Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003357.1 Hibiscus syriacus cultivar Beakdansim tig00007065_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: 137594
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Found at i:595 original size:55 final size:54
Alignment explanation
Indices: 526--1110 Score: 419
Period size: 55 Copynumber: 10.8 Consensus size: 54
516 TGGGTTCGCT
* *
526 CCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTT-GTATGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAAC-AA-TTCGTATGCC
* *
581 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTATGCC
* * * *
636 CCCTATTTCTTCAGAGAGTATAAGAC-C-CATAATCTTCATCAA-TCGCATCTTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCG--T-ATGCC
*
690 CCCTATTTCTTC--AGAGTATAAGA-TCCGAACAATCTTCAA-ATGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACT-CGAACAATCTTCAACA--ATT-CGTATGCC
* * * * * *
744 CCCTTTTTTCTTCGGAGAGTAT-AGAC-C-CACAATCTTCATCAA-TCGCATCTGTC
1 CCC-TATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCG--TATGCC
* *
797 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATT-CGTATGCC
* ** * *
852 CCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACAA-TCGGGTTCGT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCGTATGC-C
* * * * * * *
904 TCCTCTTTCTCCAGGGAGTAT-AGAACTCGAA-AATCTTTTGAA-AACT-GTATGCT
1 CCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATC--TTCAACAATTCGTATGCC
* * *
957 CCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAA-TCGTGT-CTAC
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCGTATGC--C
* * * * *
1011 TCCCTA-TTCTTTCAGAGAGTATGAGACTCAAATAATCTTCAACAA-TCGTGTGTGCT
1 -CCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTC--GTATGCC
* *
1067 CCCTATCT-TTCAGAGAGTATAAGACTCGAACAAACTTCAACAAT
1 CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT
1111 CGGGTCTACT
Statistics
Matches: 430, Mismatches: 55, Indels: 90
0.75 0.10 0.16
Matches are distributed among these distances:
51 10 0.02
52 55 0.13
53 76 0.18
54 92 0.21
55 175 0.41
56 6 0.01
57 15 0.03
58 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (54 bp):
CCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTCGTATGCC
Found at i:778 original size:108 final size:107
Alignment explanation
Indices: 577--896 Score: 511
Period size: 108 Copynumber: 3.0 Consensus size: 107
567 CAAACTTGTA
577 TGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT
1 TGCCCCCTATTTCTTCA-AGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT
*
642 TTCTTCAGAGAGTATAAGACCCATAATCTTCATCAATCGCATC
65 TTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCATC
*
685 TTGCCCCCTATTTCTTC-AGAGTATAAGA-TCCGAACAATCTTCAAATGATTGCGTCTGCCCCCT
1 -TGCCCCCTATTTCTTCAAGAGTATAAGACT-CGAACAATCTTC-AACGATTGCGTCTGCCCCC-
* *
748 TTTTTCTTCGGAGAGTAT-AGACCCACAATCTTCATCAATCGCATC
62 TATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCATC
*
793 TGTCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT
1 TGCCCCCTATTTCTTCA-AGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTAT
*
858 TTCTTCAGAGAGTATAAGACCCACAATCTTCAACAATCG
65 TTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCG
897 GGTTCGTTCC
Statistics
Matches: 195, Mismatches: 9, Indels: 15
0.89 0.04 0.07
Matches are distributed among these distances:
106 1 0.01
107 54 0.28
108 84 0.43
109 55 0.28
110 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (107 bp):
TGCCCCCTATTTCTTCAAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCTGCCCCCTATT
TCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCATC
Found at i:939 original size:53 final size:51
Alignment explanation
Indices: 882--1992 Score: 636
Period size: 53 Copynumber: 21.2 Consensus size: 51
872 TAAGACCCAC
* **
882 AATCTTCAACAATCGGGTTCGTTCCTCTTTCTCCAGGGAGTATAGAACTCGAA
1 AATCTTC-ACAA-CGGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAA
* * * * *
935 AATCTTTTGAAAAC-TGTAT-GCTCC-CTATTCCTTCAGAGAGTAT-GAGACTCGAA
1 AATC--TTCACAACGGGT-TCGCTCCTCT-TT-CTTTAGGGAGTATAGA-ACTCGAA
* * * *
988 CAATCTTCAACAATCGTG-TCTACTCC-CTATTCTTTCAGAGAGTAT-GAGACTCAAA
1 -AATCTTC-ACAA-CGGGTTC-GCTCCTCT-TTCTTT-AGGGAGTATAGA-ACTCGAA
* * *
1043 TAATCTTCAACAATCGTGTGT-GCTCC-CTATCTTTCAGAGAGTATA-AGACTCGAA
1 -AATCTTC-ACAA-CGGGT-TCGCTCCTCTTTCTTT-AGGGAGTATAGA-ACTCGAA
* * * * * *
1097 CAAACTTCAACAATCGGG-TCTACTCCCTATTTCTCTAGGGATTATGGAACTCGAA
1 -AATCTTC-ACAA-CGGGTTC-GCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAA
* * * * * * * *
1152 CATCTTCTTCTTACAGGTTTGCTCCCTCTTTCTCTAGGGAGTATAGAACTTGAT
1 AATCTTC-AC-AACGGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAA
** ** * *
1206 AATCTTCTGTAAGCGAATT--C-CCTTTTTC-TTAAGGAGTATAGAACTCGAA
1 AATCTTC-ACAA-CGGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAA
* * *
1255 TAATCTTTTGGA-AACGGGTTTGCTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAA
1 -AATC--TT-CACAACGGGTTCGCT-CCTCTTTCTTT-AGGGAGTATAGAACTCGAA
* * * *
1311 TGATCTTCTGAAAACGGGCTCGCTCCCTCTTTCTTCAGGGAGTATAGAACTCGAA
1 -AATCTTC--ACAACGGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAA
* * * ** *
1366 GATCTTCTTCTTACGGGTTCGCTTCGCTCTTTCTCCAGGAAGTATAGAACTCGAA
1 AATCTTC-AC-AACGGGTTCGC-TC-CTCTTTCTTTAGGGAGTATAGAACTCGAA
* *
1421 CAATCTTCTGA-AACGGGTTCGCTCC-CTCTTCTTCAGGGAGTATGGAACTCGAA
1 -AATCTTC--ACAACGGGTTCGCTCCTCT-TTCTTTAGGGAGTATAGAACTCGAA
* * *
1474 CATATTCTTCA-AACGGGTTCGCTCCCCCTTTCTCTA-GGAGTATAGAACTCGAG
1 -A-A-TCTTCACAACGGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAA
*
1527 CATCTTCA-AACGGGTTCGCTCC-CTCTTCTTTA-GGAGTATAGAACTCGAA
1 AATCTTCACAACGGGTTCGCTCCTCT-TTCTTTAGGGAGTATAGAACTCGAA
* * *
1576 TATCTTCAC-ACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACA
1 AATCTTCACAACGGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTC-GA-A
** * * *
1629 TCTCTTCA-AACGGGTTCGCTCATTCTTTCTTTAAGGAGTATGGAACTCGAA
1 AATCTTCACAACGGGTTCGCTC-CTCTTTCTTTAGGGAGTATAGAACTCGAA
* * *
1680 CATCTTCA-AACGGGTTCGCTCCTTCTTTCTTTAAGGAG--TAGAACTCGCA
1 AATCTTCACAACGGGTTCGCTCC-TCTTTCTTTAGGGAGTATAGAACTCGAA
* * *
1729 TATCTTCAC-ACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTCAGACA
1 AATCTTCACAACGGGTTCGCTCC-TCTTTCTTTAGGGAGTATAGAACTC-GA-A
** * *
1782 TCTCTTCA-AACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAA
1 AATCTTCACAACGGGTTCGCTCC-TCTTTCTTTAGGGAGTATAGAACTCGAA
* * *
1833 CATCTTCA-AACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGCA
1 AATCTTCACAACGGGTTCGCTCC-TCTTTCTTTAGGGAGTATAGAACTCGAA
* *
1884 TATCTTCAC-ACGGGTTCGCTCCT-TCTTCTCTAGGG-GTATAGAACTCGAA
1 AATCTTCACAACGGGTTCGCTCCTCT-TTCTTTAGGGAGTATAGAACTCGAA
* * * * *
1933 CATCTTCA-AACGGGTTCGCTCCCTCTCTCTCTAGGGAGTATGGAACTCAAA
1 AATCTTCACAACGGGTTCGCT-CCTCTTTCTTTAGGGAGTATAGAACTCGAA
1984 TAATCTTCA
1 -AATCTTCA
1993 TTTGCTTCAC
Statistics
Matches: 871, Mismatches: 117, Indels: 141
0.77 0.10 0.12
Matches are distributed among these distances:
48 2 0.00
49 134 0.15
50 62 0.07
51 143 0.16
52 34 0.04
53 169 0.19
54 134 0.15
55 138 0.16
56 54 0.06
57 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (51 bp):
AATCTTCACAACGGGTTCGCTCCTCTTTCTTTAGGGAGTATAGAACTCGAA
Found at i:1085 original size:109 final size:107
Alignment explanation
Indices: 523--1127 Score: 338
Period size: 109 Copynumber: 5.6 Consensus size: 107
513 AAATGGGTTC
* * * * ** * * *
523 GCTCCCTATTTCTTCAGAGGGTATAAGACTTGAATC-ATCTTCAACAAACTTGTATGCCCCCTAT
