Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001472.1 Hibiscus syriacus cultivar Beakdansim tig00002854_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: 88268
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:1737 original size:133 final size:136
Alignment explanation
Indices: 1577--1847 Score: 485
Period size: 133 Copynumber: 2.0 Consensus size: 136
1567 TATATGCATG
*
1577 TGTATTTTATTATTTATTTATTTGTGTACGAATGCTTTGTATCTTACATAGTTGTTTTCATACAC
1 TGTATTATATTATTTATTTATTTGTGTACGAATGCTTTGTATCTTACATAGTTGTTTTCATACAC
1642 AGTAGATATTAAGGTTACAATAAATTATTATATG-TGTATAT-TTAATGTCTTACAACCCTTATA
66 AGTAGATATTAAGGTTACAATAAATTATTATATGATGTATATATTAATGTCTTACAACCCTTATA
1705 TATATA
131 TATATA
*
1711 TGTATTAT-TTATTTATTTGTTTGTGTACGAATGCTTTGTATCTTACATAGTTGTTTTCATACAC
1 TGTATTATATTATTTATTTATTTGTGTACGAATGCTTTGTATCTTACATAGTTGTTTTCATACAC
*
1775 AGTAGATATTATGGTTACAATAAATTATTATATGTATGTATATATTAATGTCTTACAACCCTTAT
66 AGTAGATATTAAGGTTACAATAAATTATTATATG-ATGTATATATTAATGTCTTACAACCCTTAT
1840 ATATATA
130 ATATATA
1847 T
1 T
1848 ATATATGTTT
Statistics
Matches: 131, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
133 88 0.67
134 7 0.05
135 7 0.05
136 29 0.22
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.48
Consensus pattern (136 bp):
TGTATTATATTATTTATTTATTTGTGTACGAATGCTTTGTATCTTACATAGTTGTTTTCATACAC
AGTAGATATTAAGGTTACAATAAATTATTATATGATGTATATATTAATGTCTTACAACCCTTATA
TATATA
Found at i:11406 original size:81 final size:81
Alignment explanation
Indices: 11341--11660 Score: 238
Period size: 81 Copynumber: 3.9 Consensus size: 81
11331 AAACGCCGTG
* ** *
11341 ACAGAGTAGTAGTTTAGTGGCGTTTGTATAAAAACGCCGCAATAGGGTCATAT-ATAGTGGTTTT
1 ACAGAGTAGTACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTCAT-TCATAGTGGTTTT
11405 TTTCAACAAACACCGCA
65 TTTCAACAAACACCGCA
* * * * **
11422 ACAGAGTTGTACTTTAGCAGCGTTTTTATACAAACGCCACAATAGGTTCATTCATAGTGGCGTTT
1 ACAGAGTAGTACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTCATTCATAGTGGTTTTT
* * **
11487 CTCAACAAACGA-TGTG
66 TTCAACAAAC-ACCGCA
* * * * * * * * *
11503 ACAAAGTATTACTTTAAC-GATGTTTGTATAAAAACGCCGCAATAGGTTTCGACT-AAAGTGGCT
1 ACAGAGTAGTACTTTAGCAG-CGTTTGTATAAAAACGCCACAATAGG-GTC-ATTCATAGTGGTT
* *
11566 TTTTTCAACAAACGCCACA
63 TTTTTCAACAAACACCGCA
* * * * ** *
11585 AAAGAGTAATAC-TTAGCAGTGTTTGTATAAAAATGCCGTAATAGGGTTCA-TCTATAGTGGCGT
1 ACAGAGTAGTACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGG-TCATTC-ATAGTGG-TT
11648 TTTTTCAACAAAC
63 TTTTTCAACAAAC
11661 GTCGTTACTT
Statistics
Matches: 188, Mismatches: 40, Indels: 21
0.76 0.16 0.08
Matches are distributed among these distances:
79 1 0.01
80 3 0.02
81 135 0.72
82 47 0.25
83 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (81 bp):
ACAGAGTAGTACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTCATTCATAGTGGTTTTT
TTCAACAAACACCGCA
Found at i:11603 original size:162 final size:164
Alignment explanation
Indices: 11362--11661 Score: 396
Period size: 162 Copynumber: 1.8 Consensus size: 164
11352 GTTTAGTGGC
* * *
11362 GTTTGTATAAAAACGCCGCAATAGGGTCATATATAGTGGTTTTTTTCAACAAACACCGCAACAGA
1 GTTTGTATAAAAACGCCGCAATAGGGTCATATATAGTGGCTTTTTTCAACAAACACCACAAAAGA
** * *
11427 GTTGTACTTTAGCAGCGTTTTTATACAAACGCCACAATA-GGTTCAT-TCATAGTGGCG-TTTCT
66 GTAATACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTTCATCT-ATAGTGGCGTTTTCT
11489 CAACAAACGATGTGACAAAGTATTACTTTAACGAT
130 CAACAAACGATGTGACAAAGTATTACTTTAACGAT
* *
11524 GTTTGTATAAAAACGCCGCAATAGGTTTCGACTA-A-AGTGGCTTTTTTCAACAAACGCCACAAA
1 GTTTGTATAAAAACGCCGCAATAGG-GTC-A-TATATAGTGGCTTTTTTCAACAAACACCACAAA
* * **
11587 AGAGTAATAC-TTAGCAGTGTTTGTATAAAAATGCCGTAATAGGGTTCATCTATAGTGGCGTTTT
63 AGAGTAATACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTTCATCTATAGTGGCGTTTT
*
11651 TTCAACAAACG
128 CTCAACAAACG
11662 TCGTTACTTT
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
162 50 0.42
163 50 0.42
164 16 0.14
165 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.31
Consensus pattern (164 bp):
GTTTGTATAAAAACGCCGCAATAGGGTCATATATAGTGGCTTTTTTCAACAAACACCACAAAAGA
GTAATACTTTAGCAGCGTTTGTATAAAAACGCCACAATAGGGTTCATCTATAGTGGCGTTTTCTC
AACAAACGATGTGACAAAGTATTACTTTAACGAT
Found at i:17722 original size:20 final size:20
Alignment explanation
