Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002498.1 Hibiscus syriacus cultivar Beakdansim tig00005092_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: 91358
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Found at i:1676 original size:15 final size:15
Alignment explanation
Indices: 1650--1693 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1640 TGGAGAGGAC
1650 ATGGAGGATGAGCATG
1 ATGGA-GATGAGCATG
1666 ATGGAGATGAGCATG
1 ATGGAGATGAGCATG
* *
1681 AAGCAGATGAGCA
1 ATGGAGATGAGCA
1694 CATGGACAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.36, C:0.09, G:0.39, T:0.16
Consensus pattern (15 bp):
ATGGAGATGAGCATG
Found at i:6253 original size:26 final size:27
Alignment explanation
Indices: 6219--6282 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
6209 ATATAAAAAT
* *
6219 TAATCAAATCAAATTT-TCAATTCAAC
1 TAATAAAATCAAATTTATCAAATCAAC
*
6245 TAATAAAATC-AATTTATCAAATCAAT
1 TAATAAAATCAAATTTATCAAATCAAC
*
6271 TACTAAAATCAA
1 TAATAAAATCAA
6283 CTACTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 5 0.16
26 26 0.81
27 1 0.03
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.33
Consensus pattern (27 bp):
TAATAAAATCAAATTTATCAAATCAAC
Found at i:17190 original size:20 final size:19
Alignment explanation
Indices: 17165--17338 Score: 140
Period size: 20 Copynumber: 8.7 Consensus size: 19
17155 ACAATGCGAT
17165 AGTCAAATTCGCAACACTGA
1 AGTCAAATTCGCAACAC-GA
* *
17185 AGTCAAATTCGTAACGCGA
1 AGTCAAATTCGCAACACGA
17204 A-TCTGTAAA-TCGCAACACGA
1 AGTC---AAATTCGCAACACGA
*
17224 ATTTGT-AAA-TCGCAACACAAA
1 A---GTCAAATTCGCAACAC-GA
*
17245 AGTCAAATTCGCAACACAAA
1 AGTCAAATTCGCAACAC-GA
*
17265 AGTCAAATTCGCAACACATA
1 AGTCAAATTCGCAACAC-GA
* *
17285 AGTCAAATTCACAACACAAA
1 AGTCAAATTCGCAACAC-GA
*
17305 AGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAACACG-A
17325 AGTCAAATTCGCAA
1 AGTCAAATTCGCAA
17339 AGCGCGTTTA
Statistics
Matches: 132, Mismatches: 11, Indels: 22
0.80 0.07 0.13
Matches are distributed among these distances:
18 4 0.03
19 6 0.05
20 116 0.88
21 5 0.04
24 1 0.01
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (19 bp):
AGTCAAATTCGCAACACGA
Found at i:17257 original size:40 final size:40
Alignment explanation
Indices: 17165--17338 Score: 176
Period size: 40 Copynumber: 4.3 Consensus size: 40
17155 ACAATGCGAT
** * * *
17165 AGTCAAATTCGCAACACTGAAGTCAAATTCGTAACGCGAATC
1 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACAC-AA-A
* **
17207 TGT-AAA-TCGCAACACGAATTTGT-AAA-TCGCAACACAAA
1 AGTCAAATTCGCAACAC-AA-AAGTCAAATTCGCAACACAAA
*
17245 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACATA
1 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAA
* * *
17285 AGTCAAATTCACAACACAAAAGTCAAATTCGCAACGCGAA
1 AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAA
17325 AGTCAAATTCGCAA
1 AGTCAAATTCGCAA
17339 AGCGCGTTTA
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.04
39 10 0.09
40 85 0.78
41 6 0.06
42 4 0.04
ACGTcount: A:0.44, C:0.24, G:0.13, T:0.19
Consensus pattern (40 bp):
AGTCAAATTCGCAACACAAAAGTCAAATTCGCAACACAAA
Found at i:17429 original size:20 final size:20
Alignment explanation
Indices: 17383--17431 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
17373 TCGGTAATTA
17383 GCATTGCGAATTTGTAAATC
1 GCATTGCGAATTTGTAAATC
* *
17403 ACGTTGCGAATTTGTAAATC
1 GCATTGCGAATTTGTAAATC
17423 GCATTGCGA
1 GCATTGCGA
17432 TAGTACTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (20 bp):
GCATTGCGAATTTGTAAATC
Found at i:17487 original size:20 final size:20
Alignment explanation
Indices: 17462--17528 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
17452 GATAATTAGT
17462 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
17482 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
*
17502 GTTGCGAATTTGTAAATCGC
1 GTTGCGAATTTGAAAATCGC
17522 GTTGCGA
1 GTTGCGA
17529 TAGTACTGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:17489 original size:77 final size:77
Alignment explanation
Indices: 17362--17508 Score: 231
Period size: 77 Copynumber: 1.9 Consensus size: 77
17352 TCGCAACACA
* * *
17362 GTTTACCTATATCGGTAATTAGCATTGCGAATTTGTAAATCACGTTGCGAATTTGTAAATCGCAT
1 GTTTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAATTTGAAAATCGCAT
17427 TGCGATAGTACT
66 TGCGATAGTACT
** * *
17439 GTTTACCTATATCGATAATTAGTGTTGCGAATTTGAAAATCGCGTTGCGAATTTGAAAATCGCGT
1 GTTTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAATTTGAAAATCGCAT
17504 TGCGA
66 TGCGA
17509 ATTTGTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.35
Consensus pattern (77 bp):
GTTTACCTATATCGATAATTAGCATTGCGAATTTGAAAATCACGTTGCGAATTTGAAAATCGCAT
TGCGATAGTACT
Found at i:17555 original size:97 final size:97
Alignment explanation
Indices: 17386--17585 Score: 337
Period size: 97 Copynumber: 2.1 Consensus size: 97
17376 GTAATTAGCA
*
17386 TTGCGAATTTGTAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTTACCTATAT
1 TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTTACCTATAT
*
17451 CGATAATTAGTGTTGCGAATTTGAAAATCGCG
66 CGATAATTAGCGTTGCGAATTTGAAAATCGCG
* *
17483 TTGCGAATTTGAAAATCGCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATAT
1 TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTTACCTATAT
* * *
17548 CGGTAATTAGCGTTGCGAATTTGTAAATTGCG
66 CGATAATTAGCGTTGCGAATTTGAAAATCGCG
17580 TTGCGA
1 TTGCGA
17586 TAGTACTTTT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 96 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (97 bp):
TTGCGAATTTGAAAATCACGTTGCGAATTTGTAAATCGCATTGCGATAGTACTGTTTACCTATAT
CGATAATTAGCGTTGCGAATTTGAAAATCGCG
Found at i:17567 original size:57 final size:57
Alignment explanation
