Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008155.1 Hibiscus syriacus cultivar Beakdansim tig00110721_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: 962042
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:679726 original size:17 final size:17
Alignment explanation
Indices: 679692--679743 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
679682 GACCGACAAA
* *
679692 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
679709 TTTATTAATTTACCGAG
1 TTTATTAATTTACAGAG
*
679726 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
679741 TTT
1 TTT
679744 CTACTATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:687001 original size:21 final size:21
Alignment explanation
Indices: 686971--687155 Score: 136
Period size: 21 Copynumber: 9.0 Consensus size: 21
686961 GATTTACATA
*
686971 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * *
686992 TTCGTGTTGCGAT-TTAC-A-
1 TTCGCGTTGCGATAGTCCAAG
* *
687010 TTCGCATTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
687031 TTCGCGTTACGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
**
687054 TT--CGTTGCGATAGTTGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
687073 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
687096 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
687115 TTCGCGTTTCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
687138 TT--CGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
687156 AATCGCAACG
Statistics
Matches: 126, Mismatches: 25, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
18 11 0.09
19 27 0.21
20 3 0.02
21 58 0.46
23 27 0.21
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:687153 original size:42 final size:42
Alignment explanation
Indices: 686977--687155 Score: 251
Period size: 42 Copynumber: 4.3 Consensus size: 42
686967 CATATTCGCA
*
686977 TTGCGATAGTCCAAGTTCGTGTTGCGATTTA---C-A-TTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
* *
687014 CATTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAGTTCG
1 --TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
**
687058 TTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
*
687100 TTGCGATAGTCCAAGTTCGCGTTTCGATTTATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
687142 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
687156 AATCGCAACG
Statistics
Matches: 127, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 28 0.22
42 94 0.74
43 1 0.01
44 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAGTTCG
Found at i:687931 original size:21 final size:21
Alignment explanation
Indices: 687907--688065 Score: 198
Period size: 21 Copynumber: 7.6 Consensus size: 21
687897 TTTGGAATAA
*
687907 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* *
687928 ATCGCAATACGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
687948 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
* *
687969 ATCGCAACGCGAGCTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
687990 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
688011 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
688032 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
688053 ATCGCAATGCGAA
1 ATCGCAATGCGAA
688066 TATGTAAATC
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.14
21 102 0.86
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:688004 original size:42 final size:42
Alignment explanation
Indices: 687948--688065 Score: 218
Period size: 42 Copynumber: 2.8 Consensus size: 42
687938 GAATATGTAA
*
687948 ATCGCAATGCGAACTTGGACTATCGCAACGCGAGCTTCGACT
1 ATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACT
687990 ATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACT
*
688032 ATCGCAATGCGAACTTGGACTATCGCAATGCGAA
1 ATCGCAATGCGAACTTGGACTATCGCAACGCGAA
688066 TATGTAAATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (42 bp):
ATCGCAATGCGAACTTGGACTATCGCAACGCGAACTTCGACT
Found at i:688053 original size:63 final size:62
Alignment explanation
Indices: 687907--688084 Score: 241
Period size: 63 Copynumber: 2.9 Consensus size: 62
687897 TTTGGAATAA
* * * *
687907 ATCGCAACGCGAACTTCGACTATCGCAATACGAATATGTAAATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAACGCGAACTTCGACT
* *
687969 ATCGCAACGCGAGCTTCGACTATCGCAATGCGAACT-TGGACTATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACTATCGCAATGCGAA-TATGGA-AATCGCAACGCGAACTTCGACT
* * * *
688032 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGA
1 ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAACGCGA
688085 TAGTCCAAGT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
62 47 0.47
63 54 0.53
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.22
Consensus pattern (62 bp):
ATCGCAACGCGAACTTCGACTATCGCAATGCGAATATGGAAATCGCAACGCGAACTTCGACT
Found at i:688104 original size:21 final size:21
Alignment explanation
Indices: 688074--688230 Score: 185
Period size: 21 Copynumber: 7.5 Consensus size: 21
688064 AATATGTAAA
*
688074 TCGCAATGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
688095 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
688116 TCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
688137 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAGT
* *
688157 ATCGCATTGCGAT-CTACATA-T
1 -TCGCATTGCGATAGTCCA-AGT
688178 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
688199 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
* *
688220 TCACGTTGCGA
1 TCGCATTGCGA
688231 ATCTGGAAAC
Statistics
Matches: 117, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.15
21 99 0.85
22 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:688147 original size:83 final size:83
Alignment explanation
Indices: 688054--688232 Score: 204
Period size: 83 Copynumber: 2.2 Consensus size: 83
688044 ACTTGGACTA
* * * *
688054 TCGCAATGCGAATATGT-A-AATCGCAATGCGATAGTCCA-AGTTCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGAATA-GTCACAATCGCAATGCGAT-CTACATA-TTCGCATTGCGATAGTCCAAGT
*
688116 TCGCGTTGCGATAGTCCAAGT
63 TCGCATTGCGATAGTCCAAGT
* *
688137 TCGCATTGCG-ATAGTCGACTATCGCATTGCGATCTACATATTCGCATTGCGATAGTCCAAGTTC
1 TCGCATTGCGAATAGTC-ACAATCGCAATGCGATCTACATATTCGCATTGCGATAGTCCAAGTTC
*
688201 GCATTGCGATAGTCGAAGT
65 GCATTGCGATAGTCCAAGT
* *
688220 TCACGTTGCGAAT
1 TCGCATTGCGAAT
688233 CTGGAAACTG
Statistics
Matches: 81, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
81 2 0.02
82 3 0.04
83 61 0.75
84 15 0.19
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (83 bp):
TCGCATTGCGAATAGTCACAATCGCAATGCGATCTACATATTCGCATTGCGATAGTCCAAGTTCG
CATTGCGATAGTCCAAGT
Found at i:688822 original size:45 final size:45
Alignment explanation
Indices: 688773--689078 Score: 337
Period size: 45 Copynumber: 6.8 Consensus size: 45
688763 GCTATATCCT
* *
688773 CTTTTCTATTGATAATGTACCCATATGCATTTCAACTATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
* * *
688818 CTTTTCTGTTGATAATGTACCCATATACATTTCAACCATAGTATA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
* * * *
688863 C-TTTCCGTTGATAATGTACCC-TATACATTTCAACTTTAGCATG
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
*** * * * * *
688906 CACATCTGTTGATAATGCACCCATATGTATCTCAATTCTAGCATA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
* * * *
688951 TTTTTCTGTTGATAATGCACCCATATGCATCTCAACTCTAGCATA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
* * * ** *
688996 CTTTTCTGTTGATAATGCACCCATATGCATTTCAAATAGATTATG
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
* *
689041 CTTTTCTGTTGATAATGTACCCATATACATCTCAACTA
1 CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTA
689079 GGGCATCATT
Statistics
Matches: 223, Mismatches: 36, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
43 19 0.09
44 35 0.16
45 169 0.76
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (45 bp):
CTTTTCTGTTGATAATGTACCCATATGCATTTCAACTATAGCATA
Found at i:689103 original size:90 final size:90
Alignment explanation
Indices: 688773--689117 Score: 229
Period size: 90 Copynumber: 3.9 Consensus size: 90
688763 GCTATATCCT
* * * * * * * *** * *
688773 CTTTTCTATTGATAATGTACCCATATGCATTTCAACTATAGTATACTTTTCTGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATACATCTCAACTAGAGCATACATTTCTGCCAACAATGCAC
* *
688838 CCATATACATTTCAACCATAG--TATA
66 CCATATGCATTTCAA--ATAGATTATG
* * * ** * ** *** *
688863 C-TTTCCGTTGATAATGTACCC-TATACATTTCAACTTTAGCATGCACATCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATACATCTCAACTAGAGCATACATTTCTGCCAACAATGCAC
* * *
688926 CCATATGTATCTCAATTCTAGCA-TAT-
66 CCATATGCATTTCAA--ATAG-ATTATG
* ** * *** *
688952 -TTTTCTGTTGATAATGCACCCATATGCATCTCAACTCTAGCATACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATACATCTCAACTAGAGCATACATTTCTGCCAACAATGCAC
689016 CCATATGCATTTCAAATAGATTATG
66 CCATATGCATTTCAAATAGATTATG
* *
689041 CTTTTCTGTTGATAATGTACCCATATACATCTCAACTAGGGCAT-CATTTCATGCCAACAATGCA
1 CTTTTCTGTTGATAATGCACCCATATACATCTCAACTAGAGCATACATTTC-TGCCAACAATGCA
689105 CCCATATGCATTT
65 CCCATATGCATTT
689118 GTATTTTCAT
Statistics
Matches: 209, Mismatches: 38, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
87 1 0.00
88 55 0.26