Indices: 17697--17739 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
17687 TTATTGAGTT
17697 AGATTATTATGGAAAACAAA
1 AGATTATTATGGAAAACAAA
*
17717 AGATTATTATGGAAAACGAA
1 AGATTATTATGGAAAACAAA
17737 AGA
1 AGA
17740 CTGTGTTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (20 bp):
AGATTATTATGGAAAACAAA
Found at i:22920 original size:6 final size:6
Alignment explanation
Indices: 22909--22941 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
22899 TGATACAGAC
22909 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT GGT
1 GGTTTT GGTTTT GGTTTT GGTTTT GGTTTT GGT
22942 GAACTCGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.36, T:0.64
Consensus pattern (6 bp):
GGTTTT
Found at i:27552 original size:2 final size:2
Alignment explanation
Indices: 27545--27576 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27535 CTTCTTTAGA
27545 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
27577 GCATTTATTA
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:28771 original size:3 final size:3
Alignment explanation
Indices: 28763--28937 Score: 251
Period size: 3 Copynumber: 57.7 Consensus size: 3
28753 TTTATCCATT
* * * *
28763 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
28811 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA GCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
28859 TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
28905 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT
28938 TAATAAATAA
Statistics
Matches: 152, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
3 147 0.97
4 5 0.03
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:29655 original size:13 final size:13
Alignment explanation
Indices: 29639--29665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
29629 CCACCGGAAA
29639 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
29652 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
29665 C
1 C
29666 AGAACTCACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.33, G:0.59, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:30208 original size:20 final size:19
Alignment explanation
Indices: 30165--30216 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
30155 TTAAATCCTA
*
30165 TAATTAA-TTAATAATTAG
1 TAATTAATTTTATAATTAG
*
30183 TAATTATTTTTATAATTTAG
1 TAATTAATTTTATAA-TTAG
*
30203 TTATTAATTTTATA
1 TAATTAATTTTATA
30217 TGTCTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TAATTAATTTTATAATTAG
Found at i:31052 original size:13 final size:15
Alignment explanation
Indices: 31021--31057 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
31011 ATATATGTTT
31021 TATTTTATTTGCAAG
1 TATTTTATTTGCAAG
31036 TATTTTATTT-C-AG
1 TATTTTATTTGCAAG
31049 TA-TTTATTT
1 TATTTTATTT
31058 TTATGTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 4 0.18
14 1 0.05
15 10 0.45
ACGTcount: A:0.24, C:0.05, G:0.08, T:0.62
Consensus pattern (15 bp):
TATTTTATTTGCAAG
Found at i:34359 original size:14 final size:15
Alignment explanation
Indices: 34330--34362 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
34320 TTATTATTTT
34330 ATTTATTAAGTTAAA
1 ATTTATTAAGTTAAA
34345 ATTTATTAA-TTAAA
1 ATTTATTAAGTTAAA
34359 ATTT
1 ATTT
34363 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTAAGTTAAA
Found at i:42667 original size:52 final size:50
Alignment explanation
Indices: 42588--42733 Score: 240
Period size: 52 Copynumber: 2.9 Consensus size: 50
42578 ATATGTGCTC
*
42588 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTT-GAACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAG-ACAG
*
42638 AACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 -A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
42690 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
42734 TGGCAGAACC
Statistics
Matches: 90, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
50 42 0.47
51 2 0.02
52 45 0.50
53 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.22, T:0.39
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAG
Found at i:42741 original size:50 final size:50
Alignment explanation
Indices: 42588--42741 Score: 238
Period size: 50 Copynumber: 3.0 Consensus size: 50
42578 ATATGTGCTC
*