1 GCTCCCTATCT-TTCAGAGAGTATAAGACTCGAA-CAATCTTCAACAATCGGGTCTACTCCCTAT
* * * *
587 T-TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCT
64 TCT-TTCAGAGAGTAT-AGACTCGAA-AATCTTCAACAATCGTGTAT
* * * * * ** * *
633 GCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CATAATCTTCATCAATCGCATCTTGCCCCCTAT
1 GCTCCCTATCT-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTC-TACTCCCTAT
* * *
696 T-TCTTC--AGAGTATAAGA-TCCGAACAATCTTCAA-ATGATTGCGTCT
64 TCT-TTCAGAGAGTAT-AGACT-CGAA-AATCTTCAACA--ATCGTGTAT
* * * * * * ** *
741 GCCCCCTTTTTTCTTCGGAGAGTAT-AGAC-C-CACAATCTTCATCAATCGCATCT-GTCCCCTA
1 GCTCCC-TATCT-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTACT-CCCTA
* * * *
802 TT-TCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCGTCT
63 TTCT-TTCAGAGAGTAT-AGACTCGAA-AATCTTCAACAATCGTGTAT
* * *
849 GCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAACAATCGGGT-T-CGTTCCTCT
1 GCTCCCTATCT-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTAC--TCC-CT
* * *
910 -TTC-TCCAGGGAGTATAGAACTCGAAAATCTTTTGAA-AA-C-TGTAT
62 ATTCTTTCAGAGAGTATAG-ACTCGAAAATC--TTCAACAATCGTGTAT
* * *
954 GCTCCCTATTCCTTCAGAGAGTATGAGACTCGAACAATCTTCAACAATCGTGTCTACTCCCTATT
1 GCTCCCTA-TCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTACTCCCTATT
* *
1019 CTTTCAGAGAGTATGAGACTCAAATAATCTTCAACAATCGTGTGT
65 CTTTCAGAGAGTAT-AGACTCGAA-AATCTTCAACAATCGTGTAT
*
1064 GCTCCCTATCTTTCAGAGAGTATAAGACTCGAACAAACTTCAACAATCGGGTCTACTCCCTATT
1 GCTCCCTATCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTACTCCCTATT
1128 TCTCTAGGGA
Statistics
Matches: 418, Mismatches: 46, Indels: 63
0.79 0.09 0.12
Matches are distributed among these distances:
105 26 0.06
106 11 0.03
107 102 0.24
108 119 0.28
109 120 0.29
110 40 0.10
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (107 bp):
GCTCCCTATCTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGGGTCTACTCCCTATTC
TTTCAGAGAGTATAGACTCGAAAATCTTCAACAATCGTGTAT
Found at i:1211 original size:54 final size:53
Alignment explanation
Indices: 1119--1984 Score: 731
Period size: 51 Copynumber: 16.7 Consensus size: 53
1109 ATCGGGTCTA
* * * ** * *
1119 CTCCCTATTTCTCTAGGGATTATGGAACTCGAACATCTTCTTCTTACAGGTTTG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAA-ATCTTCTTCAAACGGGTTCG
* * **
1173 CTCCCTCTTTCTCTAGGGAGTATAGAACTTGATAATCTTCTGT-AAGC-GAAT--
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGA-AATCTTCT-TCAAACGGGTTCG
* * * *
1224 -TCCCTTTTTCT-TAAGGAGTATAGAACTCGAATAATCTT-TTGGAAACGGGTTTG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCG-A-AATCTTCTT-CAAACGGGTTCG
* * ** *
1277 CTCCCTCTTTCTTTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAA--ATCTTCTTCAAACGGGTTCG
**
1333 CTCCCTCTTTCT-TCAGGGAGTATAGAACTCGAAGATCTTCTTCTTACGGGTTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAA-ATCTTCTTCAAACGGGTTCG
* * * *
1387 CTTCGCTCTTTCTCCAGGAAGTATAGAACTCGAACAATCTTC-TGAAACGGGTTCG
1 C-TCCCTCTTTCTCTAGGGAGTATAGAACTCG-A-AATCTTCTTCAAACGGGTTCG
* *
1442 CTCCCTC-TTCT-TCAGGGAGTATGGAACTCGAACATATTCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAA-ATCTTCTTCAAACGGGTTCG
* * *
1495 CTCCCCCTTTCTCTA-GGAGTATAGAACTCG--AGCATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* * *
1545 CTCCCTC-TTCTTTA-GGAGTATAGAACTCG-AAT-ATCTTCACACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* *
1594 CTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATC-TCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTC-GAAATCTTCTTCAAACGGGTTCG
** * * * *
1647 CTCATTCTTTCTTTAAGGAGTATGGAACTCG-AA-CATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* * * * * *
1698 CTCCTTCTTTCTTTAAGGAG--TAGAACTCG-CAT-ATCTTCACACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* * *
1747 CTCCTTCTTTCTCTAGGGAGTATGGAACTCAGACATC-TCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTC-GAAATCTTCTTCAAACGGGTTCG
* * * * *
1800 CTCCTTCTTTCTTTAAGGAGTATGGAACTCG-AA-CATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* * * * * *
1851 CTCCTTCTTTCTTTAAGGAGTATAGAACTCG-CAT-ATCTTCACACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* *
1902 CTCCTTC-TTCTCTAGGG-GTATAGAACTCG-AA-CATCTTCAAACGGGTTCG
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
* *
1951 CTCCCTCTCTCTCTAGGGAGTATGGAACTC-AAAT
1 CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAAT
1985 AATCTTCATT
Statistics
Matches: 690, Mismatches: 79, Indels: 88
0.81 0.09 0.10
Matches are distributed among these distances:
48 1 0.00
49 139 0.20
50 70 0.10
51 142 0.21
52 10 0.01
53 142 0.21
54 74 0.11
55 62 0.09
56 48 0.07
57 2 0.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (53 bp):
CTCCCTCTTTCTCTAGGGAGTATAGAACTCGAAATCTTCTTCAAACGGGTTCG
Found at i:1684 original size:153 final size:153
Alignment explanation
Indices: 1119--1980 Score: 865
Period size: 153 Copynumber: 5.5 Consensus size: 153
1109 ATCGGGTCTA
* * ** * *
1119 CTCCCTATTTCTCTAGGGATTATGGAACTCGAACATCTTCTTCTTACAGGTTTGCTCCCTCTTTC
1 CTCCCTCTTTCTCTAGGGAGTATGGAACTCG-ACATC-TCTTCAAACGGGTTCGCTCCCTCTTTC
* * * * * ** * *
1184 TCTAGGGAGTATAGAACTTGATA-ATCTTCTGTAA-GCGAAT---TCCCTTTTTCTTAAGGAGTA
64 TTTAAGGAGTATGGAACTCGA-ACATCTTC--AAACG-GGTTCGCTCCCTCTTTCTTTAGGAGTA
* * *
1244 TAGAACTCGAATAATCTTTTGGAAACGGGTTTG
125 TAGAACTCGAAT-ATC--TT-CACACGGGTTCG
* * * * *
1277 CTCCCTCTTTCTTTCAGGAAGTATAGAACTCGA-ATGATCTTCTGAAAACGGGCTCGCTCCCTCT
1 CTCCCTCTTTCTCT-AGGGAGTATGGAACTCGACAT-CTCTTC---AAACGGGTTCGCTCCCTCT
* * * * ** * **
1341 TTCTTCAGGGAGTATAGAACTCGAAGATCTTCTTCTTACGGGTTCGCTTCGCTCTTTCTCCAGGA
61 TTCTTTAAGGAGTATGGAACTCG-A-A-CATCTTCAAACGGGTTCGC-TCCCTCTTTCTTTAGG-
* *
1406 AGTATAGAACTCGAACAATCTTCTGAAACGGGTTCG
121 AGTATAGAACTCGAA-TATCTTC--ACACGGGTTCG
* *
1442 CTCCCTC-TTCT-TCAGGGAGTATGGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTT
1 CTCCCTCTTTCTCT-AGGGAGTATGGAACTCG-ACAT-CTCTTCAAACGGGTTCGCTCCCTCTTT
* * *
1505 CTCT-AGGAGTATAGAACTCGAGCATCTTCAAACGGGTTCGCTCCCTC-TTCTTTAGGAGTATAG
63 CTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGAGTATAG
1568 AACTCGAATATCTTCACACGGGTTCG
128 AACTCGAATATCTTCACACGGGTTCG
**
1594 CTCCCTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCATTCTTTCT
1 CTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTCTTCAAACGGGTTCGCTCCCTCTTTCT
*
1659 TTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAG--TAGA
65 TTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTT-AGGAGTATAGA
*
1722 ACTCGCATATCTTCACACGGGTTCG
129 ACTCGAATATCTTCACACGGGTTCG
* *
1747 CTCCTTCTTTCTCTAGGGAGTATGGAACTCAGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCT
1 CTCCCTCTTTCTCTAGGGAGTATGGAACTC-GACATCTCTTCAAACGGGTTCGCTCCCTCTTTCT
*
1812 TTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGA
65 TTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTT-AGGAGTATAGA
*
1877 ACTCGCATATCTTCACACGGGTTCG
129 ACTCGAATATCTTCACACGGGTTCG
* * *
1902 CTCCTTC-TTCTCTAGGG-GTATAGAACTCGA-A-CATCTTCAAACGGGTTCGCTCCCTCTCTCT
1 CTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATC-TCTTCAAACGGGTTCGCTCCCTCTTTCT
* *
1963 CTAGGGAGTATGGAACTC
65 TTAAGGAGTATGGAACTC
1981 AAATAATCTT
Statistics
Matches: 616, Mismatches: 60, Indels: 63
0.83 0.08 0.09
Matches are distributed among these distances:
150 1 0.00
151 43 0.07
152 45 0.07
153 224 0.36
154 24 0.04
155 56 0.09
156 7 0.01
157 12 0.02
158 29 0.05
159 14 0.02
160 35 0.06
161 21 0.03
162 22 0.04
163 22 0.04
164 7 0.01
165 36 0.06
166 18 0.03
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (153 bp):