Indices: 17500--17699 Score: 301
Period size: 57 Copynumber: 3.5 Consensus size: 57
17490 TTTGAAAATC
17500 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
* *
17557 GCGTTGCGAATTTGTAAATTGCGTTGCGATAGTACTTTTTACCTATATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
* * * * ** *
17614 GCATTTCGAATTTGAAAATCTCACTGCGATAGTACTGTTTACCTAAATCGGTAATTA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
**
17671 GCGTTGTAAATTTGTAAATCGCGTTGCGA
1 GCGTTGCGAATTTGTAAATCGCGTTGCGA
17700 ATTTGTAAAT
Statistics
Matches: 124, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 124 1.00
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (57 bp):
GCGTTGCGAATTTGTAAATCGCGTTGCGATAGTACTGTTTACCTATATCGGTAATTA
Found at i:17687 original size:20 final size:20
Alignment explanation
Indices: 17664--17709 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
17654 ACCTAAATCG
* *
17664 GTAATTAGCGTTGTAAATTT
1 GTAAATAGCGTTGCAAATTT
* *
17684 GTAAATCGCGTTGCGAATTT
1 GTAAATAGCGTTGCAAATTT
17704 GTAAAT
1 GTAAAT
17710 CGCATTGCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (20 bp):
GTAAATAGCGTTGCAAATTT
Found at i:17710 original size:20 final size:20
Alignment explanation
Indices: 17679--17719 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17669 TAGCGTTGTA
*
17679 AATTTGTAAATCGCGTTGCG
1 AATTTGTAAATCGCATTGCG
17699 AATTTGTAAATCGCATTGCG
1 AATTTGTAAATCGCATTGCG
17719 A
1 A
17720 TTGTACTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (20 bp):
AATTTGTAAATCGCATTGCG
Found at i:17858 original size:36 final size:37
Alignment explanation
Indices: 17789--17868 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 37
17779 TTTCAAATTT
17789 GCAACGCTAACTACCGATATAGGTAAACAGTACTATC
1 GCAACGCTAACTACCGATATAGGTAAACAGTACTATC
*
17826 GCAACGCTAATTACCGATATA-GTAAACAGTACTATC
1 GCAACGCTAACTACCGATATAGGTAAACAGTACTATC
17862 GCAACGC
1 GCAACGC
17869 GATATACAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 22 0.52
37 20 0.48
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (37 bp):
GCAACGCTAACTACCGATATAGGTAAACAGTACTATC
Found at i:17982 original size:40 final size:40
Alignment explanation
Indices: 17933--18207 Score: 274
Period size: 40 Copynumber: 6.8 Consensus size: 40
17923 TAAACGCGCT
*
17933 TTGCGAATTTGACTATC-GTGTTGCGAATTTGACTATCGTG
1 TTGCGAATTTGACT-TCTGTGTTGCGAATTTGACTATCGCG
* * * *
17973 TTGCGAATTTGACTATC-GCGTTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACT-TCTGTGTTGCGAATTTGACTATCGCG
* * *
18013 TTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCA
1 TTGCGAATTTG-ACTTCTGTGTTGCGAATTTGACTATCGCG
* *
18054 TTACGAATTTGACTTCTGTGTTGCGAATTTGACTTAT-GTG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGAC-TATCGCG
* * *
18094 TTGCAAATTTGACTTCTGTGTT---AATATTTACAAATTCGCG
1 TTGCGAATTTGACTTCTGTGTTGCGAAT-TTGAC-TA-TCGCG
* * * * *
18134 CTGTGAATTTAACTTCAGTGTTGCGAATTTGATTATCGCG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCG
*
18174 TTGCGAATTTGACTTCTGTGTCGCGAATTTGACT
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACT
18208 TCTGTATTGT
Statistics
Matches: 192, Mismatches: 34, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
37 3 0.02
38 5 0.03
39 1 0.01
40 143 0.74
41 34 0.18
42 3 0.02
43 3 0.02
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (40 bp):
TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCG
Found at i:18046 original size:81 final size:81
Alignment explanation
Indices: 17933--18105 Score: 244
Period size: 81 Copynumber: 2.1 Consensus size: 81
17923 TAAACGCGCT
* ** *
17933 TTGCGAATTTG-ACTATCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATC-GCGTTG
1 TTGCGAATTTGAAATATCGTGTTGCGAATTTGACTATCGCATTACGAATTTGACT-TCTGCGTTG
*
17996 CGAATTTGACTTTTGTG
65 CGAATTTGACTTATGTG
*
18013 TTGCGAATTTGAAAT-TCAGTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGTGTTG
1 TTGCGAATTTGAAATATC-GTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTG
18077 CGAATTTGACTTATGTG
65 CGAATTTGACTTATGTG
*
18094 TTGCAAATTTGA
1 TTGCGAATTTGA
18106 CTTCTGTGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
80 15 0.18
81 68 0.82
ACGTcount: A:0.22, C:0.14, G:0.23, T:0.41
Consensus pattern (81 bp):
TTGCGAATTTGAAATATCGTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGCGTTGC
GAATTTGACTTATGTG
Found at i:18108 original size:101 final size:101
Alignment explanation
Indices: 17933--18115 Score: 280
Period size: 101 Copynumber: 1.8 Consensus size: 101
17923 TAAACGCGCT
** * *
17933 TTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGCG
1 TTGCGAATTTGACTATCGCATTACGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGCA
*
17998 AATTTGACTTTTGTGTTGCGAATTTGAAATTCAGTG
66 AATTTGACTTCTGTGTTGCGAATTTGAAATTCAGTG
*
18034 TTGCGAATTTGACTATCGCATTACGAATTTGACT-TCTGTGTTGCGAATTTGACTTAT-GTGTTG
1 TTGCGAATTTGACTATCGCATTACGAATTTGACTATC-GTGTTGCGAATTTGAC-TATCGCGTTG
18097 CAAATTTGACTTCTGTGTT
64 CAAATTTGACTTCTGTGTT
18116 AATATTTACA
Statistics
Matches: 74, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
100 2 0.03
101 69 0.93
102 3 0.04
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (101 bp):
TTGCGAATTTGACTATCGCATTACGAATTTGACTATCGTGTTGCGAATTTGACTATCGCGTTGCA
AATTTGACTTCTGTGTTGCGAATTTGAAATTCAGTG
Found at i:18208 original size:20 final size:20
Alignment explanation
Indices: 17933--18212 Score: 245
Period size: 20 Copynumber: 13.9 Consensus size: 20
17923 TAAACGCGCT
17933 TTGCGAATTTGACTATC-GTG
1 TTGCGAATTTGACT-TCTGTG
17953 TTGCGAATTTGACTATC-GTG
1 TTGCGAATTTGACT-TCTGTG
*
17973 TTGCGAATTTGACTATC-GCG
1 TTGCGAATTTGACT-TCTGTG
*
17993 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTCTGTG
* *
18013 TTGCGAATTTGAAATTCAGTG
1 TTGCGAATTTG-ACTTCTGTG