42588 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGAACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG-ACAG
* *
42638 AACATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 -A-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG
*
42690 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG
42740 AA
1 AA
42742 CCAATCATTG
Statistics
Matches: 95, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
50 48 0.51
51 2 0.02
52 43 0.45
53 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG
Found at i:42836 original size:52 final size:52
Alignment explanation
Indices: 42774--43117 Score: 608
Period size: 52 Copynumber: 6.7 Consensus size: 52
42764 GAATTTGCCA
* *
42774 ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
*
42826 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
42878 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTA-A-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
42928 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
42978 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
* *
43030 ATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
43082 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGAT
43118 TTGATCCGAA
Statistics
Matches: 282, Mismatches: 7, Indels: 7
0.95 0.02 0.02
Matches are distributed among these distances:
50 97 0.34
51 7 0.02
52 178 0.63
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAAC
Found at i:43052 original size:152 final size:155
Alignment explanation
Indices: 42774--43122 Score: 607
Period size: 152 Copynumber: 2.3 Consensus size: 155
42764 GAATTTGCCA
*
42774 ATAGCATCTTCTGGAAGTGTTCTTCGAGTTATCTGATCTGATTAGACAGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAACATAGCATCTTCTG
* *
42839 GAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACATAGCATCTTCTGGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTAGAAGTGTTCTTTG
42904 AGTTATCTGATCTGGTT-AAAGAAC
131 AGTTATCTGATCTGGTTGAAAGAAC
*
42928 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT-GA-AGAACATAGCATCTTCTG
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAACATAGCATCTTCTG
42991 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTAGAAGTGTTCTTTG
66 GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTAGAAGTGTTCTTTG
*
43056 AGTTATCTGATCTGGTTGGACAGAAC
131 AGTTATCTGATCTGGTT-GAAAGAAC
*
43082 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATTTGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGAT
43123 CCGAAGAAGT
Statistics
Matches: 186, Mismatches: 7, Indels: 5
0.94 0.04 0.03
Matches are distributed among these distances:
152 98 0.53
153 9 0.05
154 79 0.42
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (155 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAACATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGAACATAGCATCTTCTAGAAGTGTTCTTTG
AGTTATCTGATCTGGTTGAAAGAAC
Found at i:44019 original size:119 final size:118
Alignment explanation
Indices: 43685--44256 Score: 844
Period size: 119 Copynumber: 4.9 Consensus size: 118
43675 AAAGATTTGG
* * *
43685 ATTCATCACTTGATGGATCATCATTTCCAGAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 ATTCATCAATTGATGGATAATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
43750 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
66 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
* * * *
43803 ATTCATCACTTGATGGATCATTCTTTTTCAG-AGAAG-GTTCATAATGAGAAGAA--C-TCATCT
1 ATTCATCAATTGATGGAT-AATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
* *
43863 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGA
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
* *
43917 ATTCATCAAATTGATGGGTAATCATTTCCAGAAGTAGAGTTCATAATGAGAAGAACTCGTCATCT
1 ATTCATC-AATTGATGGATAATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
*
43982 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACTTTTTGCTTAA
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
*
44036 ATTCATCAAATTGATGGATAATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCT
1 ATTCATC-AATTGATGGATAATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCT
* *
44101 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTAA
65 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
* **