CTCCCTCTTTCTCTAGGGAGTATGGAACTCGACATCTCTTCAAACGGGTTCGCTCCCTCTTTCTT
TAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTTTAGGAGTATAGAAC
TCGAATATCTTCACACGGGTTCG
Found at i:1981 original size:204 final size:202
Alignment explanation
Indices: 1226--1980 Score: 821
Period size: 204 Copynumber: 3.6 Consensus size: 202
1216 AAGCGAATTC
* *
1226 CCTT-TTTC-TTAAGGAGTATAGAACTCGAATAATCTTTTGGAAACGGGTTTGCTCCCTCTTTCT
1 CCTTCTTTCTTTAAGGAGTATAGAACTCGAAT-ATC--TT-CAAACGGGTTCGCTCCCTCTTTCT
* * *
1289 TTCAGGAAGTATAGAACTCGAATGATCTTCTGAAAACGGGCTCGCTCCCTCTTTCT-TCAGGGAG
62 CT-AGG-AGTATAGAACTCGAA-CATCTTC---AAACGGGTTCGCTCCCTCTTTCTCT-AGGGAG
** ** *
1353 TATAGAACTCGAAGATCTTCTTCTTACGGGTTCGCTTCGCTCTTTC-TCCAGGAAGTATAGAACT
120 TATAGAACTCG-A-ATC-TCTTCAAACGGGTTCGC-TC-CTCTTTCTTTAAGG-AGTATGGAACT
1417 CGAACAATCTTCTGAAACGGGTTCGCT
179 CGAAC-ATCTTC--AAACGGGTTCGCT
* * * * *
1444 CCCTC-TTCTTCAGGGAGTATGGAACTCGAACATATTCTTCAAACGGGTTCGCTCCCCCTTTCTC
1 CCTTCTTTCTTTAAGGAGTATAGAACTCG-A-ATA-TCTTCAAACGGGTTCGCTCCCTCTTTCTC
* *
1508 TAGGAGTATAGAACTCGAGCATCTTCAAACGGGTTCGCTCCCTC-TTCTTTA-GGAGTATAGAAC
63 TAGGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAAC
* * * *
1571 TCGAATATCTTCACACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATGGAACTC-AGACATCTCTT
128 TCGAATCTCTTCAAACGGGTTCGCT-CCTCTTTCTTTAAGGAGTATGGAACTCGA-ACA--TCTT
1635 CAAACGGGTTCGCT
189 CAAACGGGTTCGCT
* * * * *
1649 CATTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGGGTTCGCTCCTTCTTTCTTTAA
1 CCTTCTTTCTTTAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGCTCCCTCTTTCTCT-A
* * * * *
1714 GGAG--TAGAACTCGCATATCTTCACACGGGTTCGCTCCTTCTTTCTCTAGGGAGTATGGAACTC
65 GGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
1777 AGACATCTCTTCAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAA
130 -GA-ATCTCTTCAAACGGGTTCGCTCC-TCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAA
1842 ACGGGTTCGCT
192 ACGGGTTCGCT
* * *
1853 CCTTCTTTCTTTAAGGAGTATAGAACTCGCATATCTTCACACGGGTTCGCTCCTTC-TTCTCTAG
1 CCTTCTTTCTTTAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAG
* * *
1917 GGGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTCTCTCTAGGGAGTATGGAACTC
66 GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTC
1981 AAATAATCTT
Statistics
Matches: 466, Mismatches: 50, Indels: 56
0.81 0.09 0.10
Matches are distributed among these distances:
202 35 0.08
203 38 0.08
204 143 0.31
205 23 0.05
206 87 0.19
207 24 0.05
208 2 0.00
209 1 0.00
210 15 0.03
211 5 0.01
212 18 0.04
215 6 0.01
216 14 0.03
217 3 0.01
218 28 0.06
219 18 0.04
220 2 0.00
221 4 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (202 bp):
CCTTCTTTCTTTAAGGAGTATAGAACTCGAATATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAG
GAGTATAGAACTCGAACATCTTCAAACGGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCG
AATCTCTTCAAACGGGTTCGCTCCTCTTTCTTTAAGGAGTATGGAACTCGAACATCTTCAAACGG
GTTCGCT
Found at i:2248 original size:36 final size:36
Alignment explanation
Indices: 2207--2361 Score: 222
Period size: 36 Copynumber: 4.3 Consensus size: 36
2197 TTCACTTTTT
* * *
2207 GGTGAAGACTTAAGATGGTTTGCTTCACTACTCTCT
1 GGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCC
* *
2243 GGTGAAGACTTATGATGGTTTGCTTCACTATTCTCC
1 GGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCC
* * *
2279 GGTGAAGGCTT-CGATTGATTGCTTCACTATTCTCC
1 GGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCC
*
2314 GGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCC
1 GGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCC
2350 GGTGAAGGCTTA
1 GGTGAAGGCTTA
2362 GGATTGACTT
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
35 32 0.30
36 75 0.70
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (36 bp):
GGTGAAGGCTTAAGATGGTTTGCTTCACTATTCTCC
Found at i:2303 original size:71 final size:71
Alignment explanation
Indices: 2226--2360 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 71
2216 TTAAGATGGT
*
2226 TTGCTTCACTACTCTCTGGTGAAGACTT-ATGATGGTTTGCTTCACTATTCTCCGGTGAAGGCTT
1 TTGCTTCACTACTCTCCGGTGAAGACTTCA-GATGGTTTGCTTCACTATTCTCCGGTGAAGGCTT
2290 CGATTGA
65 CGATTGA
* *
2297 TTGCTTCACTATTCTCCGGTGAAGGCTTCAGATGGTTTGCTTCACTATTCTCCGGTGAAGGCTT
1 TTGCTTCACTACTCTCCGGTGAAGACTTCAGATGGTTTGCTTCACTATTCTCCGGTGAAGGCTT
2361 AGGATTGACT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
71 59 0.98
72 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (71 bp):
TTGCTTCACTACTCTCCGGTGAAGACTTCAGATGGTTTGCTTCACTATTCTCCGGTGAAGGCTTC
GATTGA
Found at i:13906 original size:22 final size:22
Alignment explanation
Indices: 13880--13926 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
13870 TGAAATTTTG
*
13880 ATTTTGATTCT-AAAAAATGAA
1 ATTTTTATTCTAAAAAAATGAA
* *
13901 ATTTTTATTTTAAAAAAATTAA
1 ATTTTTATTCTAAAAAAATGAA
13923 ATTT
1 ATTT
13927 CCTCCCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTTTTATTCTAAAAAAATGAA
Found at i:15535 original size:2 final size:2
Alignment explanation
Indices: 15528--15569 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15518 ATTATCATTC
15528 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
15570 TTGATGGATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20298 original size:2 final size:2
Alignment explanation
Indices: 20291--20316 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20281 CTCAGTTTAT
20291 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
20317 ATTTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:20574 original size:15 final size:14
Alignment explanation
Indices: 20554--20596 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
20544 AATTATATAT
20554 ATATAATTTAAAATA
1 ATATAATTTAAAA-A
*
20569 ATATAATTTTAAAA
1 ATATAATTTAAAAA
20583 A-A-AATTTAAAAA
1 ATATAATTTAAAAA
20595 AT
1 AT
20597 GAATAGAGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 2 0.08
15 12 0.48
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATATAATTTAAAAA
Found at i:20576 original size:29 final size:30
Alignment explanation
Indices: 20513--20576 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
20503 TTTTATGTGT
**
20513 GAATTATATATTATATAACTTTAAATTTTA
1 GAATTATATATTATATAACTTTAAATAATA
20543 GAATTATATA-TATATAA-TTTAAAATAATA
1 GAATTATATATTATATAACTTT-AAATAATA
*
20572 TAATT
1 GAATT
20577 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 3 0.10
29 17 0.57
30 10 0.33
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
GAATTATATATTATATAACTTTAAATAATA
Found at i:21056 original size:21 final size:21
Alignment explanation
Indices: 21020--21079 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
21010 TATCACCCTA
21020 AACTGTCAT-TTCAGCACCGTG
1 AACTGTCATGTT-AGCACCGTG
*
21041 AACTGTCATGTTAGCATCGTG
1 AACTGTCATGTTAGCACCGTG
* *
21062 GACTGCCATGTTAGCACC
1 AACTGTCATGTTAGCACC
21080 TTAAACTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (21 bp):
AACTGTCATGTTAGCACCGTG
Found at i:21087 original size:21 final size:21
Alignment explanation
Indices: 21013--21088 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
21003 ATTAATCTAT
* *
21013 CACCCTAAACTGTCAT-TTCAG
1 CACCGTAAACTGCCATGTT-AG
* *
21034 CACCGTGAACTGTCATGTTAG
1 CACCGTAAACTGCCATGTTAG
* **
21055 CATCGTGGACTGCCATGTTAG
1 CACCGTAAACTGCCATGTTAG
*
21076 CACCTTAAACTGC
1 CACCGTAAACTGC
21089 TACATCAGCA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
21 43 0.96