**
18034 TTGCGAATTTGACTATC-GCA
1 TTGCGAATTTGACT-TCTGTG
*
18054 TTACGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
18074 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTCTGTG
*
18094 TTGCAAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
* *
18114 TT---AATATTTACAAATTC-GCG
1 TTGCGAAT-TTGAC---TTCTGTG
* * * *
18134 CTGTGAATTTAACTTCAGTG
1 TTGCGAATTTGACTTCTGTG
* *
18154 TTGCGAATTTGA-TTATCGCG
1 TTGCGAATTTGACTTCT-GTG
18174 TTGCGAATTTGACTTCTGTG
1 TTGCGAATTTGACTTCTGTG
*
18194 TCGCGAATTTGACTTCTGT
1 TTGCGAATTTGACTTCTGT
18213 ATTGTGATTT
Statistics
Matches: 216, Mismatches: 30, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
17 3 0.01
18 4 0.02
19 8 0.04
20 169 0.78
21 25 0.12
22 4 0.02
23 3 0.01
ACGTcount: A:0.21, C:0.15, G:0.22, T:0.41
Consensus pattern (20 bp):
TTGCGAATTTGACTTCTGTG
Found at i:18209 original size:60 final size:60
Alignment explanation
Indices: 17933--18209 Score: 300
Period size: 60 Copynumber: 4.6 Consensus size: 60
17923 TAAACGCGCT
17933 TTGCGAATTTGACTATC-GTGTTGCGAATTTGACTATC-GTGTTGCGAATTTGACTATCGCG
1 TTGCGAATTTGACT-TCTGTGTTGCGAATTTGACT-TCAGTGTTGCGAATTTGACTATCGCG
* * *
17993 TTGCGAATTTGACTTTTGTGTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCA
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTG-ACTTCAGTGTTGCGAATTTGACTATCGCG
* * *
18054 TTACGAATTTGACTTCTGTGTTGCGAATTTGACTT-ATGTGTTGCAAATTTGACT-TCTGTG
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCA-GTGTTGCGAATTTGACTATC-GCG
* * * * * *
18114 TT---AATATTTACAAATTC-GCGCTGTGAATTTAACTTCAGTGTTGCGAATTTGATTATCGCG
1 TTGCGAAT-TTGAC---TTCTGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCG
*
18174 TTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTC
1 TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTC
18210 TGTATTGTGA
Statistics
Matches: 179, Mismatches: 23, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
57 3 0.02
58 4 0.02
59 7 0.04
60 99 0.55
61 59 0.33
62 4 0.02
63 3 0.02
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.41
Consensus pattern (60 bp):
TTGCGAATTTGACTTCTGTGTTGCGAATTTGACTTCAGTGTTGCGAATTTGACTATCGCG
Found at i:18243 original size:20 final size:20
Alignment explanation
Indices: 18218--18259 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
18208 TCTGTATTGT
*
18218 GATTTATAAATTCGCGTTGC
1 GATTTACAAATTCGCGTTGC
*
18238 GATTTACAGATTCGCGTTGC
1 GATTTACAAATTCGCGTTGC
18258 GA
1 GA
18260 ATTTGGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (20 bp):
GATTTACAAATTCGCGTTGC
Found at i:18277 original size:120 final size:120
Alignment explanation
Indices: 18012--18303 Score: 313
Period size: 120 Copynumber: 2.4 Consensus size: 120
18002 TGACTTTTGT
* * *
18012 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGACTATCGCATTACGAATTTGACTTCTGTGTTG
1 GTTGCGAATTTGAAATT-AGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTCG
* * * * *
18077 CGAATTTGACTTATGTGTTGCAAATTTGACTTCTGTGTTAATATTTACAAATTCGC
65 CGAATTTGACTTATGTATTGCAAATTTAAATTCTGCGTTAAGATTTACAAATTCGC
* * * *
18133 GCTGTGAATTT-AACTTCAGTGTTGCGAATTTGATTATCGCGTTGCGAATTTGACTTCTGTGTCG
1 GTTGCGAATTTGAAATT-AGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTCG
* ** * ** *
18197 CGAATTTGACTTCTGTATTGTGATTTATAAATTC-GCGTTGCGATTTACAGATTCGC
65 CGAATTTGACTTATGTATTGCAAATT-TAAATTCTGCGTTAAGATTTACAAATTCGC
* * *
18253 GTTGCGAATTTGGAAATT-GGGTTGCGAAATTGGAGT-TCGCGTTGCGAATTT
1 GTTGCGAATTT-GAAATTAGTGTTGCG-AATTTGACTATCGCGTTGCGAATTT
18304 ATTGGTAATT
Statistics
Matches: 142, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
120 117 0.82
121 21 0.15
122 4 0.03
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.40
Consensus pattern (120 bp):
GTTGCGAATTTGAAATTAGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTCGC
GAATTTGACTTATGTATTGCAAATTTAAATTCTGCGTTAAGATTTACAAATTCGC
Found at i:18280 original size:100 final size:100
Alignment explanation
Indices: 18073--18264 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 100
18063 TGACTTCTGT
* * *
18073 GTTGCGAATTTGACTTATGTGTTGCAAATTTGACTTCTGTGTTAATATTTACAAATTCGCGCTGT
1 GTTGCGAATTTGACTTATGTGTCGCAAATTTGACTTCTGTATTAATATTTACAAATTCGCGCTGC
* * *
18138 GAATTTAACTTCAGTGTTGCGAATTTGATTATCGC
66 GAATTTAAATTCAGCGTTGCGAATTTGATAATCGC
* * * * *
18173 GTTGCGAATTTGACTTCTGTGTCGCGAATTTGACTTCTGTATT-GTGATTTATAAATTCGCGTTG
1 GTTGCGAATTTGACTTATGTGTCGCAAATTTGACTTCTGTATTAAT-ATTTACAAATTCGCGCTG
18237 CG-ATTTACAGATTC-GCGTTGCGAATTTG
65 CGAATTTA-A-ATTCAGCGTTGCGAATTTG
18265 GAAATTGGGT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
99 6 0.08
100 70 0.89
101 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (100 bp):
GTTGCGAATTTGACTTATGTGTCGCAAATTTGACTTCTGTATTAATATTTACAAATTCGCGCTGC
GAATTTAAATTCAGCGTTGCGAATTTGATAATCGC
Found at i:18296 original size:20 final size:21
Alignment explanation
Indices: 18225--18300 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 21
18215 TGTGATTTAT
* **
18225 AAATTCGCGTTGCG-ATTTAC
1 AAATTCGCGTTGCGAAATTGG
* *
18245 AGATTCGCGTTGCGAATTTGG
1 AAATTCGCGTTGCGAAATTGG
*
18266 AAATT-GGGTTGCGAAATTGG
1 AAATTCGCGTTGCGAAATTGG
*
18286 -AGTTCGCGTTGCGAA
1 AAATTCGCGTTGCGAA
18301 TTTATTGGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.07
20 35 0.76
21 8 0.17
ACGTcount: A:0.24, C:0.14, G:0.30, T:0.32
Consensus pattern (21 bp):
AAATTCGCGTTGCGAAATTGG
Found at i:19512 original size:24 final size:25
Alignment explanation
Indices: 19473--19541 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
19463 TTTCAGATAA
19473 AAAAAAGAGAGAATTTGAATGAAGAT
1 AAAAAA-AGAGAATTTGAATGAAGAT
*
19499 AAAAAAAGAGATTTTGAATGAAGAT
1 AAAAAAAGAGAATTTGAATGAAGAT
19524 AAAAAAA-AGAATTTGAAT
1 AAAAAAAGAGAATTTGAAT