44155 ATTCATCATTTGATGGATCAA-CATGGCCA-AAGAA-AGTTCATGAATGAGAAGAA--C-TCATC
1 ATTCATCAATTGATGGAT-AATCATTTCCAGAAGAAGAGTTCAT-AATGAGAAGAACTCGTCATC
*
44214 TGAAGAAGG-AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAAC
64 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
44257 CTTTGTTTGA
Statistics
Matches: 417, Mismatches: 28, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
113 32 0.08
114 88 0.21
115 15 0.04
116 24 0.06
117 32 0.08
118 39 0.09
119 187 0.45
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (118 bp):
ATTCATCAATTGATGGATAATCATTTCCAGAAGAAGAGTTCATAATGAGAAGAACTCGTCATCTG
AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAA
Found at i:44215 original size:233 final size:231
Alignment explanation
Indices: 43685--44252 Score: 835
Period size: 233 Copynumber: 2.4 Consensus size: 231
43675 AAAGATTTGG
* *
43685 ATTCATCACTTGATGGATCATCATTTCCAGAAGTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 ATTCATCAATTGATGGATCAACATTTCCAGAAGTAGAGTTCATAATGAGAAGAAC-CGTCATCTG
* *
43750 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGCTTAAATTCATCACTTG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACTTTTTGCTTAAATTCATCAATTG
* * *
43815 ATGGATCATTCTTTTTCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
130 ATGGATCAATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
*
43880 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGA
195 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAA
*
43917 ATTCATCAAATTGATGGGT-AATCATTTCCAGAAGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 ATTCATC-AATTGATGGATCAA-CATTTCCAGAAGTAGAGTTCATAATGAGAAGAAC-CGTCATC
43981 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACTTTTTGCTTAAATTCATCAAA
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACTTTTTGCTTAAATTCATC-AA
44046 TTGATGGAT-AATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGA
127 TTGATGGATCAATCATTTCCAGA-GAAG-GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGA
* * *
44110 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGTTTAA
187 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAA
* ** *
44155 ATTCATCATTTGATGGATCAACATGGCCA-AAG-AAAGTTCATGAATGAGAAGAA-C-TCATCTG
1 ATTCATCAATTGATGGATCAACATTTCCAGAAGTAGAGTTCAT-AATGAGAAGAACCGTCATCTG
*
44216 AAGAAGG-AGAAGAAGTTCATAATGAGAAGAGCTTGTT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
44253 CAACCTTTGT
Statistics
Matches: 308, Mismatches: 18, Indels: 20
0.89 0.05 0.06
Matches are distributed among these distances:
232 37 0.12
233 136 0.44
234 15 0.05
235 25 0.08
236 14 0.05
237 16 0.05
238 65 0.21
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.29
Consensus pattern (231 bp):
ATTCATCAATTGATGGATCAACATTTCCAGAAGTAGAGTTCATAATGAGAAGAACCGTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTAAACTTTTTGCTTAAATTCATCAATTGA
TGGATCAATCATTTCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTTAA
Found at i:44565 original size:3 final size:3
Alignment explanation
Indices: 44557--44716 Score: 191
Period size: 3 Copynumber: 53.0 Consensus size: 3
44547 TTTATCCATT
* * *
44557 TTA TTA TTA TTA ATA TTA ATA TTA TTA TCA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* **
44603 TTA TTA TTA TTA TTA GTA -TA TTA TTA TTA TTA GCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
44650 TTA TT- TTA TTA TTA -TA TTA GTA TTTA TTA TTA TTA ATA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA
44695 TTA TTA TTA TTA TTA TATA TTA
1 TTA TTA TTA TTA TTA T-TA TTA
44717 ATAAATAATT
Statistics
Matches: 135, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
2 6 0.04
3 118 0.87
4 11 0.08
ACGTcount: A:0.36, C:0.01, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:45897 original size:20 final size:19
Alignment explanation
Indices: 45854--45905 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
45844 TTAAATCCTA
*
45854 TAATTAA-TTAATAATTAG
1 TAATTAATTTTATAATTAG
*
45872 TAATTATTTTTATAATTTAG
1 TAATTAATTTTATAA-TTAG
*
45892 TTATTAATTTTATA
1 TAATTAATTTTATA
45906 TGTCTTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 6 0.21
19 6 0.21
20 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (19 bp):
TAATTAATTTTATAATTAG
Found at i:48016 original size:33 final size:32
Alignment explanation
Indices: 47978--48087 Score: 119