22 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (21 bp):
CACCGTAAACTGCCATGTTAG
Found at i:22537 original size:20 final size:20
Alignment explanation
Indices: 22489--22552 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 20
22479 AATAGTTTCT
** *
22489 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
22509 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
** *
22529 GAATTTGACTATTGCAACGC
1 GAAAATGACTATCGCAACGC
22549 GAAA
1 GAAA
22553 CTAAAATCGC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.44, C:0.20, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:22823 original size:22 final size:22
Alignment explanation
Indices: 22796--22839 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
22786 GATGGAGATA
22796 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
22818 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
22840 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:23031 original size:21 final size:21
Alignment explanation
Indices: 23007--23081 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
22997 CGCTTTGAAA
23007 ATCGCATTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
* ** *
23028 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTTTGT-ATT
* *
23048 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTTTGTATT
23069 ATCGCATTGCGAT
1 ATCGCATTGCGAT
23082 AGTAAGTATC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 24 0.59
22 2 0.05
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (21 bp):
ATCGCATTGCGATTTTGTATT
Found at i:23070 original size:41 final size:41
Alignment explanation
Indices: 23007--23101 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
22997 CGCTTTGAAA
* *
23007 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
* * *
23048 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
23089 ATCGCATTGCGAT
1 ATCGCATTGCGAT
23102 ATCGCATTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGT
Found at i:23093 original size:20 final size:19
Alignment explanation
Indices: 23007--23134 Score: 79
Period size: 20 Copynumber: 6.7 Consensus size: 19
22997 CGCTTTGAAA
* *
23007 ATCGCATTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
* *
23028 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
23048 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
23069 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGT-AGT
23089 ATCGCATTGC----G-A-T
1 ATCGCATTGCGATAGTAGT
23102 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
23122 ATCGCATTGCGAT
1 ATCGCATTGCGAT
23135 TTTCCCAATT
Statistics
Matches: 84, Mismatches: 12, Indels: 23
0.71 0.10 0.19
Matches are distributed among these distances:
13 11 0.13
14 1 0.01
16 1 0.01
17 1 0.01
19 6 0.07
20 39 0.46
21 23 0.27
22 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:23106 original size:13 final size:13
Alignment explanation
Indices: 23088--23115 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
23078 CGATAGTAAG
23088 TATCGCATTGCGA
1 TATCGCATTGCGA
23101 TATCGCATTGCGA
1 TATCGCATTGCGA
23114 TA
1 TA
23116 GTCAGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (13 bp):
TATCGCATTGCGA
Found at i:23110 original size:33 final size:33
Alignment explanation
Indices: 23068--23134 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
23058 GATTTTGTAT
23068 TATCGCATTGCGATAGTAAGTATCGCATTGCGA
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGA
*
23101 TATCGCATTGCGATAGTCAGTATCGCATTGCGA
1 TATCGCATTGCGATAGTAAGTATCGCATTGCGA
23134 T
1 T
23135 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (33 bp):
TATCGCATTGCGATAGTAAGTATCGCATTGCGA
Found at i:23765 original size:2 final size:2
Alignment explanation
Indices: 23758--23790 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23748 AAAAGATCCA
*
23758 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23791 CAGAATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:25172 original size:29 final size:29
Alignment explanation
Indices: 25137--25218 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
25127 AAACTAAATT
*
25137 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
25166 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
*
25195 GATGTCACTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
25219 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:29928 original size:29 final size:29
Alignment explanation
Indices: 29893--29974 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
29883 AAACTAAATT
*
29893 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
29922 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
*
29951 GATGTCACTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
29975 GTTAGGTGAG
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
29 44 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:31335 original size:40 final size:40
Alignment explanation
Indices: 31280--31360 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
31270 ACCGATTATT
*
31280 TTTCTGCCACAACACAAATATTTTATTAATTGTACAATGA
1 TTTCTGCCACAACACAAATATTTTATCAATTGTACAATGA
* *
31320 TTTCTGCGACGACACAAATATTTTATCAATTGTACAATGA
1 TTTCTGCCACAACACAAATATTTTATCAATTGTACAATGA
31360 T
1 T
31361 ACCATTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (40 bp):
TTTCTGCCACAACACAAATATTTTATCAATTGTACAATGA
Found at i:33251 original size:2 final size:2
Alignment explanation
Indices: 33244--33293 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
33234 ATTAGCATTC
33244 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
33286 AT AT AT AT
1 AT AT AT AT
33294 TTGATGGATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34746 original size:23 final size:22
Alignment explanation
Indices: 34701--34747 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
34691 GAAATTTAGA
*
34701 TTTTGATTCTAAAAAAATGAAT
1 TTTTGATTCTAAAAAAATAAAT
* *
34723 TTTTTATTTTAAAAAAATTAAAT
1 TTTTGATTCTAAAAAAA-TAAAT
34746 TT
1 TT
34748 CCTCCCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTTGATTCTAAAAAAATAAAT
Found at i:35668 original size:21 final size:20
Alignment explanation
Indices: 35585--35670 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 20
35575 ATATTTTTAG
*
35585 ATTTAAAAACTACATTGTCA
1 ATTTAAAAACTACATTATCA
* *
35605 ATTT-AGAAC-AC-TTATGA
1 ATTTAAAAACTACATTATCA
* * *
35622 ATTTAAAAAATTACGATAAGTAA
1 ATTT-AAAAACTAC-ATTA-TCA
35645 ATTTAAAACACTACATTATCA
1 ATTTAAAA-ACTACATTATCA
35666 ATTTA
1 ATTTA
35671 GAAATCCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.16
18 2 0.04
19 7 0.14
20 6 0.12
21 7 0.14
22 9 0.18
23 10 0.20
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTTAAAAACTACATTATCA
Found at i:41168 original size:18 final size:20
Alignment explanation
Indices: 41126--41170 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
41116 CCAATACTCA
41126 GTTTATTATATATATATAAT
1 GTTTATTATATATATATAAT
* *
41146 TTTTATTTTATAT-TA-AAT
1 GTTTATTATATATATATAAT
41164 GTTTATT
1 GTTTATT
41171 CATAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 9 0.41
19 2 0.09
20 11 0.50
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
GTTTATTATATATATATAAT
Found at i:41884 original size:21 final size:21
Alignment explanation
Indices: 41849--41907 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
41839 ATCACCCTAA
41849 ACTGTCAT-TTCAGCACCGTAG
1 ACTGTCATGTT-AGCACCGTAG