19542 TAATAGGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 10 0.24
25 25 0.61
26 6 0.15
ACGTcount: A:0.59, C:0.00, G:0.19, T:0.22
Consensus pattern (25 bp):
AAAAAAAGAGAATTTGAATGAAGAT
Found at i:20273 original size:21 final size:20
Alignment explanation
Indices: 20247--20285 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
20237 ATATGTACCT
20247 TACCCTAAAATATAATGTAAA
1 TACCCTAAAATAT-ATGTAAA
20268 TACCCTAAAATATATGTA
1 TACCCTAAAATATATGTA
20286 CTTTTTGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TACCCTAAAATATATGTAAA
Found at i:30065 original size:17 final size:16
Alignment explanation
Indices: 30019--30065 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
30009 TTAATAACTC
*
30019 AAATAATATTA-TTTT
1 AAATAATAATATTTTT
30034 AAATAATTAAT-TTTTT
1 AAATAA-TAATATTTTT
30050 ACAATAATAATATTTT
1 A-AATAATAATATTTT
30066 CACATCATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 6 0.22
16 12 0.44
17 9 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AAATAATAATATTTTT
Found at i:32119 original size:34 final size:37
Alignment explanation
Indices: 32075--32176 Score: 167
Period size: 34 Copynumber: 2.8 Consensus size: 37
32065 TTTCGTCCTA
32075 CTAGGATTCAAACTCCTAAAAATAGGATAGA-A-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
32110 -TAGGATTCAAACTCCTAAAAATAGGATA-ACATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
32145 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
32177 GTTCTACTAA
Statistics
Matches: 62, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
33 1 0.02
34 29 0.47
35 3 0.05
37 28 0.45
38 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (37 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGACATTTT
Found at i:32200 original size:37 final size:37
Alignment explanation
Indices: 32072--32202 Score: 171
Period size: 37 Copynumber: 3.6 Consensus size: 37
32062 ATTTTTCGTC
32072 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
32109 -T--TAGGATTCAAACTCCTAAAAATAGGATA-ACATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGA-ATT
* * *
32143 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
32180 CTACTAAGATTTAAATTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
32203 GATAAGATCC
Statistics
Matches: 83, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
33 1 0.01
34 31 0.37
35 1 0.01
36 1 0.01
37 48 0.58
38 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:36216 original size:20 final size:20
Alignment explanation
Indices: 36193--36247 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
36183 AACAAAAATG
36193 GCAAAAAAAAAAGAAAAGAA
1 GCAAAAAAAAAAGAAAAGAA
*
36213 GCAAAAAGGAAAAA-ATAAGAA
1 GCAAAAA--AAAAAGAAAAGAA
*
36234 -CAAAAAAGAAAGAA
1 GCAAAAAAAAAAGAA
36248 CAAAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.14
19 1 0.03
20 13 0.45
21 6 0.21
22 5 0.17
ACGTcount: A:0.76, C:0.05, G:0.16, T:0.02
Consensus pattern (20 bp):
GCAAAAAAAAAAGAAAAGAA
Found at i:36886 original size:22 final size:22
Alignment explanation
Indices: 36858--36908 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
36848 CCCCATCAAT
*
36858 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATAAAATACCAAA
*
36880 CCTTTGAGCATAAAATGCCAAA
1 CCTTTGAGCATAAAATACCAAA
36902 CCTTTGA
1 CCTTTGA
36909 CCAGACACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.25
Consensus pattern (22 bp):
CCTTTGAGCATAAAATACCAAA
Found at i:37810 original size:36 final size:36
Alignment explanation
Indices: 37763--37867 Score: 156
Period size: 36 Copynumber: 2.9 Consensus size: 36
37753 GTGCTCGCCA
37763 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
* *
37799 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
37836 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
37868 TAAACATTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
36 31 0.50
37 31 0.50
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.39
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:37857 original size:37 final size:37
Alignment explanation
Indices: 37763--37872 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
37753 GTGCTCGCCA
37763 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* *
37799 TTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
37836 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
37873 ATTGAAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 30 0.46
37 32 0.49
38 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:38081 original size:37 final size:37
Alignment explanation
Indices: 38040--38113 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 37
38030 TGGAACTAAG
* * **
38040 TTTTGTCTCTCTTGAGACAGTTTTTCTTAAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
* *
38077 TTTTGTCTCCCTTAAGACCGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
38114 AATATCTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (37 bp):
TTTTGTCTCCCTTAAGACAGTTTCCCTTAAAACAAAA
Found at i:39046 original size:105 final size:105
Alignment explanation
Indices: 38672--39649 Score: 1525
Period size: 105 Copynumber: 9.3 Consensus size: 105
38662 GCCATCCGCG
* * * * * *
38672 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* *
38737 GGGACGGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
38781 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
38846 ACCGCTGGTTGTCAATAAACAATTTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAA-CAACAA-CTTCTCAATTTCAGAGCCA
*
38888 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
38953 ACCGCTGGTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* *
38993 ATTTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