89 41 0.20
90 112 0.54
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATACATCTCAACTAGAGCATACATTTCTGCCAACAATGCAC
CCATATGCATTTCAAATAGATTATG
Found at i:689679 original size:95 final size:95
Alignment explanation
Indices: 689555--689736 Score: 251
Period size: 95 Copynumber: 1.9 Consensus size: 95
689545 ACCCTATTAG
* * * *
689555 GGTATCGATACCCCCTTCATGTATTGATACCAAAATTA-ACTTCAATGTAGCCTGGTATCGATAC
1 GGTACCGATACCCCCTTCAGGTATCGATACCAAAATTATA-TTCAATGTAGACTGGTATCGATAC
689619 CCTCACCATGGTATCGATACCACTATGCTAT
65 CCTCACCATGGTATCGATACCACTATGCTAT
* * **
689650 GGTACCGATACCCCCCTT-AGGTATCGATACCAAAATTATATTCGATTTTTACTGGTATCGATAC
1 GGTACCGATA-CCCCCTTCAGGTATCGATACCAAAATTATATTCAATGTAGACTGGTATCGATAC
*
689714 CCTTACCATGGTATCGATACCAC
65 CCTCACCATGGTATCGATACCAC
689737 ATTACTTGGG
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
95 68 0.89
96 8 0.11
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (95 bp):
GGTACCGATACCCCCTTCAGGTATCGATACCAAAATTATATTCAATGTAGACTGGTATCGATACC
CTCACCATGGTATCGATACCACTATGCTAT
Found at i:690842 original size:23 final size:22
Alignment explanation
Indices: 690816--690879 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 22
690806 CAGCTCATAT
690816 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
* *
690839 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
690862 AATTGCACCGTAGTGCCA
1 AATTGCACC-TAGTGCCA
690880 TATAATAATG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:691168 original size:102 final size:103
Alignment explanation
Indices: 690895--691214 Score: 597
Period size: 103 Copynumber: 3.1 Consensus size: 103
690885 TAATGTCCAT
690895 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
690960 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
690998 AAAGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
691063 GACTTCACACATGTTCCAGAGAATACATATATAT-CCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
691100 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
691165 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
691203 AAGGACCACATA
1 AAGGACCACATA
691215 GACCCTCTAT
Statistics
Matches: 210, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
102 99 0.47
103 111 0.53
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.25
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:691728 original size:18 final size:19
Alignment explanation
Indices: 691691--691727 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
691681 TCTTTTTTTA
*
691691 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
691710 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
691728 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:691779 original size:21 final size:21
Alignment explanation
Indices: 691755--691797 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
691745 TCATATTCGT
* *
691755 TTGAGGGGGAATCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
* *
691776 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
691797 T
1 T
691798 AGCCCAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGAACCGATTCCCC
Found at i:697824 original size:23 final size:22
Alignment explanation
Indices: 697798--697866 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
697788 CACCACAGCT
*
697798 CATATAATTGCACCTAAGTGCCA
1 CATAGAATTGCACCT-AGTGCCA
* *
697821 CATAGAATTGCACCGGAGTGCCG
1 CATAGAATTGCACC-TAGTGCCA
*
697844 CGTAGAATTGCACCGTAGTGCCA
1 CATAGAATTGCACC-TAGTGCCA
697867 TATAATAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.22
Consensus pattern (22 bp):
CATAGAATTGCACCTAGTGCCA
Found at i:698004 original size:103 final size:103
Alignment explanation
Indices: 697882--698202 Score: 579
Period size: 103 Copynumber: 3.1 Consensus size: 103
697872 TAATGTCCAT
*
697882 AAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
697947 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCTG
*
697985 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTATCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
698050 GACTTCACACATGTTCCAGAGAATACATATATATCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCTG
*
698088 AAGGACCACATATCATTCCTTAAGAATCATCTACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
698153 GACTTCACACATGTTCCAAAGAATACATATATGTCCTG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCTG
698191 AAGGACCACATA
1 AAGGACCACATA
698203 GACCCTCTAC
Statistics
Matches: 209, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 209 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCTG
Found at i:698717 original size:18 final size:19
Alignment explanation
Indices: 698680--698716 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
698670 TCTTTTTTTA
*
698680 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
698699 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
698717 TCTAGCGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.30, G:0.35, T:0.24
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:698768 original size:21 final size:21
Alignment explanation
Indices: 698744--698786 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
698734 TCATATTCGT
* *
698744 TTGAGGGGGAATCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
* *
698765 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGAACCGATTCCCC
698786 T
1 T
698787 AGCCAGAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.28
Consensus pattern (21 bp):
TTGAAGGGGAACCGATTCCCC
Found at i:702524 original size:20 final size:20
Alignment explanation
Indices: 702499--702547 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
702489 GAAAGTCGAA
702499 ATTCGCAAAGCGATTTTAAG
1 ATTCGCAAAGCGATTTTAAG
702519 ATTCGCAAAGCGATTTTAAG
1 ATTCGCAAAGCGATTTTAAG
702539 ATTCGCAAA
1 ATTCGCAAA
702548 ATCGCAACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (20 bp):
ATTCGCAAAGCGATTTTAAG
Found at i:702614 original size:69 final size:69
Alignment explanation
Indices: 702475--702615 Score: 162
Period size: 69 Copynumber: 2.0 Consensus size: 69
702465 ACCCAGGTTC
* * **
702475 CAAATTCGCAACGCGAAAGTCGAAATTCGCAAAGCGATTTTAAGATTCGCAAAGCGATTTTAAGA
1 CAAAATCGCAACGCGAAAGGCGAAATTCGCAAAGCGATTTTAAGATTCGCAAAGCGATTCCAAGA
*
702540 TTCG
66 ATCG
* * *
702544 CAAAATCGCAACGC-AATAGGCGAAATTCGGAACGCGA-TTTAAGATTCGCAACGCGATACTCCA
1 CAAAATCGCAACGCGAA-AGGCGAAATTCGCAAAGCGATTTTAAGATTCGCAAAGCGAT--TCCA
702607 A-AATCG
63 AGAATCG
702613 CAA
1 CAA
702616 TGCATTTGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
68 21 0.34
69 37 0.61
70 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.21
Consensus pattern (69 bp):
CAAAATCGCAACGCGAAAGGCGAAATTCGCAAAGCGATTTTAAGATTCGCAAAGCGATTCCAAGA
ATCG
Found at i:703605 original size:20 final size:20
Alignment explanation
Indices: 703542--703609 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
703532 AACAAATGCA
*
703542 TTGCGAATTT-AAAATCGCG
1 TTGCGAATTTGATAATCGCG
* *
703561 TTGCGATTTTCGACT-ATCGCA
1 TTGCGAATTT-GA-TAATCGCG
*
703582 TTGCGAATTTGATAATCGTG
1 TTGCGAATTTGATAATCGCG
703602 TTGCGAAT
1 TTGCGAAT
703610 CTGGAAACTG
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
19 10 0.26
20 14 0.36
21 15 0.38
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGAATTTGATAATCGCG
Found at i:712335 original size:12 final size:12
Alignment explanation
Indices: 712318--712353 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
712308 GAGAGGCAAA
712318 GGTATCACCTTT
1 GGTATCACCTTT
712330 GGTATCACCTTT
1 GGTATCACCTTT
* *
712342 AGAATCACCTTT
1 GGTATCACCTTT
712354 TCCTCTACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (12 bp):
GGTATCACCTTT
Found at i:712351 original size:132 final size:132
Alignment explanation
Indices: 712114--712365 Score: 398
Period size: 132 Copynumber: 1.9 Consensus size: 132
712104 CAACACATGG
* * * *
712114 AAGACTACCAATGTGGACTTCAAAATAAATTGAATGTAGTTTGGTAATGGAGTCTATAAAAGGAG
1 AAGACTACCAATGTGAACTTCAAAATAAATTGAAAGTAGCTTGCTAATGGAGTCTATAAAAGGAG
*
712179 AGGCAAGGGGATCACCTTTGGTATCACATTTAAGATCACCTTTTCCACTACCACTCTCCAAACGT
66 AGGCAAAGGGATCACCTTTGGTATCACATTTAAGATCACCTTTTCCACTACCACTCTCCAAACGT
712244 GA
131 GA
* *
712246 AAGACTACTAATGTGAACTTCAAAATAAATTGAAAGTAGCTTGCTAATGGGGTCTATAAAAGGAG
1 AAGACTACCAATGTGAACTTCAAAATAAATTGAAAGTAGCTTGCTAATGGAGTCTATAAAAGGAG
* * *
712311 AGGCAAAGGTATCACCTTTGGTATCACCTTT-AGAATCACCTTTTCCTCTACCACT
66 AGGCAAAGGGATCACCTTTGGTATCACATTTAAG-ATCACCTTTTCCACTACCACT
712366 TTTCTCTCCA
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 2 0.02
132 107 0.98
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
AAGACTACCAATGTGAACTTCAAAATAAATTGAAAGTAGCTTGCTAATGGAGTCTATAAAAGGAG
AGGCAAAGGGATCACCTTTGGTATCACATTTAAGATCACCTTTTCCACTACCACTCTCCAAACGT
GA
Found at i:727498 original size:24 final size:24
Alignment explanation
Indices: 727471--727534 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
727461 GTTCGTGAAC
* *
727471 GTTCGGTTATGTTTATACGGTTAT
1 GTTCGTTTATGTTCATACGGTTAT
* *
727495 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATACGGTTAT
727519 GTTCGTTTATGTTCAT
1 GTTCGTTTATGTTCAT