*
41870 ACTGTCATGTTAGCATCGTAG
1 ACTGTCATGTTAGCACCGTAG
*
41891 ACTGCCATGTTAGCACC
1 ACTGTCATGTTAGCACC
41908 TTAAACTGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 32 0.94
22 2 0.06
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (21 bp):
ACTGTCATGTTAGCACCGTAG
Found at i:41915 original size:21 final size:21
Alignment explanation
Indices: 41841--41917 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
41831 ATTAATCTAT
* *
41841 CACCCTAAACTGTCAT-TTCAG
1 CACCGTAAACTGCCATGTT-AG
* *
41862 CACCGTAGACTGTCATGTTAG
1 CACCGTAAACTGCCATGTTAG
* *
41883 CATCGTAGACTGCCATGTTAG
1 CACCGTAAACTGCCATGTTAG
*
41904 CACCTTAAACTGCC
1 CACCGTAAACTGCC
41918 GCATCAGCAC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 46 0.96
22 2 0.04
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (21 bp):
CACCGTAAACTGCCATGTTAG
Found at i:43550 original size:2 final size:2
Alignment explanation
Indices: 43543--43589 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
43533 AAAAGATCCA
43543 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
*
43585 TT AT A
1 AT AT A
43590 CAGAATAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:45827 original size:39 final size:40
Alignment explanation
Indices: 45773--45852 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 40
45763 TCCGATTATT
*
45773 TTTCTGCGACAACACAAATATTTTAT-TATTGTACAATGA
1 TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
*
45812 TTTCTGCGACGACACAAATATTTTATCAATTGTACAATGA
1 TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
45852 T
1 T
45853 ACCATTATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 25 0.66
40 13 0.34
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (40 bp):
TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
Found at i:51011 original size:2 final size:2
Alignment explanation
Indices: 51004--51062 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
50994 AATTAGCATC
51004 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51045 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
51063 TTGATGGATT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53255 original size:23 final size:24
Alignment explanation
Indices: 53219--53264 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
53209 ACCACTTTCC
*
53219 AATTTAATAGTTATATACTTTTTA
1 AATTTAATAATTATATACTTTTTA
* *
53243 AATTTAA-AATTATCTATTTTTT
1 AATTTAATAATTATATACTTTTT
53265 TTTGAGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
AATTTAATAATTATATACTTTTTA
Found at i:53434 original size:21 final size:20
Alignment explanation
Indices: 53351--53436 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 20
53341 TTTGTTTTAG
* *
53351 ATTTAAAAACTACAATGTCA
1 ATTTAAAAACTACATTATCA
*
53371 ATTT-AAAAC-AC-TTATGA
1 ATTTAAAAACTACATTATCA
* * *
53388 ATTTAAAAAATTACGATAAGTAA
1 ATTT-AAAAACTAC-ATTA-TCA
53411 ATTTAAAACACTACATTATCA
1 ATTTAAAA-ACTACATTATCA
53432 ATTTA
1 ATTTA
53437 GAAATCCAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
17 7 0.14
18 2 0.04
19 9 0.18
20 6 0.12
21 7 0.14
22 9 0.18
23 10 0.20
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTTAAAAACTACATTATCA
Found at i:54122 original size:2 final size:2
Alignment explanation
Indices: 54115--54146 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
54105 ATTATCATTC
54115 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
54147 TATTTGATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60157 original size:21 final size:20
Alignment explanation
Indices: 60074--60159 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 20
60064 ATTTTTTTAG
*
60074 ATTTAAAAACTACATTGTCA
1 ATTTAAAAACTACATTATCA
* *
60094 ATTT-AGAAC-AC-TTATGA
1 ATTTAAAAACTACATTATCA
* * *
60111 ATTTAAAAAATTACGATAAGTAA
1 ATTT-AAAAACTAC-ATTA-TCA
60134 ATTTAAAACACTACATTATCA
1 ATTTAAAA-ACTACATTATCA
60155 ATTTA
1 ATTTA
60160 GAAATCCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.16
18 2 0.04
19 7 0.14
20 6 0.12
21 7 0.14
22 9 0.18
23 10 0.20
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTTAAAAACTACATTATCA
Found at i:62858 original size:14 final size:15
Alignment explanation
Indices: 62841--62869 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62831 AAAAATAATT
62841 TATTAAATAT-TAAA
1 TATTAAATATCTAAA
62855 TATTAAATATCTAAA
1 TATTAAATATCTAAA
62870 CTACTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTAAATATCTAAA
Found at i:64726 original size:19 final size:19
Alignment explanation
Indices: 64702--64744 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
64692 GTAAGGTAAT
64702 TTTTTAACTTTATTTT-TCA
1 TTTTTAA-TTTATTTTATCA
*
64721 TTTTTAATTTTTTTTATCA
1 TTTTTAATTTATTTTATCA
64740 TTTTT
1 TTTTT
64745 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTAATTTATTTTATCA
Found at i:64736 original size:10 final size:10
Alignment explanation
Indices: 64721--64754 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
64711 TTATTTTTCA
64721 TTTTTAATTT
1 TTTTTAATTT
64731 TTTTTATCATTT
1 TTTTTA--ATTT
64743 TTTTTAATTT
1 TTTTTAATTT
64753 TT
1 TT
64755 AATTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 12 0.55
12 10 0.45
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTAATTT
Found at i:64746 original size:29 final size:29
Alignment explanation
Indices: 64701--64760 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
64691 TGTAAGGTAA
*
64701 TTTTTTAACTTTATTTTTCATTTTTAATT
1 TTTTTTAACTTTATTTTTAATTTTTAATT
*
64730 TTTTTTATCATTT-TTTTTAATTTTTAATT
1 TTTTTTAAC-TTTATTTTTAATTTTTAATT
64759 TT
1 TT
64761 ATATTACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTTTTAACTTTATTTTTAATTTTTAATT
Found at i:65652 original size:19 final size:18
Alignment explanation
Indices: 65627--65670 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
65617 CCAGTACTCA
65627 GTTTATTATATATATATAAT
1 GTTTATTATATAT-TA-AAT
*
65647 -TTTATTTTATATTAAAT
1 GTTTATTATATATTAAAT
65664 GTTTATT
1 GTTTATT
65671 CATAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 3 0.14
18 8 0.36
19 11 0.50
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (18 bp):
GTTTATTATATATTAAAT
Found at i:65876 original size:8 final size:8
Alignment explanation
Indices: 65838--65898 Score: 51
Period size: 8 Copynumber: 8.1 Consensus size: 8
65828 TTTATGTGTG
65838 AATTATAT
1 AATTATAT
65846 -ATTATAT
1 AATTATAT
65853 AACTT-TA-
1 AA-TTATAT
*
65860 AATTTTAT
1 AATTATAT
65868 AATTATAT
1 AATTATAT
65876 -A-TATAT
1 AATTATAT
*
65882 AAATATAT
1 AATTATAT
*
65890 ATTTATAT
1 AATTATAT
65898 A
1 A
65899 TATTTAAAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
6 7 0.16
7 13 0.30
8 22 0.50
9 2 0.05
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (8 bp):
AATTATAT
Found at i:65895 original size:22 final size:22
Alignment explanation
Indices: 65865--65906 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
65855 CTTTAAATTT
65865 TATAATTATATATATATAAATA
1 TATAATTATATATATATAAATA
* *
65887 TATATTTATATATATTTAAA
1 TATAATTATATATATATAAA
65907 AATAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TATAATTATATATATATAAATA
Found at i:66385 original size:21 final size:21
Alignment explanation
Indices: 66361--66419 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
66351 GTCACCCTAA
66361 ACTGTCAT-TTCAGCACCGTGG
1 ACTGTCATGTT-AGCACCGTGG
*
66382 ACTGTCATGTTAGCATCGTGG
1 ACTGTCATGTTAGCACCGTGG
* *
66403 ATTGCCATGTTAGCACC