Period size: 33 Copynumber: 3.7 Consensus size: 32
47968 CAACACGCTG
*
47978 GGCATCCGAGGCCATCCGGGCGAGCTATGCGA
1 GGCATCCGAGGCCATCCGAGCGAGCTATGCGA
*
48010 GAGCATCCGAGGCCATCTGAGC--GC-AT-C--
1 G-GCATCCGAGGCCATCCGAGCGAGCTATGCGA
*
48037 CG-A-CCGAGGCCATCCGAGCGAGCTATGCGA
1 GGCATCCGAGGCCATCCGAGCGAGCTATGCGA
*
48067 GGCATCCGAGGGCATCCGAGC
1 GGCATCCGAGGCCATCCGAGC
48088 AAGGATAGGT
Statistics
Matches: 63, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
24 15 0.24
25 1 0.02
26 3 0.05
27 2 0.03
28 1 0.02
29 1 0.02
30 3 0.05
31 3 0.05
32 16 0.25
33 18 0.29
ACGTcount: A:0.21, C:0.33, G:0.35, T:0.12
Consensus pattern (32 bp):
GGCATCCGAGGCCATCCGAGCGAGCTATGCGA
Found at i:48144 original size:29 final size:29
Alignment explanation
Indices: 48093--48151 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48083 CGAGCAAGGA
* * *
48093 TAGGTCTCCATGCACGTTGGGCGACATTG
1 TAGGTCGCCATGCACGCTAGGCGACATTG
* *
48122 TAGGTCGCCATGCATGCTAGGCGACCTTG
1 TAGGTCGCCATGCACGCTAGGCGACATTG
48151 T
1 T
48152 CCTGCGCCCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.17, C:0.25, G:0.31, T:0.27
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCTAGGCGACATTG
Found at i:48184 original size:22 final size:22
Alignment explanation
Indices: 48159--48255 Score: 167
Period size: 22 Copynumber: 4.4 Consensus size: 22
48149 TGTCCTGCGC
**
48159 CCTGCTCCCCGCTGCATGCTCG
1 CCTGCTCCCCATTGCATGCTCG
48181 CCTGCTCCCCATTGCATGCTCG
1 CCTGCTCCCCATTGCATGCTCG
48203 CCTGCTCCCCATTGCATGCTCG
1 CCTGCTCCCCATTGCATGCTCG
*
48225 CCTACTCCCCATTGCATGCTCG
1 CCTGCTCCCCATTGCATGCTCG
48247 CCTGCTCCC
1 CCTGCTCCC
48256 GTTGCTTCAT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 71 1.00
ACGTcount: A:0.08, C:0.48, G:0.18, T:0.26
Consensus pattern (22 bp):
CCTGCTCCCCATTGCATGCTCG
Found at i:48613 original size:17 final size:17
Alignment explanation
Indices: 48591--48626 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
48581 TTATTAGTTT
48591 GTTAGTTTAGAGTTAGG
1 GTTAGTTTAGAGTTAGG
*
48608 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGAGTTAGG
48625 GT
1 GT
48627 AAAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.39, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGAGTTAGG
Found at i:48828 original size:30 final size:31
Alignment explanation
Indices: 48761--48834 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
48751 TTTAGTTAAT
*
48761 TAGTTT-TTAGTAGTAAATTATAATTAAAAAA
1 TAGTTTATTAGT-TTAAATTATAATTAAAAAA
* * *
48792 TCGTTTATTAGTTTAAGTTAT-ATTAAAGAA
1 TAGTTTATTAGTTTAAATTATAATTAAAAAA
48822 TAGTTTATTAGTT
1 TAGTTTATTAGTT
48835 GTTTAAGGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 20 0.54
31 12 0.32
32 5 0.14
ACGTcount: A:0.39, C:0.01, G:0.12, T:0.47
Consensus pattern (31 bp):
TAGTTTATTAGTTTAAATTATAATTAAAAAA
Found at i:48916 original size:15 final size:16
Alignment explanation
Indices: 48888--48921 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
48878 GTTTGTTACG
48888 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
48904 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
48919 TTA
1 TTA
48922 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:50175 original size:23 final size:23
Alignment explanation
Indices: 50147--50191 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
50137 TTTAATTATT
*
50147 ATTTAAATTAACTATATTATTTG
1 ATTTAAATCAACTATATTATTTG
* *
50170 ATTTAAATCAATTTTATTATTT
1 ATTTAAATCAACTATATTATTT
50192 TTAATTGGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (23 bp):
ATTTAAATCAACTATATTATTTG
Found at i:50191 original size:18 final size:21
Alignment explanation
Indices: 50141--50195 Score: 58
Period size: 23 Copynumber: 2.6 Consensus size: 21
50131 GTTATTTTTA
*
50141 ATTATTATTTAAATTAACTAT
1 ATTATTATTTAAATCAACTAT
* *
50162 ATTATTTGATTTAAATCAATTTT
1 ATTA-TT-ATTTAAATCAACTAT
50185 ATTATT-TTTAA
1 ATTATTATTTAA
50196 TTGGAGACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 5 0.17
21 4 0.14
22 4 0.14
23 16 0.55
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTATTTAAATCAACTAT
Found at i:51176 original size:17 final size:17
Alignment explanation
Indices: 51156--51197 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
51146 ATTAGTATCA
51156 AATAATTAAATATTAAT