727535 TCATTTATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.12, C:0.11, G:0.23, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCATACGGTTAT
Found at i:727512 original size:14 final size:14
Alignment explanation
Indices: 727470--727525 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
727460 CGTTCGTGAA
727470 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
** *
727484 TATACGGTTATGTT
1 CGTTCGGTTATGTT
727498 CG-T---TTATGTT
1 CGTTCGGTTATGTT
727508 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
727522 CGTT
1 CGTT
727526 TATGTTCATT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
10 9 0.28
11 1 0.03
14 22 0.69
ACGTcount: A:0.11, C:0.12, G:0.25, T:0.52
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:727542 original size:24 final size:24
Alignment explanation
Indices: 727471--727545 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
727461 GTTCGTGAAC
* * * *
727471 GTTCGGTTATGTTTATACGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
* *
727495 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
*
727519 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCATTCAGTTAT
727543 GTT
1 GTT
727546 TAACCCAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.13, C:0.11, G:0.21, T:0.55
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCAGTTAT
Found at i:728635 original size:10 final size:10
Alignment explanation
Indices: 728620--728694 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
728610 GGGTCTCCAA
728620 CGTTTATGTT
1 CGTTTATGTT
728630 CGTTTATGTT
1 CGTTTATGTT
728640 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
728651 ATGTTCGTGTT
1 -CGTTTATGTT
728662 CGTTTATGTT
1 CGTTTATGTT
728672 CG----TGTT
1 CGTTTATGTT
728678 CGTTTATGTT
1 CGTTTATGTT
728688 CGTTTAT
1 CGTTTAT
728695 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:728651 original size:16 final size:16
Alignment explanation
Indices: 728626--728690 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
728616 CCAACGTTTA
728626 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
728642 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
728658 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
728674 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
728690 T
1 T
728691 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:742761 original size:27 final size:27
Alignment explanation
Indices: 742738--742790 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
742728 CATTAAATGT
742738 TAAACT-TTTTTAATAAA-AAATAAAA
1 TAAACTATTTTTAATAAATAAATAAAA
742763 TAAACTACTTTTTAATAAATAAATAAAA
1 TAAACTA-TTTTTAATAAATAAATAAAA
742791 AATCATCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (27 bp):
TAAACTATTTTTAATAAATAAATAAAA
Found at i:744920 original size:21 final size:21
Alignment explanation
Indices: 744876--744920 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
744866 GATTTCTGGG
* * *
744876 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCACT
*
744897 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
744918 CAA
1 CAA
744921 ACGAACATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.24, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:746039 original size:31 final size:30
Alignment explanation
Indices: 746000--746065 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
745990 AGTCGAGGTT
**
746000 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTAACGA-ACATATGGACAG
*
746030 TATACCTATGTTCTAAGGAACATATGGACAG
1 T-TACCTATGTTCTAACGAACATATGGACAG
746061 TTACC
1 TTACC
746066 GAGGATCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
30 5 0.16
31 21 0.68
32 5 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (30 bp):
TTACCTATGTTCTAACGAACATATGGACAG
Found at i:746095 original size:30 final size:30
Alignment explanation
Indices: 746054--746176 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
746044 AAGGAACATA
746054 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
746084 TGGACAATTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
746114 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
746144 TAGATAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
746173 TGGA
1 TGGA
746177 TAGGTCCTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
29 17 0.20
30 69 0.80
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:756722 original size:19 final size:19
Alignment explanation
Indices: 756682--756723 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
756672 TATTGATTGA
*
756682 AGTAGTATCGATACTAATG
1 AGTAGTATCGATACCAATG
756701 AGTAGGTATCGATACCAA-G
1 AGTA-GTATCGATACCAATG
756720 AGTA
1 AGTA
756724 ATATATCGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (19 bp):
AGTAGTATCGATACCAATG
Found at i:757420 original size:25 final size:24
Alignment explanation
Indices: 757384--757494 Score: 86
Period size: 24 Copynumber: 4.6 Consensus size: 24
757374 GAATCGAGAG
757384 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* *
757408 TTTCTACGTGGTCCTTCTGGACAAA
1 -TTCTACGCGGTCCTTCGGGACAAA
* * *
757433 TTCTACTCGG-CCATTCGAGATAAA
1 TTCTACGCGGTCC-TTCGGGACAAA
* * *
757457 -TCTATGTGG-CACTTCGGTG-CATA
1 TTCTACGCGGTC-CTTCGG-GACAAA
757480 TTCTACGCGGTCCTT
1 TTCTACGCGGTCCTT
757495 GAGTTCTAAG
Statistics
Matches: 66, Mismatches: 15, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
23 15 0.23
24 28 0.42
25 23 0.35
ACGTcount: A:0.20, C:0.26, G:0.22, T:0.32
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:774503 original size:22 final size:21
Alignment explanation
Indices: 774478--774518 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
774468 TAAATTAGGG
*
774478 TAGAAATTAATTATATTTATTT
1 TAGAAAAT-ATTATATTTATTT
*
774500 TAGAAAATATTTTATTTAT
1 TAGAAAATATTATATTTAT
774519 AAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (21 bp):
TAGAAAATATTATATTTATTT
Found at i:774631 original size:14 final size:13
Alignment explanation
Indices: 774602--774635 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
774592 TATAAGAATG
774602 TTTATAAAAAATA
1 TTTATAAAAAATA
*
774615 TTTATAAGAATATA
1 TTTATAA-AAAATA
774629 TTTATAA
1 TTTATAA
774636 CATCATTAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
TTTATAAAAAATA
Found at i:776102 original size:44 final size:44
Alignment explanation
Indices: 776039--776125 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
776029 GTTATGTTGA
* * *
776039 TGTATCATTTTGGGTTGTTGC-TCTTGACCGAAGTGTTTAAATAT
1 TGTATCATGTTCGGCTGTTGCTTC-TGACCGAAGTGTTTAAATAT
*
776083 TGTATCATGTTCGGCTGTTGCTTCTGACTGAAGTGTTTAAATA
1 TGTATCATGTTCGGCTGTTGCTTCTGACCGAAGTGTTTAAATA
776126 CACAGAATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 36 0.95
45 2 0.05
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.44
Consensus pattern (44 bp):
TGTATCATGTTCGGCTGTTGCTTCTGACCGAAGTGTTTAAATAT
Found at i:781679 original size:31 final size:31
Alignment explanation
Indices: 781644--781711 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
781634 TTTCAAAAGG
781644 AATAAACCGGTCACCAA-AGTTATCAATTTAT
1 AATAAACCGGTCACCAATA-TTATCAATTTAT
* * ** *
781675 AATAAATCGGTTATTAATATTATCGATTTAT
1 AATAAACCGGTCACCAATATTATCAATTTAT
781706 AATAAA
1 AATAAA
781712 ATGACCATTC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (31 bp):
AATAAACCGGTCACCAATATTATCAATTTAT
Found at i:783261 original size:31 final size:31
Alignment explanation
Indices: 783205--783280 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
783195 AGAAAAACTC
* * *
783205 CACAAAATTGCGACAGAACATGTGGACATGT
1 CACAAATTTGTGACAGAACAGGTGGACATGT
* *
783236 CACAAATTTGTGACAGAATAGGTGGATATGT
1 CACAAATTTGTGACAGAACAGGTGGACATGT
* *
783267 TAGAAATTTGTGAC
1 CACAAATTTGTGAC
783281 GGGTCCACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (31 bp):
CACAAATTTGTGACAGAACAGGTGGACATGT
Found at i:783400 original size:31 final size:31
Alignment explanation
Indices: 783365--783435 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
783355 GATTCATCAC
783365 AAATTTGTGACAGAATAAGTGAACATGTCAG
1 AAATTTGTGACAGAATAAGTGAACATGTCAG
* *
783396 AAATTTGTGACAGAATAGGTGAATATGTCAG
1 AAATTTGTGACAGAATAAGTGAACATGTCAG
783427 AAATTTGTG
1 AAATTTGTG
783436 GCAAGTCCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (31 bp):
AAATTTGTGACAGAATAAGTGAACATGTCAG
Found at i:783674 original size:27 final size:30
Alignment explanation
Indices: 783608--783666 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 30
783598 AATGAAATAT
* *
783608 CTAAACTAGATTGGAGATATGGAGTTGGCGAG
1 CTAAACTAGATTGGAGAGATGAAGTT-G-GAG
783640 CTAAACTAGATTGGAGAGATGAAGTTG
1 CTAAACTAGATTGGAGAGATGAAGTTG
783667 ACAAACTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.25
Consensus pattern (30 bp):
CTAAACTAGATTGGAGAGATGAAGTTGGAG
Found at i:789919 original size:20 final size:22
Alignment explanation
Indices: 789874--789931 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
789864 TGCATGGTAG
789874 TGCATCGATGCACCTGTTAAAGAA
1 TGCATCGATGCA-CTGTT-AAGAA
789898 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
789918 TGCACCGATGCACT
1 TGCATCGATGCACT
789932 TCAATGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 3 0.09
24 12 0.36