39058 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
39098 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
39163 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
39203 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * *
39268 ACCGCTGCTTGTCAATAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
*
39308 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
39373 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
39413 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
39478 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
* * * *
39513 ATTTCAACTTCATAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * * ** *
39578 ACGGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCA
66 ACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAGAGCCA
*
39619 ATTTCAACTTCACAACGGAGGATATTGGACT
1 ATTTCAACTTCACAACGAAGGATATTGGACT
39650 TGGAACAATG
Statistics
Matches: 815, Mismatches: 46, Indels: 19
0.93 0.05 0.02
Matches are distributed among these distances:
100 82 0.10
101 3 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 506 0.62
106 93 0.11
107 99 0.12
109 22 0.03
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
Found at i:40305 original size:37 final size:36
Alignment explanation
Indices: 40180--40315 Score: 133
Period size: 36 Copynumber: 3.8 Consensus size: 36
40170 ATTTTTCGTC
40180 CTACTAGGATTCAAACTCCTAAAAAT--GATAGA-ATT
1 CTACTA-GATTCAAACTCCTAAAAATAGGATA-ACATT
40215 -T--TAGGATTCAAACTCCTAAAAATAGGATAACATT
1 CTACTA-GATTCAAACTCCTAAAAATAGGATAACATT
* *
40249 TTGCTAGATTCAAACTCCTAAAAATAGGATAA-AGTT
1 CTACTAGATTCAAACTCCTAAAAATAGGATAACA-TT
* * *
40285 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACT-AGATTCAAACTCCTAAAAATAGGAT
40316 CCACAACACT
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
32 22 0.25
33 1 0.01
34 8 0.09
35 2 0.02
36 31 0.35
37 24 0.27
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (36 bp):
CTACTAGATTCAAACTCCTAAAAATAGGATAACATT
Found at i:44298 original size:13 final size:14
Alignment explanation
Indices: 44274--44307 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
44264 TCGGTAAGTC
44274 TCTTCTTCTTTTTTT
1 TCTTC-TCTTTTTTT
44289 T-TTCTCTTTTTTT
1 TCTTCTCTTTTTTT
44302 TCTTCT
1 TCTTCT
44308 GGTTCTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.56
14 7 0.39
15 1 0.06
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TCTTCTCTTTTTTT
Found at i:44876 original size:3 final size:3
Alignment explanation
Indices: 44870--44968 Score: 128
Period size: 3 Copynumber: 32.7 Consensus size: 3
44860 TTAATATATT
*
44870 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** *
44917 TAA TGA TAA TATA TAA TAA TAA TAA GGA TAA TAA TAA TAT TATA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
44964 TAA TA
1 TAA TA
44969 TGGATAAAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.02
3 76 0.92
4 5 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:45494 original size:225 final size:225
Alignment explanation
Indices: 45218--45869 Score: 1049
Period size: 225 Copynumber: 2.9 Consensus size: 225
45208 TCTTGATGAG
*
45218 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCT
* * * * * * *
45282 GGCAATGTTGATCTATCAAATGATGAATTCAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAA
65 GGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAA
* * *
45347 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TACCTGGCAATGTTGATCCAT
130 CTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT--CTGGAAAAGATGATCCAT
45411 CAAATGATGAATTCAAGCAAAAGGTTGAACAAA
193 CAAATGATGAATTCAAGCAAAAGGTTGAACAAA
45444 TTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
45508 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
45573 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCACCAA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
* * *
45638 ATGATGGATTCAGGTAAAAGGTTGAACAAA
196 ATGATGAATTCAAGCAAAAGGTTGAACAAA
* *
45668 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
45733 GAAAAGCTGTTCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
66 GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
* *
45798 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAGCTGTTCCATCA
131 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTTCTCTGGAAAAGATGATCCATCA
45863 AATGATG
195 AATGATG
45870 GATTTGAATC
Statistics
Matches: 398, Mismatches: 24, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
224 69 0.17
225 275 0.69
226 54 0.14
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (225 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTCTGGAAAAGATGATCCATCAA
ATGATGAATTCAAGCAAAAGGTTGAACAAA
Found at i:45546 original size:112 final size:113
Alignment explanation
Indices: 45218--45873 Score: 1059
Period size: 113 Copynumber: 5.8 Consensus size: 113
45208 TCTTGATGAG
*
45218 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCT
* * * * * * *
45282 GGCAATGTTGATCTATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
65 GGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
45331 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTAC-CT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-CTCT
* * * * * *
45395 GGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
65 GGAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
45444 TTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
45508 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
45556 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
45620 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
* *
45668 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