1 ACTGTCATGTTAGCACC
66420 TTAAACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (21 bp):
ACTGTCATGTTAGCACCGTGG
Found at i:68066 original size:2 final size:2
Alignment explanation
Indices: 68059--68088 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
68049 AAAAGATCCA
68059 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
68089 CAGAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:72635 original size:21 final size:20
Alignment explanation
Indices: 72552--72637 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 20
72542 ATTTTTTTAG
*
72552 ATTTAAAAACTACATTGTCA
1 ATTTAAAAACTACATTATCA
* *
72572 ATTT-AGAAC-AC-TTATGA
1 ATTTAAAAACTACATTATCA
* * *
72589 ATTTAAAAAATTACGATAAGTAA
1 ATTT-AAAAACTAC-ATTA-TCA
72612 ATTTAAAACACTACATTATCA
1 ATTTAAAA-ACTACATTATCA
72633 ATTTA
1 ATTTA
72638 GAAATCCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.16
18 2 0.04
19 7 0.14
20 6 0.12
21 7 0.14
22 9 0.18
23 10 0.20
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTTAAAAACTACATTATCA
Found at i:73327 original size:2 final size:2
Alignment explanation
Indices: 73320--73379 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
73310 ATTATCATTC
73320 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
73362 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
73380 TATTTGATGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75381 original size:14 final size:15
Alignment explanation
Indices: 75364--75392 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
75354 AAAAATAATT
75364 TATTAAATAT-TAAA
1 TATTAAATATCTAAA
75378 TATTAAATATCTAAA
1 TATTAAATATCTAAA
75393 CTACTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTAAATATCTAAA
Found at i:77269 original size:19 final size:19
Alignment explanation
Indices: 77227--77261 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
77217 GTAAGGTAAT
77227 TTTTTAACTTTATTTTTAA
1 TTTTTAACTTTATTTTTAA
77246 TTTTTAA-TTT-TTTTTA
1 TTTTTAACTTTATTTTTA
77262 TCATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTAACTTTATTTTTAA
Found at i:78195 original size:18 final size:22
Alignment explanation
Indices: 78151--78197 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 22
78141 CCAGTACTCA
78151 GTTTATTATATATATATATAAT
1 GTTTATTATATATATATATAAT
*
78173 TTTTATT-T-TATAT-TA-AAT
1 GTTTATTATATATATATATAAT
78191 GTTTATT
1 GTTTATT
78198 CATAATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 9 0.39
19 2 0.09
20 5 0.22
21 1 0.04
22 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
GTTTATTATATATATATATAAT
Found at i:78405 original size:2 final size:2
Alignment explanation
Indices: 78398--78428 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
78388 ATTTTATAAT
78398 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78429 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:78446 original size:16 final size:17
Alignment explanation
Indices: 78421--78456 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
78411 ATATATATAT
*
78421 ATATATATTTAAAAATA
1 ATATATATTTAAAAAAA
78438 ATATA-ATTTAAAAAAA
1 ATATATATTTAAAAAAA
78454 ATA
1 ATA
78457 AAAAAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATATATTTAAAAAAA
Found at i:80671 original size:3 final size:3
Alignment explanation
Indices: 80663--80784 Score: 208
Period size: 3 Copynumber: 40.7 Consensus size: 3
80653 TTAATATATT
* * *
80663 TAA TAA TAA TAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
80711 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
80759 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
80785 TGGATAAAAA
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 111 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:81354 original size:113 final size:113
Alignment explanation
Indices: 81102--81769 Score: 987
Period size: 113 Copynumber: 5.9 Consensus size: 113
81092 GAATTATGCC
* * *
81102 AAAA-GTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * * * * *
81166 TATGAACTTCTACCAGGCAATGTTGATCCATTAAATGATGAATTCAAGC
66 TATGAAC-TCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
81215 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** *
81280 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAAGT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
81328 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
**** * * * * * **
81393 TATGAACTTTCTCTGGAAAAGTTAATCCATCAAGTGATGAATTTAAAC
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
* *
81441 AAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAAATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
81506 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
81554 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
81619 TATGAACTCGAACTGGAAAAGATGATCCACCAAATGATGGATTCAGGT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
81667 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* **
81732 TATGAACTCGAACTGGAAAAGCTGATCTTTCAAATGAT
66 TATGAACTCGAACTGGAAAAGATGATCCATCAAATGAT
81770 AAATTTGAAT
Statistics
Matches: 513, Mismatches: 41, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
113 449 0.88
114 64 0.12
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTCGAACTGGAAAAGATGATCCATCAAATGATGGATTCAAGT
Found at i:82653 original size:83 final size:83
Alignment explanation
Indices: 82494--82863 Score: 521
Period size: 83 Copynumber: 4.5 Consensus size: 83
82484 CCTACTGAAT
* * * *
82494 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAAATTAAA
*
82559 TGATTGGTTCTG-CCAAAC
66 TGATTGATTCTGTCC-AAC
*
82577 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAATTAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCCAAATTAA
* *
82641 ATGCTTGATTCTGTCCAAT
65 ATGATTGATTCTGTCCAAC
* * * * *
82660 CAGATCAAATAACTCAAAGAACACTTCCAGGAGATGCTATGAACACATTCATCTTCCACATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAAATTAAA
* *
82725 TGATTGGTTCTGTCTAAC
66 TGATTGATTCTGTCCAAC
*
82743 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAATTAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCCAAATTAA
* *
82807 ATGCTTGATTCTGTCCAAT
65 ATGATTGATTCTGTCCAAC
*
82826 CAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
82864 TGATCCTGTC
Statistics
Matches: 254, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
82 2 0.01
83 246 0.97
84 6 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACAAATTCATCTTCCAAATTAAA
TGATTGATTCTGTCCAAC
Found at i:82765 original size:166 final size:166
Alignment explanation
Indices: 82491--82863 Score: 685
Period size: 166 Copynumber: 2.2 Consensus size: 166
82481 GTTCCTACTG
* *
82491 AATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATGTTCCGAATT
1 AATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGAATT
82556 CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
66 CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
82621 AAATTCATCTTCCAAATTAAATGCTTGATTCTGTCC
131 AAATTCATCTTCCAAATTAAATGCTTGATTCTGTCC
*
82657 AATCAGATCAAATAACTCAAAGAACACTTCCAGGAGATGCTATGAACACATTCATCTTCC-ACAT
1 AATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGA-AT
* *
82721 TCAATGATTGGTTCTGTCTAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGG
65 TCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGG
82786 CAAATTCATCTTCCAAATTAAATGCTTGATTCTGTCC
130 CAAATTCATCTTCCAAATTAAATGCTTGATTCTGTCC