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:797964 original size:24 final size:21
Alignment explanation
Indices: 797930--797986 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 21
797920 TGCATGGTAG
*
797930 TGCATCAATGCACCTGTTAAAGAA
1 TGCATCGATGCACCTG-T--AGAA
797954 TGCATCGATGCA-CTGTAGAA
1 TGCATCGATGCACCTGTAGAA
797974 TGCATCGATGCAC
1 TGCATCGATGCAC
797987 TTCAATGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 3 0.10
24 11 0.35
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (21 bp):
TGCATCGATGCACCTGTAGAA
Found at i:797975 original size:20 final size:20
Alignment explanation
Indices: 797950--797987 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
797940 CACCTGTTAA
797950 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
797970 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
797988 TCAATGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:802011 original size:20 final size:22
Alignment explanation
Indices: 801965--802023 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 22
801955 TAGTGCAACC
801965 ATGCATCGATGCACCTGTTAAAGA
1 ATGCATCGATGCA-CTGTT-AAGA
801989 ATGCATCGATGCACTG-T-AGA
1 ATGCATCGATGCACTGTTAAGA
*
802009 ATGCACCGATGCACT
1 ATGCATCGATGCACT
802024 TCAATGGGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
20 17 0.50
22 1 0.03
23 3 0.09
24 13 0.38
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (22 bp):
ATGCATCGATGCACTGTTAAGA
Found at i:808515 original size:26 final size:26
Alignment explanation
Indices: 808486--808542 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
808476 TAAAATTACA
808486 ATAAAAAATA-AAAAAGATAAATGCAT
1 ATAAAAAA-AGAAAAAGATAAATGCAT
* *
808512 ATAAAAAAAGTAAAGGATAAATGCAT
1 ATAAAAAAAGAAAAAGATAAATGCAT
808538 ATAAA
1 ATAAA
808543 TTAGTATATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 1 0.04
26 27 0.96
ACGTcount: A:0.67, C:0.04, G:0.11, T:0.19
Consensus pattern (26 bp):
ATAAAAAAAGAAAAAGATAAATGCAT
Found at i:811396 original size:14 final size:15
Alignment explanation
Indices: 811377--811410 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
811367 ACGGGGGTAA
811377 GACGCATCCCC-GGG
1 GACGCATCCCCGGGG
811391 GACGCATCCCCGGGG
1 GACGCATCCCCGGGG
811406 GACGC
1 GACGC
811411 CTTCCAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.15, C:0.41, G:0.38, T:0.06
Consensus pattern (15 bp):
GACGCATCCCCGGGG
Found at i:811665 original size:23 final size:25
Alignment explanation
Indices: 811629--811719 Score: 73
Period size: 23 Copynumber: 3.6 Consensus size: 25
811619 TGTTATATTT
811629 TTTATTATTA-TATTTATATAAATA
1 TTTATTATTATTATTTATATAAATA
* *
811653 -TTATT-TTATTATTAAAAT-AATA
1 TTTATTATTATTATTTATATAAATA
*
811675 TTTATATAATTATTATTTATTTAAATTAA
1 TTTAT-T-ATTATTATTTATATAAA-T-A
*
811704 TTAATTAATTATTATT
1 TTTATT-ATTATTATT
811720 GGTGCTAATT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
22 7 0.13
23 16 0.30
24 1 0.02
26 10 0.19
27 2 0.04
28 12 0.23
29 5 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTATTATTATTATTTATATAAATA
Found at i:811675 original size:28 final size:27
Alignment explanation
Indices: 811623--811675 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
811613 AATAGTTGTT
* * *
811623 ATATTTTTTATTATTATATTTATATAA
1 ATATTTTTTATTATTAAAATAATATAA
811650 ATATTATTTTATTATTAAAATAATAT
1 ATATT-TTTTATTATTAAAATAATAT
811676 TTATATAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATATTTTTTATTATTAAAATAATATAA
Found at i:813474 original size:42 final size:41
Alignment explanation
Indices: 813428--813519 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
813418 GATGCCACAG
*
813428 GGGTACATGCCCAGCCCT-CCAGTTCAGATGAC-ATCTCTGCAA
1 GGGTACATGCCAAG-CCTACCAGTTCAGATG-CTATCTCTGC-A
* *
813470 GGGTATATGCCAAGCCTACCAGTTCATATGCTATCTCTGCA
1 GGGTACATGCCAAGCCTACCAGTTCAGATGCTATCTCTGCA
813511 GGGTTACAT
1 GGG-TACAT
813520 TCCTAGCCGG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
41 8 0.19
42 35 0.81
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (41 bp):
GGGTACATGCCAAGCCTACCAGTTCAGATGCTATCTCTGCA
Found at i:813557 original size:21 final size:21
Alignment explanation
Indices: 813506--813557 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
813496 TATGCTATCT
* *
813506 CTGCAGGGTTACATTCCTAGC
1 CTGCAGGGTTAAATGCCTAGC
*
813527 CGGCCA-GGTTAAATGCCTAGC
1 CTG-CAGGGTTAAATGCCTAGC
813548 CTGCAGGGTT
1 CTGCAGGGTT
813558 TTATGACACC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 2 0.08
21 21 0.84
22 2 0.08
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (21 bp):
CTGCAGGGTTAAATGCCTAGC
Found at i:814093 original size:12 final size:12
Alignment explanation
Indices: 814076--814119 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
814066 TTAAATGTTT
*
814076 TTAAAATACAAA
1 TTAAAATTCAAA
*
814088 TTAAAATTCAAC
1 TTAAAATTCAAA
* *
814100 TTAATATTCGAA
1 TTAAAATTCAAA
814112 TTAAAATT
1 TTAAAATT
814120 TAAAATTGTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.36
Consensus pattern (12 bp):
TTAAAATTCAAA
Found at i:814150 original size:19 final size:19
Alignment explanation
Indices: 814114--814150 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
814104 TATTCGAATT
*
814114 AAAATTTAAAATTGTATTC
1 AAAATTTAAAATTATATTC
*
814133 AAAATTTAAAGTTATATT
1 AAAATTTAAAATTATATT
814151 ACAATTATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (19 bp):
AAAATTTAAAATTATATTC
Found at i:814829 original size:138 final size:139
Alignment explanation
Indices: 814572--815344 Score: 1174
Period size: 138 Copynumber: 5.6 Consensus size: 139
814562 ATCTTCGAGA
* *
814572 ACATTAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
* * *
814637 GAAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATGATAGGTACTGACATGAATAGTTC
66 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
814702 CCCCG-GGG
131 CCCCGAGGG
* * * * * *
814710 ACATGACTCACATAATAGGGCAATTATAACATATTCTCTGACAAAATAATAAAAGACACGCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
*
814775 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATAAATAGTGC
66 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
*
814840 CCCTGAGGG
131 CCCCGAGGG
* *
814849 ACATGAGTGACATAATAGGGCAATGATAACAAATTCTCTGACAAAATAATGGAAGGCGC-CCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
*
814913 GGAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
66 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
814978 CCCCGAGGG
131 CCCCGAGGG
* * *
814987 ACATGAGTGACATAATAGGGCAATGATGACATATTCTCTGACAAAATTATAGAATGCGC-CCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
* ** *
815051 GGAAACACGCTTTCACCACTTTTTTAAGTCCCCTCAAATATAATAGGTACTGACATGAATAGTGC
66 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
815116 CCCCGAGGG
131 CCCCGAGGG
* * **
815125 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGACATGCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
* * * * *
815190 GGAAACGCGCCTTCACCAATTTGCTAAATCCCCTCAAACATAATAGGTAATGGCATGAATAGTGC
66 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
*
815255 CCTCGAGGG
131 CCCCGAGGG
* * * * *
815264 ACACGAGTGACATAATAGGGCAATGATAACATGTTCTCTGATAAAATAATAGAAGGTGCGTCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
*
815329 GGAAACGCGCCTTCAC
66 GGAAACGCGCTTTCAC
815345 ATGAATAGTA
Statistics
Matches: 573, Mismatches: 60, Indels: 3
0.90 0.09 0.00
Matches are distributed among these distances:
138 378 0.66
139 195 0.34
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (139 bp):
ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCGCCCCC
GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
CCCCGAGGG
Found at i:815249 original size:277 final size:275
Alignment explanation
Indices: 814572--815344 Score: 1156
Period size: 277 Copynumber: 2.8 Consensus size: 275
814562 ATCTTCGAGA
* *
814572 ACATTAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAAGGCGCACCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCG--CCCCC
* * *
814637 GAAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATGATAGGTACTGACATGAATAGTTC
64 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
* * * *
814702 CCCCG-GGGACATGACTCACATAATAGGGCAATTATAACATATTCTCTGACAAAATAATA-AAAG
129 CCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAATG
*
814765 ACACGCCCCCGGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACA
194 -CGC-CCCCCGGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACA
*
814830 TAAATAGTGCCCCTGAGGG
257 TAAATAGTGCCCCCGAGGG
*
814849 ACATGAGTGACATAATAGGGCAATGATAACAAATTCTCTGACAAAATAATGGAAGGCGCCCCCCG
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCG-CCCCCG
*
814914 GAAACGCGCTTTCACCACTTTGCCAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCC
65 GAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCC
* *
814979 CCCGAGGGACATGAGTGACATAATAGGGCAATGATGACATATTCTCTGACAAAATTATAGAATGC
130 CCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAATGC
* ** * *
815044 GCCCCCCGGAAACACGCTTTCACCACTTTTTTAAGTCCCCTCAAATATAATAGGTACTGACATGA
195 GCCCCCCGGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATAA
815109 ATAGTGCCCCCGAGGG
260 ATAGTGCCCCCGAGGG
*