45733 GAAAAGCTGTTCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
66 GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
*
45781 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
45846 GAAAAGCTGTTCCATCAAATGATGGATT
66 GAAAAGATGATCCATCAAATGATGGATT
45874 TGAATCTTTG
Statistics
Matches: 526, Mismatches: 14, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
111 1 0.00
112 214 0.41
113 311 0.59
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGATGATCCATCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
Found at i:46743 original size:82 final size:82
Alignment explanation
Indices: 46492--46917 Score: 694
Period size: 82 Copynumber: 5.2 Consensus size: 82
46482 TACTATGAGC
* *
46492 AAATTCATCTTCCAAATTCAATGATTGTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATTGTTCTGCT-AAACCAGGTCAGATAACTCAAAGAACACTT
*
46556 CCAGAAGATGCTATTGGC
65 CCAGAAGATGCTATTGGT
* * * * *
46574 AAATTCATCTTCCAAATTCAATGCTTGATTCT-ATATAATCAGATCAAATAACTCAAAGAACACT
1 AAATTCATCTTCCAAATTCAATGATTG-TTCTGCTA-AACCAGGTCAGATAACTCAAAGAACACT
*
46638 TCCAGAAGATGCTATTGGA
64 TCCAGAAGATGCTATTGGT
*
46657 AAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
1 AAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
46722 CAGAAGATGCTATTGGT
66 CAGAAGATGCTATTGGT
*
46739 AAATTCATCTTCCAAATTCAATGACTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
1 AAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
46804 CAGAAGATGCTATTGGT
66 CAGAAGATGCTATTGGT
*
46821 AAATTCATCTTCCAAATTCAATGATTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATT-GTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTT
46886 CCAGAAGATGCTATTGGT
65 CCAGAAGATGCTATTGGT
46904 AAATTCATCTTCCA
1 AAATTCATCTTCCA
46918 TTTAATGTTT
Statistics
Matches: 323, Mismatches: 16, Indels: 9
0.93 0.05 0.03
Matches are distributed among these distances:
82 178 0.55
83 145 0.45
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (82 bp):
AAATTCATCTTCCAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
CAGAAGATGCTATTGGT
Found at i:46861 original size:165 final size:165
Alignment explanation
Indices: 46492--46917 Score: 705
Period size: 165 Copynumber: 2.6 Consensus size: 165
46482 TACTATGAGC
** *
46492 AAATTCATCTTCCAAATTCAATGATTGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTC
1 AAATTCATCTTCCAAATTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
* *
46557 CAGAAGATGCTATTGGCAAATTCATCTTCCAAATTCAATGCTTGATTCTATATAATCAGATCAAA
66 CAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGCTTGATTCTATATAACCAGATCAAA
46622 TAACTCAAAGAACACTTCCAGAAGATGCTATTGGA
131 TAACTCAAAGAACACTTCCAGAAGATGCTATTGGA
* *
46657 AAATTCATCTTCTAAATTCAATGATTGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTC
1 AAATTCATCTTCCAAATTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
* *
46722 CAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGAC-TG-TTCTGCTA-AACCAGGTCA
66 CAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATG-CTTGATTCT-ATATAACCAGATCA
* *
46784 GATAACTCAAAGAACACTTCCAGAAGATGCTATTGGT
129 AATAACTCAAAGAACACTTCCAGAAGATGCTATTGGA
46821 AAATTCATCTTCCAAATTCAATGATTGGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTT
1 AAATTCATCTTCCAAATTCAATGATT-GTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTT
46886 CCAGAAGATGCTATTGGTAAATTCATCTTCCA
65 CCAGAAGATGCTATTGGTAAATTCATCTTCCA
46918 TTTAATGTTT
Statistics
Matches: 245, Mismatches: 13, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
164 72 0.29
165 172 0.70
166 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (165 bp):
AAATTCATCTTCCAAATTCAATGATTGTTCTGTTAAACCAGGTCAGATAACTCAAAGAACACTTC
CAGAAGATGCTATTGGTAAATTCATCTTCCAAATTCAATGCTTGATTCTATATAACCAGATCAAA
TAACTCAAAGAACACTTCCAGAAGATGCTATTGGA
Found at i:48056 original size:8 final size:7
Alignment explanation
Indices: 48039--48112 Score: 50
Period size: 7 Copynumber: 10.9 Consensus size: 7
48029 CTTGACCCTC
48039 TTTTCTT
1 TTTTCTT
48046 TTTTCCTTT
1 TTTT-C-TT
48055 TTTTCTT
1 TTTTCTT
*
48062 CTTT-TT
1 TTTTCTT
48068 TTTTC--
1 TTTTCTT
48073 TTTTCATT
1 TTTTC-TT
* *
48081 TTCTATT
1 TTTTCTT
48088 TTTTC-T
1 TTTTCTT
48094 TTTT-TT
1 TTTTCTT
*
48100 TCTTCTT
1 TTTTCTT
48107 TTTTCT
1 TTTTCT
48113 CTTCAAGCAT
Statistics
Matches: 51, Mismatches: 8, Indels: 16
0.68 0.11 0.21
Matches are distributed among these distances:
5 5 0.10
6 14 0.27
7 21 0.41
8 5 0.10
9 6 0.12
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:48068 original size:21 final size:21
Alignment explanation
Indices: 48044--48110 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
48034 CCCTCTTTTC
48044 TTTTTTCCTTTTTTTCTTCTT
1 TTTTTTCCTTTTTTTCTTCTT
* * *
48065 TTTTTTTCTTTTCATT-TTCTA
1 TTTTTTCCTTTT-TTTCTTCTT
*
48086 TTTTTTCTTTTTTTTCTTCTT
1 TTTTTTCCTTTTTTTCTTCTT
48107 TTTT
1 TTTT
48111 CTCTTCAAGC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 2 0.05
21 33 0.89
22 2 0.05
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTCCTTTTTTTCTTCTT
Found at i:48115 original size:9 final size:9
Alignment explanation
Indices: 48042--48115 Score: 50
Period size: 9 Copynumber: 8.4 Consensus size: 9
48032 GACCCTCTTT
48042 TCTTTTTTC
1 TCTTTTTTC
48051 -CTTTTTT-
1 TCTTTTTTC
48058 TCTTCTTTT-
1 TCTT-TTTTC
*
48067 T-TTTTCTTT
1 TCTTTT-TTC
*
48076 TC-ATTTTC
1 TCTTTTTTC
*
48084 TATTTTTTC
1 TCTTTTTTC
*
48093 TTTTTTTTC
1 TCTTTTTTC
48102 TTCTTTTTTC
1 -TCTTTTTTC
48112 TCTT
1 TCTT
48116 CAAGCATAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
7 2 0.04
8 17 0.33
9 25 0.48
10 8 0.15
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.80
Consensus pattern (9 bp):
TCTTTTTTC
Found at i:48115 original size:21 final size:21
Alignment explanation