82823 AATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCT
1 AATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCT
82864 TGATCCTGTC
Statistics
Matches: 200, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
165 1 0.00
166 199 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (166 bp):
AATCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGAATT
CAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGC
AAATTCATCTTCCAAATTAAATGCTTGATTCTGTCC
Found at i:82875 original size:52 final size:52
Alignment explanation
Indices: 82807--83019 Score: 399
Period size: 52 Copynumber: 4.1 Consensus size: 52
82797 TCCAAATTAA
82807 ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
1 ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
*
82859 ATGCTTGATCCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
1 ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
*
82911 ATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
*
82963 ATGCTTGATTCTGTCCAATCAGATCAGATAACTCAAAGAACACTTCCAGAAG
1 ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
83015 ATGCT
1 ATGCT
83020 ATTGGCAAAT
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 158 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (52 bp):
ATGCTTGATTCTGTCCAATCAGATCAAATAACTCAAAGAACACTTCCAGAAG
Found at i:84279 original size:12 final size:11
Alignment explanation
Indices: 84262--84309 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
84252 TGACCCTCCT
84262 TTTTTTCTTCTC
1 TTTTTTCTT-TC
84274 TTTTTT-TTTC
1 TTTTTTCTTTC
*
84284 TCTTTTTTTTTC
1 T-TTTTTCTTTC
84296 -TTTTTCTTTC
1 TTTTTTCTTTC
84306 TTTT
1 TTTT
84310 CTTCAAGCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
10 12 0.38
11 10 0.31
12 10 0.31
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:84297 original size:22 final size:24
Alignment explanation
Indices: 84263--84309 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 24
84253 GACCCTCCTT
*
84263 TTTTTC-TTCTCTTTTTTTTTCTC
1 TTTTTCTTTCTCTTTTTTCTTCTC
84286 TTTTT-TTT-TC-TTTTTCTT-TC
1 TTTTTCTTTCTCTTTTTTCTTCTC
84306 TTTT
1 TTTT
84310 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 6 0.27
21 7 0.32
22 2 0.09
23 7 0.32
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTCTTTCTCTTTTTTCTTCTC
Found at i:84309 original size:15 final size:15
Alignment explanation
Indices: 84263--84312 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 15
84253 GACCCTCCTT
*
84263 TTTTTCTTCTCTTTTT
1 TTTTTCTT-TCTTTTC
*
84279 TTTTCTCTTTTTTTTTC
1 TTTT-TC-TTTCTTTTC
84296 TTTTTCTTTCTTTTC
1 TTTTTCTTTCTTTTC
84311 TT
1 TT
84313 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 10 0.34
16 6 0.21
17 11 0.38
18 2 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:96635 original size:22 final size:22
Alignment explanation
Indices: 96592--96641 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
96582 ATCGTTGGTA
*
96592 TAGTTTATTTTTTTCCTTTCTC
1 TAGTTTATTTTTTTCCTGTCTC
96614 T-GTTT-TTTTTTGTCTCTGTCTC
1 TAGTTTATTTTTT-TC-CTGTCTC
96636 TAGTTT
1 TAGTTT
96642 CTGTCCCCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 6 0.25
21 6 0.25
22 8 0.33
23 4 0.17
ACGTcount: A:0.06, C:0.16, G:0.10, T:0.68
Consensus pattern (22 bp):
TAGTTTATTTTTTTCCTGTCTC
Found at i:97121 original size:3 final size:3
Alignment explanation
Indices: 97113--97260 Score: 244
Period size: 3 Copynumber: 49.7 Consensus size: 3
97103 TTAATATATT
* * *
97113 TAA TAA TAA TAG TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
97161 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA AAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
97209 TAA TAA TAA -AA TAA TAA 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
97256 TAA TA
1 TAA TA
97261 TGGATAAAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
2 2 0.01
3 132 0.99
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:97566 original size:21 final size:21
Alignment explanation
Indices: 97542--97585 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
97532 ATTAATCTGT
*
97542 CACCCTAAACTGTCATTTTAG
1 CACCCTAAACTGTCATGTTAG
* **
97563 CACCGTGGACTGTCATGTTAG
1 CACCCTAAACTGTCATGTTAG
97584 CA
1 CA
97586 TCGTGGATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (21 bp):
CACCCTAAACTGTCATGTTAG
Found at i:97590 original size:21 final size:21
Alignment explanation
Indices: 97550--97608 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
97540 GTCACCCTAA
*
97550 ACTGTCATTTTAGCACCGTGG
1 ACTGTCATGTTAGCACCGTGG
*
97571 ACTGTCATGTTAGCATCGTGG
1 ACTGTCATGTTAGCACCGTGG
* *
97592 ATTGCCATGTTAGCACC
1 ACTGTCATGTTAGCACC
97609 TTAAACTGCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (21 bp):
ACTGTCATGTTAGCACCGTGG
Found at i:101515 original size:40 final size:40
Alignment explanation
Indices: 101460--101540 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
101450 TCCGATTATT
*
101460 TTTCTGCGACAACACAAATATTTTATTAATTGTACAATGA
1 TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
**
101500 TTTCTGCGATGACACAAATATTTTATCAATTGTACAATGA
1 TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
101540 T
1 T
101541 ACCATTATCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (40 bp):
TTTCTGCGACAACACAAATATTTTATCAATTGTACAATGA
Found at i:103462 original size:2 final size:2
Alignment explanation
Indices: 103455--103484 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
103445 ATTAGCATTC
103455 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
103485 TATTTGATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104958 original size:21 final size:23
Alignment explanation
Indices: 104903--104969 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 23
104893 TCAATCACAA
* *
104903 ATTCTAAAATGAAATTTAGATTTTG
1 ATTCTAAAA--AAAATTAAATTTTG
* *
104928 ATTCT-AAAAAAATTATATTTTT
1 ATTCTAAAAAAAATTAAATTTTG
104950 ATT-TAAAAAAAATTAAATTT
1 ATTCTAAAAAAAATTAAATTT
104970 CCTCCCATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.76
24 3 0.08
25 5 0.14
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (23 bp):
ATTCTAAAAAAAATTAAATTTTG
Found at i:105126 original size:227 final size:226
Alignment explanation
Indices: 104737--105152 Score: 564
Period size: 227 Copynumber: 1.8 Consensus size: 226
104727 ATTTGTCAAC
** * * *
104737 AAATTCCCTCCCATTTGAGCTCCACTTGATGAATGATCATTTAATTCTACGAAATCTCATGATCT
1 AAATTCCCTCCCATTTGAGCTCCACTCCATGAATAATCATTTAATCCCACGAAA-CTCATGATCT
* * * **
104802 TGTTGCCTGTGTTTAATATTTTTCATGAGAAGGAATCGTCAATATTATCTCCTCCATTTCTATAA
65 TGTAGCCTGAGTTTAATATTTTCCATGAGAAGGAATAATCAATATTATCTCCTCCATTTCTATAA
* *
104867 AAAAATTAAAAAAAAATATTAACATTTCAATCACAAATTCTAAAATGAAATTTAGATTTTGATTC
130 AAAAATTAAAAAAAAATATTAACATTTCAATCACAAATTCTAAAATAAAATTTACATTTTGATTC
104932 TAAAAAAATTATATTTTTATTTAAAAAAAATT
195 TAAAAAAATTATATTTTTATTTAAAAAAAATT
* *
104964 AAATTTCCTCCCATTTGAGTTCCACTCCATGAATAATCATTTAATCCCACGAAA-TCATGATCTT
1 AAATTCCCTCCCATTTGAGCTCCACTCCATGAATAATCATTTAATCCCACGAAACTCATGATCTT
* ** * ** *
105028 GTAGTCTGAGTTTGGTATTTTCCATGTGAAGGAATAATTGATATTATCTCCTCCGTTTCTATTAA
66 GTAGCCTGAGTTTAATATTTTCCATGAGAAGGAATAATCAATATTATCTCCTCCATTTCTA-TAA
* * ** *
105093 AAAAATTAAAAAATCATTATTAGTATTTCAATCATAAATTCTAAAATAAAATTTACATTT
130 AAAAATTAAAAAA-AAATATTAACATTTCAATCACAAATTCTAAAATAAAATTTACATTT
105153 CGATCCAACT
Statistics
Matches: 161, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
225 59 0.37