815125 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGACATGCCCCC
1 ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGC--GCCCCC
* * * * *
815190 GGAAACGCGCCTTCACCAATTTGCTAAATCCCCTCAAACATAATAGGTAATGGCATGAATAGTGC
64 GGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGC
* * * *
815255 CCTCGAGGGACACGAGTGACATAATAGGGCAATGATAACATGTTCTCTGATAAAATAATAGAAGG
129 CCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAA--
* *
815320 TGCG-TCCCCGGAAACGCGCCTTCAC
192 TGCGCCCCCCGGAAACGCGCTTTCAC
815345 ATGAATAGTA
Statistics
Matches: 452, Mismatches: 38, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
276 199 0.44
277 227 0.50
278 22 0.05
279 4 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (275 bp):
ACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCGG
AAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATGAATAGTGCCC
CCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACAAAATAATAGAATGCG
CCCCCCGGAAACGCGCTTTCACCACTTTGCTAAGTCCCCTCAAACATAATAGGTACTGACATAAA
TAGTGCCCCCGAGGG
Found at i:818587 original size:19 final size:19
Alignment explanation
Indices: 818551--818588 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
818541 TATAATAATT
*
818551 AATATTATTTATTATAAAA
1 AATATTATTAATTATAAAA
*
818570 AATATTATTAATTTTAAAA
1 AATATTATTAATTATAAAA
818589 TATTATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTATTAATTATAAAA
Found at i:821075 original size:14 final size:14
Alignment explanation
Indices: 821056--821095 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
821046 TTAACCTGGA
821056 CTGAGTCAACTCAT
1 CTGAGTCAACTCAT
*
821070 CTGAGTCAACTCGT
1 CTGAGTCAACTCAT
**
821084 CCAAGTCAACTC
1 CTGAGTCAACTC
821096 GTTGACTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.25
Consensus pattern (14 bp):
CTGAGTCAACTCAT
Found at i:828159 original size:25 final size:25
Alignment explanation
Indices: 828125--828174 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
828115 AACTCACCAA
828125 AGATCACTGTAACTTCCCTTGTTTT
1 AGATCACTGTAACTTCCCTTGTTTT
*
828150 AGATCACTGTGACTTCCCTTGTTTT
1 AGATCACTGTAACTTCCCTTGTTTT
828175 TAAAAGAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.14, T:0.44
Consensus pattern (25 bp):
AGATCACTGTAACTTCCCTTGTTTT
Found at i:829729 original size:21 final size:21
Alignment explanation
Indices: 829703--829758 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
829693 GTTGCCATAC
* * *
829703 AATCCACCGCCTTATGACCCT
1 AATCCACCACCATATGAACCT
829724 AATCCACCACCATATGAACCT
1 AATCCACCACCATATGAACCT
* *
829745 ACTCCACCAGCATA
1 AATCCACCACCATA
829759 CGACGAACCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.41, G:0.07, T:0.20
Consensus pattern (21 bp):
AATCCACCACCATATGAACCT
Found at i:832064 original size:60 final size:60
Alignment explanation
Indices: 831972--832124 Score: 283
Period size: 60 Copynumber: 2.6 Consensus size: 60
831962 GTCTGACGGG
*
831972 TCTACACCTCCTTT-AAATGCTTGATTTTGGTGCATTAGTTGAATAAAAAAAGCTTGAAT
1 TCTACACCTCGTTTAAAATGCTTGATTTTGGTGCATTAGTTGAATAAAAAAAGCTTGAAT
832031 TCTACACCTCGTTTAAAATGCTTGATTTTGGTGCATTAGTTGAATAAAAAAAGCTTGAAT
1 TCTACACCTCGTTTAAAATGCTTGATTTTGGTGCATTAGTTGAATAAAAAAAGCTTGAAT
832091 TCTACACCTCGTTTAAAATGC-TGATTTTGGTGCA
1 TCTACACCTCGTTTAAAATGCTTGATTTTGGTGCA
832125 CTACTTAAAA
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
59 26 0.28
60 66 0.72
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (60 bp):
TCTACACCTCGTTTAAAATGCTTGATTTTGGTGCATTAGTTGAATAAAAAAAGCTTGAAT
Found at i:833588 original size:2 final size:2
Alignment explanation
Indices: 833577--833618 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
833567 TAAACCTAAT
*
833577 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
833618 T
1 T
833619 TTACATGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:840376 original size:20 final size:20
Alignment explanation
Indices: 840347--840515 Score: 90
Period size: 20 Copynumber: 7.7 Consensus size: 20
840337 TTCATTTATG
*
840347 GCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* *
840367 GCATCCTTTCATGTATTTCATTTAT
1 GCATCCTTTCATG-----CCTTAAT
*
840392 GGTATCC-TTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
840412 GCATCCTTTCATGCATTTCATTTATAT
1 GCATCCTTTCATGC----C--TTA-AT
840439 -CATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
* **
840458 ACATCCTTTCATGTATTTCATTAT
1 GCATCCTTTCATG-CCTT-A--AT
840482 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
840503 GCAGCCTTTCATG
1 GCATCCTTTCATG
840516 TATTTCATTT
Statistics
Matches: 116, Mismatches: 13, Indels: 40
0.69 0.08 0.24
Matches are distributed among these distances:
19 7 0.06
20 51 0.44
21 4 0.03
22 2 0.02
23 1 0.01
24 5 0.04
25 23 0.20
26 21 0.18
27 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.10, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:840378 original size:46 final size:46
Alignment explanation
Indices: 840335--840664 Score: 459
Period size: 46 Copynumber: 7.2 Consensus size: 46
840325 TTATTCATTA
*
840335 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
* *
840381 ATTTCATTTATGGTATC-CTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
** * * *
840426 ATTTCATTTATATCATCCTTTCATGCCTTAATACATCCTTTCATGT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
* * *
840472 ATTTCA-TTATGGCATCCTTTCATGCCTTAATGCAGCCTTTCATGT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
*** * * *
840517 ATTTCATTTATGGCATCATTTCATTATTTAATACATCATTTTATGC
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
* *
840563 ATTTCATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATGC
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
*
840609 ATTTCATTTATGGCATCA-TTCATGCCTTAATGCATCATTTCATGC
1 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
840654 ATTTCATTTAT
1 ATTTCATTTAT
840665 TAATTTATTT
Statistics
Matches: 249, Mismatches: 33, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
45 118 0.47
46 131 0.53
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (46 bp):
ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGC
Found at i:840463 original size:91 final size:92
Alignment explanation
Indices: 840335--840664 Score: 495
Period size: 91 Copynumber: 3.6 Consensus size: 92
840325 TTATTCATTA
* * *
840335 ATTTCATTTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGTATCC-
1 ATTTCATTTATGGCATCATTTCATGCCTTAATACATCATTTCATGCATTTCATTTATGGTATCCT
840399 TTCATGCCTTAATGCATCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATGC
** * * * *
840426 ATTTCATTTATATCATCCTTTCATGCCTTAATACATCCTTTCATGTATTTCA-TTATGGCATCCT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATACATCATTTCATGCATTTCATTTATGGTATCCT
* *
840490 TTCATGCCTTAATGCAGCCTTTCATGT
66 TTCATGCCTTAATGCATCCTTTCATGC
*** *
840517 ATTTCATTTATGGCATCATTTCATTATTTAATACATCATTTTATGCATTTCATTTATGGTATCCT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATACATCATTTCATGCATTTCATTTATGGTATCCT
840582 TTCATGCCTTAATGCATCCTTTCATGC
66 TTCATGCCTTAATGCATCCTTTCATGC
*
840609 ATTTCATTTATGGCATCA-TTCATGCCTTAATGCATCATTTCATGCATTTCATTTAT
1 ATTTCATTTATGGCATCATTTCATGCCTTAATACATCATTTCATGCATTTCATTTAT
840665 TAATTTATTT
Statistics
Matches: 213, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
90 10 0.05
91 149 0.70
92 54 0.25
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (92 bp):
ATTTCATTTATGGCATCATTTCATGCCTTAATACATCATTTCATGCATTTCATTTATGGTATCCT
TTCATGCCTTAATGCATCCTTTCATGC
Found at i:840468 original size:37 final size:37
Alignment explanation
Indices: 840427--840523 Score: 86
Period size: 45 Copynumber: 2.4 Consensus size: 37
840417 CTTTCATGCA
*
840427 TTTCATTTATATCATCCTTTCATGCCTTAATACATCC
1 TTTCATTTATATCATCCTTTCATGCCTTAATACAGCC
*
840464 TTTCATGTATTTCATTATGGCATCCTTTCATGCCTTAATGCAGCC
1 TTTC----ATTT-A-TAT--CATCCTTTCATGCCTTAATACAGCC
* *
840509 TTTCATGTATTTCAT
1 TTTCATTTATATCAT
840524 TTATGGCATC
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
37 7 0.15
39 2 0.04
40 1 0.02
41 7 0.15
42 1 0.02
43 3 0.06
45 27 0.56
ACGTcount: A:0.22, C:0.24, G:0.08, T:0.46
Consensus pattern (37 bp):
TTTCATTTATATCATCCTTTCATGCCTTAATACAGCC
Found at i:840602 original size:20 final size:20
Alignment explanation
Indices: 840577--840653 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
840567 CATTTATGGT
840577 ATCCTTTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
840597 ATCCTTTCATGCATTTCATTTATGGC
1 ATCCTTTCATGC----C-TTAAT-GC
*
840623 AT-CATTCATGCCTTAATGC
1 ATCCTTTCATGCCTTAATGC
*
840642 ATCATTTCATGC
1 ATCCTTTCATGC
840654 ATTTCATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
19 4 0.09
20 23 0.51
21 1 0.02
24 1 0.02
25 12 0.27
26 4 0.09
ACGTcount: A:0.22, C:0.26, G:0.10, T:0.42
Consensus pattern (20 bp):
ATCCTTTCATGCCTTAATGC
Found at i:840703 original size:137 final size:137
Alignment explanation
Indices: 840335--840664 Score: 355
Period size: 137 Copynumber: 2.4 Consensus size: 137
840325 TTATTCATTA
* * * *
840335 ATTTCATTTATGGCAT-CATTTCATGCCTTAATGCATCCTTTCATGTATTTCATTTATGGTATC-
1 ATTTCA-TTATGGCATCCA-TTCATGCCTTAATGCAGCATTTCATGCATTTCATTTATGGAATCA
* * * * ***
840398 CTTCATGC-CTTAATGCATCCTTTCATGCATTTCATTTATATCATCCTTTCATGCCTTAATACAT