Indices: 48041--48115 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 21
48031 TGACCCTCTT
48041 TTCTTTTTTC-C-TTTTTTTC
1 TTCTTTTTTCTCTTTTTTTTC
* **
48060 TTCTTTTTTTTTCTTTTCATT-
1 TTC-TTTTTTCTCTTTTTTTTC
48081 TTCTATTTTT-TCTTTTTTTTC
1 TTCT-TTTTTCTCTTTTTTTTC
48102 TTCTTTTTTCTCTT
1 TTCTTTTTTCTCTT
48116 CAAGCATAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
19 3 0.07
20 20 0.44
21 17 0.38
22 5 0.11
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (21 bp):
TTCTTTTTTCTCTTTTTTTTC
Found at i:57445 original size:13 final size:15
Alignment explanation
Indices: 57423--57459 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
57413 TTTGACAGAA
57423 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
57435 AAATAAAATACTTGC
1 AAATAAAATACTTGC
57450 AAATAAAATA
1 AAATAAAATA
57460 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:59637 original size:3 final size:3
Alignment explanation
Indices: 59631--59734 Score: 154
Period size: 3 Copynumber: 34.7 Consensus size: 3
59621 TTAATATATT
*
59631 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * ** *
59679 TGA TAA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59727 TAA TAA TA
1 TAA TAA TA
59735 TGGATAAAAA
Statistics
Matches: 89, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:61680 original size:229 final size:227
Alignment explanation
Indices: 61280--61765 Score: 900
Period size: 229 Copynumber: 2.1 Consensus size: 227
61270 GTAAATTATC
* * *
61280 TATCATTTTTATAAAATTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
61345 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
61410 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
61475 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
61508 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
61573 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
*
61638 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
61703 GAAACATAAATTACATAACTTTAAAAAAGTATA
195 GAAACATAAATTACATAACTTTAAAAAAGTATA
61736 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
61766 AAAAGTAGGT
Statistics
Matches: 251, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
228 77 0.31
229 174 0.69
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:62067 original size:20 final size:19
Alignment explanation
Indices: 62030--62090 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
62020 GTATCGATCC
*
62030 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
62049 AAATATGATAAAACCGGTAA
1 AAA-ATGATAAAACCGGTAA
62069 CAAAATGATAAAACCGGTAA
1 -AAAATGATAAAACCGGTAA
62089 AA
1 AA
62091 CGTTACCGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 5 0.13
20 26 0.68
21 7 0.18
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:62247 original size:20 final size:19
Alignment explanation
Indices: 62224--62270 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
62214 CGATATAACA
62224 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
62244 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
62264 GGTAAAA
1 GGTAAAA
62271 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:62263 original size:180 final size:182
Alignment explanation
Indices: 61832--62303 Score: 707
Period size: 180 Copynumber: 2.6 Consensus size: 182
61822 GATCCAAATT
* * *
61832 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * * *
61896 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* *
61961 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
* * *
62014 AAAAATGTATCGATCCAAAATGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
62079 AAACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
62143 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATAC-TTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
* *
62194 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
62259 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
62304 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 26, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
180 106 0.40
181 60 0.23
182 96 0.37
183 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:62272 original size:17 final size:19
Alignment explanation
Indices: 62233--62275 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
62223 AGGTAAAAAT
62233 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
62253 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
62270 ATGATA
1 ATGATA
62276 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:63013 original size:25 final size:25
Alignment explanation
Indices: 62985--63043 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
62975 TTATCATTAA
62985 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
63010 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
63035 ATTTAGGTA
1 ATTTAGGTA
63044 AGATTATCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.15, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:63427 original size:23 final size:23
Alignment explanation
Indices: 63396--63459 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
63386 ATAGGTAAAA
*
63396 ATATGATGTAATAGGTAGCGCTC
1 ATATAATGTAATAGGTAGCGCTC
* * *
63419 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTC
63442 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
63460 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTC
Found at i:63466 original size:23 final size:23
Alignment explanation
Indices: 63396--63468 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
63386 ATAGGTAAAA
* * *
63396 ATATGATGTAATAGGTAGCGCTC
1 ATATAATGTAATAGGTAGTGCTT
*
63419 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