226 16 0.10
227 86 0.53
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (226 bp):
AAATTCCCTCCCATTTGAGCTCCACTCCATGAATAATCATTTAATCCCACGAAACTCATGATCTT
GTAGCCTGAGTTTAATATTTTCCATGAGAAGGAATAATCAATATTATCTCCTCCATTTCTATAAA
AAAATTAAAAAAAAATATTAACATTTCAATCACAAATTCTAAAATAAAATTTACATTTTGATTCT
AAAAAAATTATATTTTTATTTAAAAAAAATT
Found at i:105947 original size:18 final size:18
Alignment explanation
Indices: 105916--105951 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
105906 ATATATTTTA
105916 AATTTAAATAATTTATTT
1 AATTTAAATAATTTATTT
* *
105934 AATTTTAATTATTTATTT
1 AATTTAAATAATTTATTT
105952 TTTAAATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AATTTAAATAATTTATTT
Found at i:110426 original size:20 final size:20
Alignment explanation
Indices: 110401--110445 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
110391 GTAAGGTAAT
*
110401 TTTTTAACTTTATTTT-TACA
1 TTTTTAAATTTATTTTAT-CA
110421 TTTTTAAATTTATTTTATCA
1 TTTTTAAATTTATTTTATCA
110441 TTTTT
1 TTTTT
110446 TTATTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTAAATTTATTTTATCA
Found at i:112059 original size:21 final size:21
Alignment explanation
Indices: 112035--112093 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
112025 GTCACCCTAA
112035 ACTGTCAT-TTCAGCACCGTGG
1 ACTGTCATGTT-AGCACCGTGG
*
112056 ACTGTCATGTTAGCATCGTGG
1 ACTGTCATGTTAGCACCGTGG
* *
112077 ATTGCCATGTTAGCACC
1 ACTGTCATGTTAGCACC
112094 TTAAACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (21 bp):
ACTGTCATGTTAGCACCGTGG
Found at i:115777 original size:40 final size:38
Alignment explanation
Indices: 115727--115805 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 38
115717 CTCCGATTAT
*
115727 TTTTCTGCGACAACACAAGTATTTTATTAATTGTACAATGA
1 TTTTCTGCGACAACAC-A--ATTTTATCAATTGTACAATGA
*
115768 TTTT-TGCGACGACACAATTTTATCAATTGTACAATGA
1 TTTTCTGCGACAACACAATTTTATCAATTGTACAATGA
115805 T
1 T
115806 ACCATTATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
37 21 0.58
39 1 0.03
40 10 0.28
41 4 0.11
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (38 bp):
TTTTCTGCGACAACACAATTTTATCAATTGTACAATGA
Found at i:119247 original size:597 final size:597
Alignment explanation
Indices: 118114--119314 Score: 2359
Period size: 597 Copynumber: 2.0 Consensus size: 597
118104 TAAAAATTAC
* *
118114 TATAATTTAAAAGAACATTTTCAATCTAGATAATTCATATTGAATTTGAAATATATACGTTAAAA
1 TATAATTTAAAAGAACATTTTCAATCTAGACAATTCATATTGAATTTGAAATATATACGCTAAAA
118179 TTAGGTTATTTTCATCATTGATTACTCTTTTTTTATTAAGCTATAGTGATTACAAAGTAATATTT
66 TTAGGTTATTTTCATCATTGATTACTCTTTTTTTATTAAGCTATAGTGATTACAAAGTAATATTT
118244 GTTTTAAATACTCTCAATCATTTGATAATGAGCGTTCAATCACCCATGTTGCAGCCACTAGTACT
131 GTTTTAAATACTCTCAATCATTTGATAATGAGCGTTCAATCACCCATGTTGCAGCCACTAGTACT
118309 CGAACTAGAGACTTATAAGAATAACTACCATTCATTTGACCACTAAGGTAATTTGATTTGTATCC
196 CGAACTAGAGACTTATAAGAATAACTACCATTCATTTGACCACTAAGGTAATTTGATTTGTATCC
118374 ATCATAATGACTTACATTGATACATTTGCTTGTTCGTTTATATATTTTCATTTTACTTTATGATG
261 ATCATAATGACTTACATTGATACATTTGCTTGTTCGTTTATATATTTTCATTTTACTTTATGATG
*
118439 TTTGATAATAATTTTAGATCTAGACAATATTTGGAATCAACTTAAATTAAACACCTAAATAGGAG
326 TTTGATAATAATATTAGATCTAGACAATATTTGGAATCAACTTAAATTAAACACCTAAATAGGAG
118504 GCTTTTTTTTTGCACTACTTTCCCCAATCCAAAACAGTTAAATTCCAAATTTTAATTAAAAATAT
391 GCTTTTTTTTTGCACTACTTTCCCCAATCCAAAACAGTTAAATTCCAAATTTTAATTAAAAATAT
118569 CGAACTATTTCAATAAAAAAAAAACTGCATTTTCAAGACTAGTGTCTTGTGTCATGAGTCATGCA
456 CGAACTATTTCAATAAAAAAAAAACTGCATTTTCAAGACTAGTGTCTTGTGTCATGAGTCATGCA
118634 CAATAACACGCATCAATATGTATATGATCCTCTAAGAAGTTCTTTGTAGCATATTAGGTTTAACT
521 CAATAACACGCATCAATATGTATATGATCCTCTAAGAAGTTCTTTGTAGCATATTAGGTTTAACT
118699 AGACATATATAA
586 AGACATATATAA
118711 TATAATTTAAAAGAACATTTTCAATCTAGACAATTCATATTGAATTTGAAATATATACGCTAAAA
1 TATAATTTAAAAGAACATTTTCAATCTAGACAATTCATATTGAATTTGAAATATATACGCTAAAA
118776 TTAGGTTATTTTCATCATTGATTACTCTTTTTTTATTAAGCTATAGTGATTACAAAGTAATATTT
66 TTAGGTTATTTTCATCATTGATTACTCTTTTTTTATTAAGCTATAGTGATTACAAAGTAATATTT
118841 GTTTTAAATACTCTCAATCATTTGATAATGAGCGTTCAATCACCCATGTTGCAGCCACTAGTACT
131 GTTTTAAATACTCTCAATCATTTGATAATGAGCGTTCAATCACCCATGTTGCAGCCACTAGTACT
118906 CGAACTAGAGACTTATAAGAATAACTACCATTCATTTGACCACTAAGGTAATTTGATTTGTATCC
196 CGAACTAGAGACTTATAAGAATAACTACCATTCATTTGACCACTAAGGTAATTTGATTTGTATCC
118971 ATCATAATGACTTACATTGATACATTTGCTTGTTCGTTTATATATTTTCATTTTACTTTATGATG
261 ATCATAATGACTTACATTGATACATTTGCTTGTTCGTTTATATATTTTCATTTTACTTTATGATG
119036 TTTGATAATAATATTAGATCTAGACAATATTTGGAATCAACTTAAATTAAACACCTAAATAGGAG
326 TTTGATAATAATATTAGATCTAGACAATATTTGGAATCAACTTAAATTAAACACCTAAATAGGAG
119101 GCTTTTTTTTTTGCACTACTTTCCCCAATCCAAAACAGTTAAATTCCAAATTTTAATTAAAAATA
391 GC-TTTTTTTTTGCACTACTTTCCCCAATCCAAAACAGTTAAATTCCAAATTTTAATTAAAAATA
119166 TCGAACTATTTCAAT-AAAAAAAAACTGCATTTTCAAGACTAGTGTCTTGTGTCATGAGTCATGC
455 TCGAACTATTTCAATAAAAAAAAAACTGCATTTTCAAGACTAGTGTCTTGTGTCATGAGTCATGC
119230 ACAATAACACGCATCAATATGTATATGATCCTCTAAGAAGTTCTTTGTAGCATATTAGGTTTAAC
520 ACAATAACACGCATCAATATGTATATGATCCTCTAAGAAGTTCTTTGTAGCATATTAGGTTTAAC
119295 TAGACATATATAA
585 TAGACATATATAA
119308 TATAATT
1 TATAATT
119315 AATTCAGTTT
Statistics
Matches: 600, Mismatches: 3, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
597 523 0.87
598 77 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (597 bp):
TATAATTTAAAAGAACATTTTCAATCTAGACAATTCATATTGAATTTGAAATATATACGCTAAAA
TTAGGTTATTTTCATCATTGATTACTCTTTTTTTATTAAGCTATAGTGATTACAAAGTAATATTT
GTTTTAAATACTCTCAATCATTTGATAATGAGCGTTCAATCACCCATGTTGCAGCCACTAGTACT
CGAACTAGAGACTTATAAGAATAACTACCATTCATTTGACCACTAAGGTAATTTGATTTGTATCC
ATCATAATGACTTACATTGATACATTTGCTTGTTCGTTTATATATTTTCATTTTACTTTATGATG
TTTGATAATAATATTAGATCTAGACAATATTTGGAATCAACTTAAATTAAACACCTAAATAGGAG
GCTTTTTTTTTGCACTACTTTCCCCAATCCAAAACAGTTAAATTCCAAATTTTAATTAAAAATAT
CGAACTATTTCAATAAAAAAAAAACTGCATTTTCAAGACTAGTGTCTTGTGTCATGAGTCATGCA
CAATAACACGCATCAATATGTATATGATCCTCTAAGAAGTTCTTTGTAGCATATTAGGTTTAACT
AGACATATATAA
Found at i:119794 original size:22 final size:22
Alignment explanation
Indices: 119759--119806 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
119749 TGAAATTTAG
119759 ATTTTGATTCTAAAAAAATGAA
1 ATTTTGATTCTAAAAAAATGAA
* * *
119781 ATTTTTATTTTAAAAAAATTAA
1 ATTTTGATTCTAAAAAAATGAA
119803 ATTT
1 ATTT
119807 CCTCCCATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTTGATTCTAAAAAAATGAA
Found at i:120727 original size:21 final size:20
Alignment explanation
Indices: 120644--120729 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 20
120634 ATTTTTTTAG
*
120644 ATTTAAAAACTACATTGTCA
1 ATTTAAAAACTACATTATCA
* *
120664 ATTT-AGAAC-AC-TTATGA
1 ATTTAAAAACTACATTATCA
* * *
120681 ATTTAAAAAATTACGATAAGTAA
1 ATTT-AAAAACTAC-ATTA-TCA
120704 ATTTAAAACACTACATTATCA
1 ATTTAAAA-ACTACATTATCA
120725 ATTTA
1 ATTTA
120730 GAAATCCAAT
Statistics
Matches: 49, Mismatches: 10, Indels: 13
0.68 0.14 0.18
Matches are distributed among these distances:
17 8 0.16
18 2 0.04
19 7 0.14
20 6 0.12
21 7 0.14
22 9 0.18
23 10 0.20
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.35
Consensus pattern (20 bp):
ATTTAAAAACTACATTATCA
Found at i:121426 original size:2 final size:2
Alignment explanation
Indices: 121419--121443 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
121409 ATTATCATTC
121419 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
121444 ATAATGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.