64 TTTCA-GCAGTTAATACATCATAAAATGCATTTCATTTATATCATCCTTTCATGCCTTAATACAT
*
840462 CCTTTCATGT
128 CCTTTCATGC
* * * *
840472 ATTTCATTATGGCATCCTTTCATGCCTTAATGCAGCCTTTCATGTATTTCATTTATGGCATCATT
1 ATTTCATTATGGCATCCATTCATGCCTTAATGCAGCATTTCATGCATTTCATTTATGGAATCATT
** * *** * *
840537 TCATTATTTAATACATCATTTTATGCATTTCATTTATGGT-ATCCTTTCATGCCTTAATGCATCC
66 TCAGCAGTTAATACATCATAAAATGCATTTCATTTAT-ATCATCCTTTCATGCCTTAATACATCC
840601 TTTCATGC
130 TTTCATGC
*
840609 ATTTCATTTATGGCAT-CATTCATGCCTTAATGCATCATTTCATGCATTTCATTTAT
1 ATTTCA-TTATGGCATCCATTCATGCCTTAATGCAGCATTTCATGCATTTCATTTAT
840665 TAATTTATTT
Statistics
Matches: 171, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
136 51 0.30
137 110 0.64
138 10 0.06
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (137 bp):
ATTTCATTATGGCATCCATTCATGCCTTAATGCAGCATTTCATGCATTTCATTTATGGAATCATT
TCAGCAGTTAATACATCATAAAATGCATTTCATTTATATCATCCTTTCATGCCTTAATACATCCT
TTCATGC
Found at i:841083 original size:20 final size:20
Alignment explanation
Indices: 841058--841110 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
841048 AGGCTCAATA
*
841058 GTATCGATACCCCTACCATG
1 GTATCGATACCCATACCATG
* *
841078 GTATCGATACTTCTATACTATG
1 GTATCGATAC--CCATACCATG
841100 GTATCGATACC
1 GTATCGATACC
841111 TTCTCTCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 11 0.39
22 17 0.61
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACCCATACCATG
Found at i:846279 original size:179 final size:177
Alignment explanation
Indices: 846065--846396 Score: 521
Period size: 179 Copynumber: 1.9 Consensus size: 177
846055 CATATGGCTC
*
846065 AACCCAAACCATTTAAACTCAATTAATAATTTAAGATCCAATAAC-TTTTAAACCTAAATCAATA
1 AACCCAAACCATTTAAACCCAATTAATAATTTAAGATCCAA-AACTTTTTAAACCTAAATCAATA
*
846129 TT-ATTAATTAAAAAA-TTATATAAAATTTATATTTTATAATTATATATTATTTAAATTAATTGT
65 TTAATTAATTAAAAAATTTATATAAAATTTAT-TTTTA-AATTATATATTATTT-AATTAATTAT
846192 -AAAT-TATTTTTCTGAATTAAAAATATTAAATATATATATATAATGATTTCA
127 AAAATGTATTTTT-T-AATTAAAAATATTAAATATATATATATAATGATTTCA
*
846243 AACCCAAACCATTTAAAACCCAATTAATAATTTAAGATCTAAAACTTTTTAAACCTAAATCAATA
1 AACCCAAACCATTT-AAACCCAATTAATAATTTAAGATCCAAAACTTTTTAAACCTAAATCAATA
*
846308 TTAATTAATTAAAAAATTTATATAAATTTTATTTTTAAATTATATATTATTTAATTAATTATAAA
65 TTAATTAATTAAAAAATTTATATAAAATTTATTTTTAAATTATATATTATTTAATTAATTATAAA
*
846373 ATGTATTTTTTAATTATAAATATT
130 ATGTATTTTTTAATTAAAAATATT
846397 TAATTTTTAA
Statistics
Matches: 143, Mismatches: 5, Indels: 12
0.89 0.03 0.08
Matches are distributed among these distances:
178 38 0.27
179 66 0.46
180 25 0.17
181 14 0.10
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (177 bp):
AACCCAAACCATTTAAACCCAATTAATAATTTAAGATCCAAAACTTTTTAAACCTAAATCAATAT
TAATTAATTAAAAAATTTATATAAAATTTATTTTTAAATTATATATTATTTAATTAATTATAAAA
TGTATTTTTTAATTAAAAATATTAAATATATATATATAATGATTTCA
Found at i:846387 original size:20 final size:21
Alignment explanation
Indices: 846362--846406 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
846352 TATTATTTAA
*
846362 TTAATTATAAA-ATGTATTTT
1 TTAATTATAAATATGTAATTT
*
846382 TTAATTATAAATATTTAATTT
1 TTAATTATAAATATGTAATTT
846403 TTAA
1 TTAA
846407 ATAAATTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTAATTATAAATATGTAATTT
Found at i:846411 original size:39 final size:39
Alignment explanation
Indices: 846328--846401 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
846318 AAAAAATTTA
* * *
846328 TATAAATTTTATTTTTAAATTATATATTATTTAATTAAT
1 TATAAAATGTATTTTTAAATTATATAATATTTAATTAAT
*
846367 TATAAAATGTATTTTTTAATTATA-AATATTTAATT
1 TATAAAATGTATTTTTAAATTATATAATATTTAATT
846402 TTTAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 10 0.32
39 21 0.68
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (39 bp):
TATAAAATGTATTTTTAAATTATATAATATTTAATTAAT
Found at i:847557 original size:2 final size:2
Alignment explanation
Indices: 847550--847577 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
847540 TGAGATACAT
847550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
847578 ATGTTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:849964 original size:56 final size:59
Alignment explanation
Indices: 849898--850022 Score: 150
Period size: 56 Copynumber: 2.1 Consensus size: 59
849888 TCGAGTGACA
* * **
849898 ATTTTGTAACTTTTTATAG-CGATGGACTC-AGTAAGCAACA-CTATAGTCGTGA-GATC
1 ATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCTATAGTCG-GAGGATC
*
849954 ATTTTGTAACTTTTAATAGTTGAGGGACTCAACAAAGCAACATCCTATAGTCGGAGGATC
1 ATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACA-CCTATAGTCGGAGGATC
850014 ATTTATGTA
1 ATTT-TGTA
850023 CTTACCCTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
56 18 0.31
57 8 0.14
58 9 0.16
59 2 0.03
60 17 0.29
61 4 0.07
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (59 bp):
ATTTTGTAACTTTTAATAGTCGAGGGACTCAACAAAGCAACACCTATAGTCGGAGGATC
Found at i:858480 original size:32 final size:32
Alignment explanation
Indices: 858448--858561 Score: 138
Period size: 32 Copynumber: 3.6 Consensus size: 32
858438 TATTGATGTG
* * *
858448 CATTATCTAAATGCAAACATGAATATATTGTG
1 CATTATCTGAATGCAAACATGAACATATTGTA
* * * *
858480 CATTTTTTGAATGCAAACCTGAGCATATTGTA
1 CATTATCTGAATGCAAACATGAACATATTGTA
* *
858512 CATTATCTTAATGCAAACTTGAACATATTGTA
1 CATTATCTGAATGCAAACATGAACATATTGTA
*
858544 TATTATCTGAATGCAAAC
1 CATTATCTGAATGCAAAC
858562 CTGACTAGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 68 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (32 bp):
CATTATCTGAATGCAAACATGAACATATTGTA
Found at i:860145 original size:13 final size:13
Alignment explanation
Indices: 860127--860156 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
860117 GAACCGATCC
860127 GACCCGACCCGTT
1 GACCCGACCCGTT
860140 GACCCGACCCGTT
1 GACCCGACCCGTT
860153 GACC
1 GACC
860157 GTTTGATCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.47, G:0.23, T:0.13
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:869568 original size:13 final size:13
Alignment explanation
Indices: 869550--869574 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
869540 GTGGAAGAAA
869550 AAGAAGATAAAGG
1 AAGAAGATAAAGG
869563 AAGAAGATAAAG
1 AAGAAGATAAAG
869575 AGAAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (13 bp):
AAGAAGATAAAGG
Found at i:873865 original size:16 final size:16
Alignment explanation
Indices: 873826--873889 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
873816 AAAGGTAGTA
873826 ATAATAGTAATAATAAT
1 ATAATAGTAAT-ATAAT
873843 ATGTAATAGTAATAT-AT
1 A--TAATAGTAATATAAT
873860 CATAATGAGT-ATATAAT
1 -ATAAT-AGTAATATAAT
*
873877 ATAATAATAATAT
1 ATAATAGTAATAT
873890 TGTAACACCC
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
15 2 0.05
16 17 0.43
17 8 0.20
18 3 0.08
19 10 0.25
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.38
Consensus pattern (16 bp):
ATAATAGTAATATAAT
Found at i:873883 original size:19 final size:17
Alignment explanation
Indices: 873824--873885 Score: 63
Period size: 19 Copynumber: 3.5 Consensus size: 17
873814 TTAAAGGTAG
873824 TAATAATAGTAATAATAA
1 TAATAATAGTAATAAT-A
*
873842 TATGTAATAGTAAT-ATA
1 TA-ATAATAGTAATAATA
*
873859 TCATAATGAGTATATAATA
1 TAATAAT-AGTA-ATAATA
873878 TAATAATA
1 TAATAATA
873886 ATATTGTAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
16 4 0.11
17 6 0.17
18 7 0.19
19 19 0.53
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (17 bp):
TAATAATAGTAATAATA
Found at i:874548 original size:22 final size:22
Alignment explanation
Indices: 874520--874575 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
874510 TTCAGTATTT
874520 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
874542 GTCCCGAAAGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
874564 GTCCCGAAGGAC
1 GTCCCGAAGGAC
874576 TAATATACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.29, C:0.32, G:0.27, T:0.12
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:875233 original size:64 final size:65
Alignment explanation
Indices: 875125--875287 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 65
875115 CCCTTGACGG
* * ** *
875125 GTGCATTGATGCACTACCCATGCATCGATGCA-TAAATCTTATTCGATGTT-TGTATTCTAAGCA
1 GTGCATCGATGCACT-CCTATGCATCGATGCACTAAATCGCATTCGATGTTATGTATTCTAAACA
875188 A
65 A
* * * *
875189 GTGCATCGATGCACTCCTTATGCATCGATGCACT-AATGGCATTCGATGTTCATTTATTTTAAAT
1 GTGCATCGATGCACTCC-TATGCATCGATGCACTAAATCGCATTCGATGTT-ATGTATTCTAAAC
*
875253 GA
64 AA
* *
875255 GTGCATCGATACACTCCATGTGCATCGATGCAC
1 GTGCATCGATGCACTCC-TATGCATCGATGCAC
875288 CTTCAACAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
63 2 0.02
64 40 0.49
65 1 0.01
66 39 0.48
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (65 bp):
GTGCATCGATGCACTCCTATGCATCGATGCACTAAATCGCATTCGATGTTATGTATTCTAAACAA
Found at i:881265 original size:18 final size:18
Alignment explanation
Indices: 881234--881290 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 18
881224 GTTCAATATT
*
881234 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
*
881252 TGTCCTGAAGGACCACTGGA
1 TGTCCCGAAGGACCACT--A
881272 TACGTCCCGAAGGACCACT
1 T--GTCCCGAAGGACCACT