63442 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
63465 ATAT
1 ATAT
63469 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:63673 original size:30 final size:29
Alignment explanation
Indices: 63614--63680 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
63604 GTTACGATAT
* *
63614 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
63644 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
63674 ATTTTTT
1 ATATTTT
63681 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:63857 original size:23 final size:23
Alignment explanation
Indices: 63826--63898 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
63816 ATAGGTAAAA
*
63826 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
63849 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
63872 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
63895 ATAT
1 ATAT
63899 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:63993 original size:430 final size:430
Alignment explanation
Indices: 63193--64248 Score: 1988
Period size: 430 Copynumber: 2.5 Consensus size: 430
63183 GTTAATGTTG
* * *
63193 TTAAATT-TAAATTATAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
63257 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTGAAACAT
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAATTGAAACAT
63322 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
*
63387 TAGGTAAAAATATGATGTAATAGGTAGCGCTCATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCGCTCATATAATGTAATAAGTATCGTTTATATAATGTA
63452 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
63517 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
*
63582 CGTCTAATGATTTATTTTTTATGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
63623 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
63688 TGAAATTATTAAATTAATATTGTAGGCGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
** *
63753 AATTACATAACTTTAAAAGAAGTATTAATCATTTTTATAAAAAGTATAGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
63818 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTCATATAATGTAATAAGTATCGTTTATATAATGTAA
*
63883 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCTATACTTTTTTCACTGT
261 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
63948 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
326 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
64013 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
391 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
64053 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
64118 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
64183 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
64248 A
196 A
64249 TAATGTAATA
Statistics
Matches: 609, Mismatches: 16, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
430 509 0.84
431 100 0.16
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTCATATAATGTAATAAGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:64103 original size:30 final size:29
Alignment explanation
Indices: 64044--64110 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
64034 GTTACGATAT
* *
64044 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
64074 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
64104 ATTTTTT
1 ATATTTT
64111 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:68223 original size:29 final size:29
Alignment explanation
Indices: 68181--68239 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
68171 ATTTTCACCT
68181 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
68210 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
68239 A
1 A
68240 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:72900 original size:29 final size:29
Alignment explanation
Indices: 72858--72916 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
72848 ATTTTCACCT
72858 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
72887 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
72916 A
1 A
72917 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:76419 original size:20 final size:20
Alignment explanation
Indices: 76391--76430 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
76381 GAGAATGTCC
*
76391 ATGAAAAGATCGAGCATAGT
1 ATGAAAAGAACGAGCATAGT
* *
76411 ATGAGAAGAACGATCATAGT
1 ATGAAAAGAACGAGCATAGT
76431 TCGATTCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.20
Consensus pattern (20 bp):
ATGAAAAGAACGAGCATAGT
Found at i:78410 original size:20 final size:21
Alignment explanation
Indices: 78379--78425 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
78369 TTGTGAAAAC
*
78379 CAATATTGAGT-CCTTAGTAT
1 CAATACTGAGTCCCTTAGTAT
* *
78399 CGATACTGAGTCCCTTGGTAT
1 CAATACTGAGTCCCTTAGTAT
78420 CAATAC
1 CAATAC
78426 CCACTTGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (21 bp):
CAATACTGAGTCCCTTAGTAT
Found at i:88180 original size:20 final size:20
Alignment explanation
Indices: 88151--88192 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
88141 ATTCCACCAC
*
88151 ATGCAACTATACGCTCCTAA
1 ATGCAACTATACGATCCTAA
* *
88171 ATGCATCTATATGATCCTAA
1 ATGCAACTATACGATCCTAA
88191 AT
1 AT
88193 AGGCTTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.31
Consensus pattern (20 bp):
ATGCAACTATACGATCCTAA
Found at i:88911 original size:21 final size:21
Alignment explanation
Indices: 88885--88927 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
88875 AGTTCCTTAA
88885 GCATGAAAAACATACAATCTT
1 GCATGAAAAACATACAATCTT
88906 GCATGAAAAACATACAATCTT
1 GCATGAAAAACATACAATCTT
88927 G
1 G
88928 TATTCAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.23
Consensus pattern (21 bp):
GCATGAAAAACATACAATCTT
Done.