1 AATAATTAAATATTAAT
* * *
51173 AATAAATCATTATTAAT
1 AATAATTAAATATTAAT
51190 AATAATTA
1 AATAATTA
51198 GTAAATCATT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
AATAATTAAATATTAAT
Found at i:51345 original size:14 final size:14
Alignment explanation
Indices: 51324--51679 Score: 177
Period size: 14 Copynumber: 26.3 Consensus size: 14
51314 ATTAGTAATA
51324 ATTATTAAATCATT
1 ATTATTAAATCATT
*
51338 AGTATTAAATCATT
1 ATTATTAAATCATT
*
51352 ATTA-TAAA--ATC
1 ATTATTAAATCATT
*
51363 ATTACT-AA--ATT
1 ATTATTAAATCATT
51374 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
51388 ACTAGTAAATCATT
1 ATTATTAAATCATT
*
51402 ATTA-T-AATGATT
1 ATTATTAAATCATT
51414 ATTATTAAATCATT
1 ATTATTAAATCATT
*
51428 ATTA-T-AATGATT
1 ATTATTAAATCATT
**
51440 ATTGCTAAATCATT
1 ATTATTAAATCATT
**
51454 ATTA-T-AATGGTT
1 ATTATTAAATCATT
*
51466 ATTATCAAATCACTACT
1 ATTATTAAATCA-T--T
* *
51483 AAATCATCAAATCATT
1 --ATTATTAAATCATT
*
51499 AAATATTAAAATCA-T
1 -ATTATT-AAATCATT
51514 -TT-TTAAATCATT
1 ATTATTAAATCATT
*
51526 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
51538 ATTACTAAATCATT
1 ATTATTAAATCATT
*
51552 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
51564 ATTATCAAATCATT
1 ATTATTAAATCATT
*
51578 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
* *
51597 AAATATTAAA--ATC
1 -ATTATTAAATCATT
51610 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
51624 ATTA-T-AATGAAT
1 ATTATTAAATCATT
*
51636 ATTACTAAATCATT
1 ATTATTAAATCATT
*
51650 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
51662 ATTACTAAATCATT
1 ATTATTAAATCATT
51676 ATTA
1 ATTA
51680 AATCATAATA
Statistics
Matches: 267, Mismatches: 40, Indels: 70
0.71 0.11 0.19
Matches are distributed among these distances:
11 21 0.08
12 81 0.30
13 21 0.08
14 98 0.37
15 12 0.04
16 8 0.03
17 1 0.00
18 2 0.01
19 22 0.08
20 1 0.00
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.43
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:51390 original size:22 final size:22
Alignment explanation
Indices: 51349--51391 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51339 GTATTAAATC
51349 ATTATTATAAAATCATTACTAA
1 ATTATTATAAAATCATTACTAA
*
51371 ATTATTATTAAATCATTACTA
1 ATTATTATAAAATCATTACTA
51392 GTAAATCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATTATAAAATCATTACTAA
Found at i:51422 original size:26 final size:26
Alignment explanation
Indices: 51311--51701 Score: 286
Period size: 26 Copynumber: 15.7 Consensus size: 26
51301 TTATTCCATA
* * *
51311 ATTATTAGT-AATAATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
51335 ATTAGTATTAAATCATTATTATAA-A
1 ATTATTATTAAATCATTATTATAATG
* * * *
51360 ATCATTACTAAATTATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
51385 ATTACTAGTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
51411 ATTATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
**
51437 ATTATTGCTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * * * *
51463 GTTATTATCAAATCACTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* * *
51488 ATCAAATCATTAAAT-ATTA--A-AATC
1 AT--TATTATTAAATCATTATTATAATG
51512 A-T-TT-TTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
*
51535 ATTATTACTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* * *
51561 ATTATTATCAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATG
* *
51586 ATCAAATCATT-AA--A-TATTA-AA--
1 AT--TATTATTAAATCATTATTATAATG
*
51607 ATCATTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
51633 AATATTACTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATG
* *
51659 ATTATTACTAAATCATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATG
*
51684 A-TAATATTAAAATCATTA
1 ATTATTATT-AAATCATTA
51702 CTAAATCATC
Statistics
Matches: 293, Mismatches: 51, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
19 11 0.04
20 7 0.02
21 2 0.01
22 2 0.01
23 15 0.05
24 24 0.08
25 68 0.23
26 152 0.52
27 12 0.04
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATG
Found at i:51533 original size:98 final size:98
Alignment explanation
Indices: 51414--51685 Score: 474
Period size: 98 Copynumber: 2.8 Consensus size: 98
51404 TATAATGATT
* * *
51414 ATTATTAAATCATTATTATAATGATTATTGCTAAATCATTATTATAATGGTTATTATCAAATCAC