881291 GGATACGTCC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 15 0.47
20 2 0.06
22 15 0.47
ACGTcount: A:0.26, C:0.32, G:0.23, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:881283 original size:22 final size:22
Alignment explanation
Indices: 881253--881330 Score: 138
Period size: 22 Copynumber: 3.5 Consensus size: 22
881243 TGACCACTAT
*
881253 GTCCTGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
881275 GTCCCGAAGGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
*
881297 GTCCCGAAAGACCACTGGATAC
1 GTCCCGAAGGACCACTGGATAC
881319 GTCCCGAAGGAC
1 GTCCCGAAGGAC
881331 TAATATACCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.28, C:0.31, G:0.27, T:0.14
Consensus pattern (22 bp):
GTCCCGAAGGACCACTGGATAC
Found at i:887142 original size:58 final size:59
Alignment explanation
Indices: 887074--887191 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
887064 CGAAGCACGC
*
887074 AATACTTACCATAT-CCCAAACCCCAAGTTCATTACGTTAACAGAGGACAAACCAGATT
1 AATACTTACCATATCCCCAAACCCCAAGTTCATTACGTTAACAGAAGACAAACCAGATT
* * * *
887132 AATACTTACCATATCCCCTACCCCCAAGTTCATTTCTTTAACAGAAGACAAACCAGATT
1 AATACTTACCATATCCCCAAACCCCAAGTTCATTACGTTAACAGAAGACAAACCAGATT
887191 A
1 A
887192 CACATACAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 14 0.26
59 40 0.74
ACGTcount: A:0.38, C:0.29, G:0.08, T:0.25
Consensus pattern (59 bp):
AATACTTACCATATCCCCAAACCCCAAGTTCATTACGTTAACAGAAGACAAACCAGATT
Found at i:904804 original size:41 final size:41
Alignment explanation
Indices: 904713--904806 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
904703 CACATGGATA
*
904713 TCATCAAAAGCATAATGGGAATTGAGTTATAATCCAATTCC
1 TCATCAAAATCATAATGGGAATTGAGTTATAATCCAATTCC
* *
904754 TCATCAAAATTATAATGGGAATTGAGTTATAATCCAATTCG
1 TCATCAAAATCATAATGGGAATTGAGTTATAATCCAATTCC
904795 TCATCAAAATCA
1 TCATCAAAATCA
904807 ATTCCTCATC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (41 bp):
TCATCAAAATCATAATGGGAATTGAGTTATAATCCAATTCC
Found at i:904810 original size:17 final size:17
Alignment explanation
Indices: 904788--904820 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
904778 AGTTATAATC
*
904788 CAATTCGTCATCAAAAT
1 CAATTCCTCATCAAAAT
904805 CAATTCCTCATCAAAA
1 CAATTCCTCATCAAAA
904821 GTTGTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (17 bp):
CAATTCCTCATCAAAAT
Found at i:905938 original size:2 final size:2
Alignment explanation
Indices: 905933--905970 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
905923 ACCCCTACCA
905933 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
905971 GAGTAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:910389 original size:18 final size:18
Alignment explanation
Indices: 910366--910400 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
910356 TTAGATATAA
*
910366 CAAATATTTATGTATTAT
1 CAAATATTTATATATTAT
910384 CAAATATTTATATATTA
1 CAAATATTTATATATTA
910401 CCAAGGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (18 bp):
CAAATATTTATATATTAT
Found at i:914677 original size:2 final size:2
Alignment explanation
Indices: 914670--914701 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
914660 ATGCTAATTT
914670 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
914702 AACCTAGCTA
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):
TA
Found at i:916346 original size:5 final size:5
Alignment explanation
Indices: 916336--916363 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
916326 TTCCAACATC
916336 CTCCT CTCCT CTCCT CTCCT CTCCT CTC
1 CTCCT CTCCT CTCCT CTCCT CTCCT CTC
916364 TTATACTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CTCCT
Found at i:917000 original size:37 final size:36
Alignment explanation
Indices: 916893--917009 Score: 157
Period size: 35 Copynumber: 3.2 Consensus size: 36
916883 TGACAACCAA
*
916893 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATATTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
916930 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* * *
916965 CTTTGAAAAATAGTTTTTCAAAGTTTGATAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
917002 -GTTGAAAA
1 CTTTGAAAA
917010 TGATAATGGG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 30 0.41
36 16 0.22
37 27 0.37
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:921450 original size:37 final size:36
Alignment explanation
Indices: 921351--921470 Score: 181
Period size: 35 Copynumber: 3.3 Consensus size: 36
921341 TGGCAACCAA
921351 CTTTGAAAAATTGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
921388 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
921423 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
921460 -GTTGAAAAATG
1 CTTTGAAAAATG
921471 ATAATGGGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
35 32 0.41
36 18 0.23
37 28 0.36
ACGTcount: A:0.31, C:0.05, G:0.20, T:0.44
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:927642 original size:14 final size:14
Alignment explanation
Indices: 927623--927654 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
927613 ATATTTTTGA
927623 AATAAAGTTATGAT
1 AATAAAGTTATGAT
*
927637 AATAAATTTATGAT
1 AATAAAGTTATGAT
927651 AATA
1 AATA
927655 TACTATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (14 bp):
AATAAAGTTATGAT
Found at i:928535 original size:17 final size:16
Alignment explanation
Indices: 928513--928544 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
928503 GGTCAACAGT
928513 GGTCAACGCCGGTCAAC
1 GGTCAACG-CGGTCAAC
928530 GGTCAACGCGGTCAA
1 GGTCAACGCGGTCAA
928545 TCGATCAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.25, C:0.31, G:0.31, T:0.12
Consensus pattern (16 bp):
GGTCAACGCGGTCAAC
Found at i:928552 original size:17 final size:17
Alignment explanation
Indices: 928515--928553 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
928505 TCAACAGTGG
*
928515 TCAACGCCGGTCAACGG
1 TCAACGCCGGTCAACGA
928532 TCAACG-CGGTCAATCGA
1 TCAACGCCGGTCAA-CGA
928549 TCAAC
1 TCAAC
928554 AATTTTATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.28, C:0.33, G:0.23, T:0.15
Consensus pattern (17 bp):
TCAACGCCGGTCAACGA
Found at i:930247 original size:80 final size:78
Alignment explanation
Indices: 930112--930285 Score: 303
Period size: 80 Copynumber: 2.2 Consensus size: 78
930102 GGGGCCTATA
930112 GGCCTACCCAAGGATACCCTTAGATCCATAGGTTCCTTAAGCACACAACAAAGGAAACCAACCTA
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGTTCCTTAAGCACACAACAAAGGAAACCAACCTA
930177 AGGATATACCTTG
66 AGGATATACCTTG
* * *
930190 GGCTTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATA-GGTT-CCTTAAGCACACAACAAAGGAAACCAACC
930255 TAAGGATATACCTTG
64 TAAGGATATACCTTG
930270 GGCCTACCCAAGGATA
1 GGCCTACCCAAGGATA
930286 ATATACCTTG
Statistics
Matches: 90, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
78 27 0.30
79 4 0.04
80 59 0.66
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (78 bp):
GGCCTACCCAAGGATACCCTTAGATCCATAGGTTCCTTAAGCACACAACAAAGGAAACCAACCTA
AGGATATACCTTG
Found at i:930292 original size:26 final size:26
Alignment explanation
Indices: 930260--930311 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
930250 CAACCTAAGG
930260 ATATACCTTGGGCCTACCCAAGGATA
1 ATATACCTTGGGCCTACCCAAGGATA
930286 ATATACCTTGGGCCTACCCAAGGATA
1 ATATACCTTGGGCCTACCCAAGGATA
930312 CCCTTAGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (26 bp):
ATATACCTTGGGCCTACCCAAGGATA
Found at i:930308 original size:106 final size:106
Alignment explanation
Indices: 930180--930381 Score: 341
Period size: 106 Copynumber: 1.9 Consensus size: 106
930170 CAACCTAAGG
* * *
930180 ATATACCTTGGGCTTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAG
1 ATATACCTTGGGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAG
* *
930245 GAAACCAACCTAAGGATATACCTTGGGCCTACCCAAGGATA
66 GAAACCAACCTAAGAATATACCTTAGGCCTACCCAAGGATA
*
930286 ATATACCTTGGGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAGCAAAG
1 ATATACCTTGGGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAG
*
930351 GAAACCAACCTAAGAATATGCCTTAGGCCTA
66 GAAACCAACCTAAGAATATACCTTAGGCCTA
930382 TAAGCCTATC
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 89 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.21
Consensus pattern (106 bp):
ATATACCTTGGGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAG
GAAACCAACCTAAGAATATACCTTAGGCCTACCCAAGGATA
Found at i:937509 original size:17 final size:17
Alignment explanation
Indices: 937487--937542 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
937477 TTGAACCGGT
937487 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACTG
937504 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACTG
*
937521 TTGACCCGA-CCGACCG
1 TTGACCCGACCCGACTG
937537 TTGACC
1 TTGACC
937543 GTTGACCATG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
16 12 0.32
17 26 0.68
ACGTcount: A:0.18, C:0.41, G:0.23, T:0.18
Consensus pattern (17 bp):
TTGACCCGACCCGACTG
Found at i:937544 original size:7 final size:7
Alignment explanation
Indices: 937532--937574 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
937522 TGACCCGACC
937532 GACCGTT
1 GACCGTT
937539 GACCGTT
