCAACTTAGT
Found at i:2268824 original size:51 final size:51
Alignment explanation
Indices: 2268748--2268851 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
2268738 GAACAAGTAT
2268748 TTAATTTAAACTAAACGACTTAGTAGTTATCCTTATATAACTTTCTAAGAG
1 TTAATTTAAACTAAACGACTTAGTAGTTATCCTTATATAACTTTCTAAGAG
* * *
2268799 TTAATTTAAACTAAACTACTTAGTAGTTATCTTTATCTAACTTTCTAAGAG
1 TTAATTTAAACTAAACGACTTAGTAGTTATCCTTATATAACTTTCTAAGAG
2268850 TT
1 TT
2268852 GGTGTTATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (51 bp):
TTAATTTAAACTAAACGACTTAGTAGTTATCCTTATATAACTTTCTAAGAG
Done.