1 ATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
51479 TACTAAATCATCAAATCATTAAATATTAAAATC
66 TACTAAATCATCAAATCATTAAATATTAAAATC
*
51512 ATTTTTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
1 ATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
51577 TACTAAATCATCAAATCATTAAATATTAAAATC
66 TACTAAATCATCAAATCATTAAATATTAAAATC
*
51610 ATTATTAAATCATTATTATAATGAATATTACTAAATCATTATTATAATGATTATTA-CTAAATCA
1 ATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATC-AAATCA
*
51674 TTATTAAATCAT
65 TTACTAAATCAT
51686 AATATTAAAA
Statistics
Matches: 166, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
97 1 0.01
98 165 0.99
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (98 bp):
ATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTAAAATC
Found at i:51619 original size:35 final size:35
Alignment explanation
Indices: 51570--51778 Score: 100
Period size: 35 Copynumber: 5.5 Consensus size: 35
51560 GATTATTATC
*
51570 AAATCATTACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
* * * *
51605 AAATCATTATTAAATCATTATTAT-AATGAATATTA
1 AAATCATTATTAAATCATCA-AATCATTAAATATTA
* * * *
51640 CTAAATCATTATTATAATGAT--TATTACTAAATCATTA
1 --AAATCATTATTA-AATCATCAAATCATTAAAT-ATTA
51677 TTAAATCATAATATTAAAATCATTACTAAATCATCAAATCATTAAATATTA
1 --AAATCAT--TATT-AAATCA-T-C--AA--AT-----CATTAAATATTA
* * *
51728 AAATAATGACTAAATCATCAAATCATTAAATATTA
1 AAATCATTATTAAATCATCAAATCATTAAATATTA
51763 AAATCATTATTAAATC
1 AAATCATTATTAAATC
51779 GTTTTTATGA
Statistics
Matches: 133, Mismatches: 19, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
35 55 0.41
36 7 0.05
37 24 0.18
38 5 0.04
39 8 0.06
40 4 0.03
42 2 0.02
44 1 0.01
45 1 0.01
46 6 0.05
47 4 0.03
49 6 0.05
51 4 0.03
52 6 0.05
ACGTcount: A:0.50, C:0.11, G:0.01, T:0.38
Consensus pattern (35 bp):
AAATCATTATTAAATCATCAAATCATTAAATATTA
Found at i:51717 original size:19 final size:19
Alignment explanation
Indices: 51693--51755 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
51683 CATAATATTA
51693 AAATCATTACTAAATCATC
1 AAATCATTACTAAATCATC
*
51712 AAATCA-T--TAAAT-ATTA
1 AAATCATTACTAAATCA-TC
* *
51728 AAATAATGACTAAATCATC
1 AAATCATTACTAAATCATC
51747 AAATCATTA
1 AAATCATTA
51756 AATATTAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
15 1 0.03
16 11 0.33
18 1 0.03
19 19 0.58
20 1 0.03
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATCATTACTAAATCATC
Found at i:51731 original size:16 final size:16
Alignment explanation
Indices: 51675--51771 Score: 60
Period size: 16 Copynumber: 5.9 Consensus size: 16
51665 ACTAAATCAT
51675 TATT-AAATCA-T-AA
1 TATTAAAATCATTAAA
51688 TATTAAAATCATTACTAA
1 TATTAAAATCATTA--AA
*
51706 -ATCATCAAATCATTAAA
1 TAT--TAAAATCATTAAA
*
51723 TATTAAAATAATGACTAAA
1 TATTAAAATCAT---TAAA
*
51742 TCA-TCAAATCATTAAA
1 T-ATTAAAATCATTAAA
51758 TATTAAAATCATTA
1 TATTAAAATCATTA
51772 TTAAATCGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 23
0.69 0.06 0.24
Matches are distributed among these distances:
13 4 0.06
14 6 0.09
15 2 0.03
16 22 0.34
17 4 0.06
18 4 0.06
19 22 0.34
20 1 0.02
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (16 bp):
TATTAAAATCATTAAA
Found at i:51731 original size:123 final size:123
Alignment explanation
Indices: 51344--51745 Score: 387
Period size: 124 Copynumber: 3.3 Consensus size: 123
51334 CATTAGTATT
* * * * * * * *
51344 AAATCATT-ATTA-TAAAATCATTACTAAATTATTATTA-AATCATTACTAGTAAATCATTATTA
1 AAATCATTAAATATTAAAATAATGACTAAATCATTATTATAATGAATATTACTAAATCATTATTA
* * * * **
51406 TAATGATTATTATTAAATCATTATTATAATGATTATTGCTAAATCATTATTATAATGGT-
66 TAATGATTATTACTAAATCATTATTATAATCATTATTAC-AAATCATTACTA-AATCATC
* * * * * * **
51465 -TATTATCAAATCACTACTAAATCAT--C-AAATCATTAAATATTAA--AATCATTTTTAAATCA
1 AAATCATTAAAT-ATTA--AAATAATGACTAAATCATT-ATTA-TAATGAAT-ATTACTAAATCA
*
51524 TTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATC
60 TTATTATAATGATTATTACTAAATCATTATTATAATCATTATTA-CAAATCATTACTAAATCATC
* * *
51589 AAATCATTAAATATTAAAATCATTATTAAATCATTATTATAATGAATATTACTAAATCATTATTA
1 AAATCATTAAATATTAAAATAATGACTAAATCATTATTATAATGAATATTACTAAATCATTATTA
51654 TAATGATTATTACTAAATCATTATTA-AATCATAATATTA-AAATCATTACTAAATCATC
66 TAATGATTATTACTAAATCATTATTATAATCAT--TATTACAAATCATTACTAAATCATC
51712 AAATCATTAAATATTAAAATAATGACTAAATCAT