1 GACCGTT
*
937546 GACC-AT
1 GACCGTT
937552 GACCGTT
1 GACCGTT
937559 GACCG-T
1 GACCGTT
937565 GACCGTT
1 GACCGTT
937572 GAC
1 GAC
937575 TTTCTTTGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 11 0.34
7 21 0.66
ACGTcount: A:0.19, C:0.30, G:0.28, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:937556 original size:13 final size:13
Alignment explanation
Indices: 937538--937574 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
937528 GACCGACCGT
937538 TGACCGTTGACCA
1 TGACCGTTGACCA
*
937551 TGACCGTTGACCG
1 TGACCGTTGACCA
937564 TGACCGTTGAC
1 TGACCGTTGAC
937575 TTTCTTTGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.30, G:0.27, T:0.24
Consensus pattern (13 bp):
TGACCGTTGACCA
Found at i:939763 original size:39 final size:39
Alignment explanation
Indices: 939720--939844 Score: 105
Period size: 39 Copynumber: 3.2 Consensus size: 39
939710 TCCATAGGGT
939720 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
1 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
** ** * * *
939759 TACCTTGGGCTTAC--CCAAGGATATCCTTAGATCCGT-AGGGT-
1 TACCTTAAGCACACAACAAAGGA-AACC--A-A-CC-TAAGGATA
939800 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
1 TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
939839 TACCTT
1 TACCTT
939845 GGGCCTACCC
Statistics
Matches: 62, Mismatches: 14, Indels: 20
0.65 0.15 0.21
Matches are distributed among these distances:
37 7 0.11
38 9 0.15
39 17 0.27
40 2 0.03
41 11 0.18
42 9 0.15
43 7 0.11
ACGTcount: A:0.38, C:0.26, G:0.16, T:0.20
Consensus pattern (39 bp):
TACCTTAAGCACACAACAAAGGAAACCAACCTAAGGATA
Found at i:939823 original size:80 final size:80
Alignment explanation
Indices: 939686--939932 Score: 431
Period size: 80 Copynumber: 3.1 Consensus size: 80
939676 TGGGCCTATA
939686 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
939751 TAAGGATATACCTTG
66 TAAGGATATACCTTG
* * *
939766 GGCTTACCCAAGGATATCCTTAGATCCGTAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
939831 TAAGGATATACCTTG
66 TAAGGATATACCTTG
*
939846 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAGCAAAGGAAACCAACC
1 GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
* *
939911 TAAGAATATGCCTTAG
66 TAAGGATATACCTT-G
939927 GGCCTA
1 GGCCTA
939933 TAAGCCTATC
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
80 150 0.96
81 7 0.04
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (80 bp):
GGCCTACCCAAGGATACCCTTAGATCCATAGGGTTACCTTAAGCACACAACAAAGGAAACCAACC
TAAGGATATACCTTG
Found at i:940763 original size:17 final size:17
Alignment explanation
Indices: 940741--940779 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
940731 TCAACAGTGC
*
940741 TCAACGCGGGTCAA-CGG
1 TCAACGC-GATCAATCGG
940758 TCAACGCGATCAATCGG
1 TCAACGCGATCAATCGG
940775 TCAAC
1 TCAAC
940780 AGTCAACAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (17 bp):
TCAACGCGATCAATCGG
Found at i:944039 original size:2 final size:2
Alignment explanation
Indices: 944032--944065 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
944022 TTTCCGATGC
944032 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
944066 TTCATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:944530 original size:21 final size:23
Alignment explanation
Indices: 944482--944568 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 23
944472 ATGAGGAATC
* * **
944482 ATTATTAATATTTATTATAATTTC
1 ATTATTAATAATTA-TATCATTAA
*
944506 ATTATTATTAATTAT-T-ATTAA
1 ATTATTAATAATTATATCATTAA
944527 ATTATTAAT-ATTATATCATTAA
1 ATTATTAATAATTATATCATTAA
*
944549 A-TATTAATAA-TAAATCATTA
1 ATTATTAATAATTATATCATTA
944569 TTAGTAATCA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 5 0.09
21 28 0.52
22 8 0.15
23 1 0.02
24 12 0.22
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (23 bp):
ATTATTAATAATTATATCATTAA
Found at i:944533 original size:24 final size:24
Alignment explanation
Indices: 944482--944554 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
944472 ATGAGGAATC
* * *
944482 ATTATTAATATTTATTA-TAATTT
1 ATTATTATTAATTATTATTAAATT
944505 CATTATTATTAATTATTATTAAATT
1 -ATTATTATTAATTATTATTAAATT
* *
944530 ATTAATATT-A-TATCATTAAA-T
1 ATTATTATTAATTATTATTAAATT
944551 ATTA
1 ATTA
944555 ATAATAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.12
22 9 0.21
23 1 0.02
24 23 0.53
25 5 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTATTATTAATTATTATTAAATT
Found at i:944538 original size:27 final size:27
Alignment explanation
Indices: 944482--944540 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
944472 ATGAGGAATC
*
944482 ATTATTAATATTTATTATAATTTCATT
1 ATTATTAATATTTATTATAATTTCAAT
*
944509 ATTATTAAT-TATTATTA-AATTATTAAT
1 ATTATTAATAT-TTATTATAATT-TCAAT
944536 ATTAT
1 ATTAT
944541 ATCATTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.18
27 23 0.82
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTATTAATATTTATTATAATTTCAAT
Found at i:944599 original size:21 final size:21
Alignment explanation
Indices: 944522--944600 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
944512 ATTAATTATT
* * *
944522 ATTAAATTATTAATATTATATC
1 ATTAAA-TATCAATAATAAATC
*
944544 ATTAAATATTAATAATAAATC
1 ATTAAATATCAATAATAAATC
* * *
944565 ATTATTAGTAATCATTACTAAATC
1 ATTA--AAT-ATCAATAATAAATC
944589 ATTAAATATCAA
1 ATTAAATATCAA
944601 ATATAATACA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
21 21 0.46
22 8 0.17
23 2 0.04
24 15 0.33
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (21 bp):
ATTAAATATCAATAATAAATC
Found at i:946760 original size:16 final size:16
Alignment explanation
Indices: 946739--946785 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
946729 TTACTTTCCA
*
946739 ATTTCACTATACATTC
1 ATTTCACAATACATTC
*
946755 ATTTCACAATGCATTC
1 ATTTCACAATACATTC
946771 ATTTC-CAATAACATT
1 ATTTCACAAT-ACATT
946786 ATCTCACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 4 0.15
16 23 0.85
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.40
Consensus pattern (16 bp):
ATTTCACAATACATTC
Found at i:948568 original size:25 final size:25
Alignment explanation
Indices: 948525--948575 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
948515 CTATTAAGCT
*
948525 TGCCAGCTAGACTAATAGATGGTTA
1 TGCCAGCTAGACTAATAGACGGTTA
* **
948550 TGCCAGCTAGGCTTGTAGACGGTTA
1 TGCCAGCTAGACTAATAGACGGTTA
948575 T
1 T
948576 AGTTTTACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
TGCCAGCTAGACTAATAGACGGTTA
Found at i:955693 original size:105 final size:106
Alignment explanation
Indices: 955491--955700 Score: 334
Period size: 105 Copynumber: 2.0 Consensus size: 106
955481 TTAGTGTAAC
* * *
955491 CCTTAAATTTGTTTAGATGTTTACAGTCAAATCATTAAAGTCACATTAATCATCGAAGTGGTTCA
1 CCTTAAATTTGGTTAGATGTTTACAGTCAAATCATTAAAGTCACATTAATCATCGAAGTGATCCA
*
955556 TAATTTTAATTCAGAAATTTAAACAGACAAAATCATATTTT
66 TAATTTTAATTCAAAAATTTAAACAGACAAAATCATATTTT
* *
955597 CCTTAAATTTGGTTAGATG-TTACATTCGAATCATTAAAAGTCACATTAATCATCGAAGTGATCC
1 CCTTAAATTTGGTTAGATGTTTACAGTCAAATCATT-AAAGTCACATTAATCATCGAAGTGATCC
*
955661 TTAA-TTTAATTCAAAAATTTAAACAGACAAAATCATATTT
65 ATAATTTTAATTCAAAAATTTAAACAGACAAAATCATATTT
955701 ACAAATAGGT
Statistics
Matches: 96, Mismatches: 7, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
105 49 0.51
106 47 0.49
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.37
Consensus pattern (106 bp):
CCTTAAATTTGGTTAGATGTTTACAGTCAAATCATTAAAGTCACATTAATCATCGAAGTGATCCA
TAATTTTAATTCAAAAATTTAAACAGACAAAATCATATTTT
Found at i:956498 original size:35 final size:34
Alignment explanation
Indices: 956448--956545 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 34
956438 TATTGTTCAA
* * *
956448 ACATCTCAAAGATAATTCAAAAATATGTGATTCGT
1 ACATCTCACATATAATTCAAAAATATGT-ATTCGG
956483 ACATCTCACATATAATTCAGAAACATAT-TATTCGG
1 ACATCTCACATATAATTCA-AAA-ATATGTATTCGG
*
956518 ACATCTCACATATAATTCAAAAACATGT
1 ACATCTCACATATAATTCAAAAATATGT
956546 TTGATAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
33 3 0.05
34 4 0.07
35 41 0.73
36 4 0.07
37 4 0.07
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (34 bp):
ACATCTCACATATAATTCAAAAATATGTATTCGG
Found at i:958031 original size:2 final size:2
Alignment explanation
Indices: 958024--958074 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
958014 GCTCCGTGCC
* *
958024 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA GA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
958065 TA TA GA TA TA
1 TA TA TA TA TA
958075 GAGAGAGAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:958079 original size:2 final size:2
Alignment explanation
Indices: 958074--958202 Score: 237
Period size: 2 Copynumber: 66.0 Consensus size: 2
958064 ATATAGATAT
958074 AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
958115 AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
958156 AG A- AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
958197 AG AG AG
1 AG AG AG
958203 GTAGGTTCAT
Statistics
Matches: 124, Mismatches: 0, Indels: 6
0.95 0.00 0.05
Matches are distributed among these distances:
1 3 0.02
2 121 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.