1 AAATCATTAAATATTAAAATAATGACTAAATCAT
51746 CAAATCATTA
Statistics
Matches: 235, Mismatches: 27, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
120 4 0.02
121 2 0.01
122 15 0.06
123 70 0.30
124 110 0.47
125 34 0.14
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (123 bp):
AAATCATTAAATATTAAAATAATGACTAAATCATTATTATAATGAATATTACTAAATCATTATTA
TAATGATTATTACTAAATCATTATTATAATCATTATTACAAATCATTACTAAATCATC
Found at i:51766 original size:8 final size:9
Alignment explanation
Indices: 51689--51771 Score: 52
Period size: 8 Copynumber: 9.4 Consensus size: 9
51679 AAATCATAAT
51689 ATTAAAATC
1 ATTAAAATC
51698 ATTACTAAATC
1 ATTA--AAATC
*
51709 A-TCAAATC
1 ATTAAAATC
51717 ATT-AAAT-
1 ATTAAAATC
*
51724 ATTAAAATA
1 ATTAAAATC
*
51733 ATGACTAAATC
1 ATTA--AAATC
*
51744 A-TCAAATC
1 ATTAAAATC
51752 ATT-AAAT-
1 ATTAAAATC
51759 ATTAAAATC
1 ATTAAAATC
51768 ATTA
1 ATTA
51772 TTAAATCGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
7 6 0.10
8 28 0.47
9 13 0.22
10 1 0.02
11 11 0.19
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (9 bp):
ATTAAAATC
Found at i:51776 original size:19 final size:18
Alignment explanation
Indices: 51686--51777 Score: 52
Period size: 19 Copynumber: 5.2 Consensus size: 18
51676 ATTAAATCAT
*
51686 AATATTAAAATCATTACTA
1 AATATTAAAATCA-TATTA
*
51705 AATCA-TCAAATC--ATTA
1 AAT-ATTAAAATCATATTA
* *
51721 AATATTAAAATAATGACTA
1 AATATTAAAATCAT-ATTA
*
51740 AATCA-TCAAATC--ATTA
1 AAT-ATTAAAATCATATTA
51756 AATATTAAAATCATTATTA
1 AATATTAAAATCA-TATTA
51775 AAT
1 AAT
51778 CGTTTTTATG
Statistics
Matches: 54, Mismatches: 9, Indels: 20
0.65 0.11 0.24
Matches are distributed among these distances:
15 2 0.04
16 23 0.43
19 27 0.50
20 2 0.04
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (18 bp):
AATATTAAAATCATATTA
Found at i:52051 original size:49 final size:49
Alignment explanation
Indices: 51988--52114 Score: 218
Period size: 49 Copynumber: 2.6 Consensus size: 49
51978 ATTACTAATA
*
51988 ATTACTAAATCATTACTATCAAATAATTAAATATTAATAATAATTTCATT
1 ATTACT-AATCATTACTACCAAATAATTAAATATTAATAATAATTTCATT
*
52038 ATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATT
1 ATTACTAATCATTACTACCAAATAATTAAATATTAATAATAATTTCATT
*
52087 ATTACTAATCATTACTACCAAATTATTA
1 ATTACTAATCATTACTACCAAATAATTA
52115 CTATCAAATC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 68 0.92
50 6 0.08
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (49 bp):
ATTACTAATCATTACTACCAAATAATTAAATATTAATAATAATTTCATT
Found at i:52115 original size:24 final size:24
Alignment explanation
Indices: 52035--52117 Score: 73
Period size: 24 Copynumber: 3.4 Consensus size: 24
52025 TAATAATTTC
52035 ATTATTACTAATCATTACTACCAA
1 ATTATTACTAATCATTACTACCAA
* * **
52059 ATCATTA--AAT-ATTAATAATAA
1 ATTATTACTAATCATTACTACCAA
52080 TTTCATTATTACTAATCATTACTACCAA
1 ----ATTATTACTAATCATTACTACCAA
52108 ATTATTACTA
1 ATTATTACTA
52118 TCAAATCATT
Statistics
Matches: 44, Mismatches: 8, Indels: 14
0.67 0.12 0.21
Matches are distributed among these distances:
21 8 0.18
22 3 0.07
24 16 0.36
25 6 0.14
27 3 0.07
28 8 0.18
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATTACTAATCATTACTACCAA
Found at i:52116 original size:14 final size:14
Alignment explanation
Indices: 52093--52128 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
52083 CATTATTACT
52093 AATCATTACTACCA
1 AATCATTACTACCA
* *
52107 AATTATTACTATCA
1 AATCATTACTACCA
52121 AATCATTA
1 AATCATTA
52129 AATATTAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.36
Consensus pattern (14 bp):
AATCATTACTACCA
Found at i:52161 original size:112 final size:112
Alignment explanation
Indices: 51966--52239 Score: 364
Period size: 112 Copynumber: 2.5 Consensus size: 112
51956 AAATTATTAT
* *
51966 TATAATTTCATTATTACTAATAATTACT--AAATCATTACTATCAAATAATTAAATATTAATAAT
1 TATAATTTCATTATTACTAATCATTACTACAAATCATTACTATCAAATCATTAAATATTAATAAT
*
52029 AATTTCATTATTACTAATCATTACTACCA-AATCATTA-AATATT-AA
66 AATTTCATTATTACTAATCATTACTA-AATAATCATTATAATATTAAA
*
52074 TAATAATTTCATTATTACTAATCATTACTACCAAATTATTACTATCAAATCATTAAATATTAATA
1 T-ATAATTTCATTATTACTAATCATTACTA-CAAATCATTACTATCAAATCATTAAATATTAATA
* *
52139 ATAATTTCATTATTACTAATCATTACTAAATAATTATTATAATTTTAAA
64 ATAATTTCATTATTACTAATCATTACTAAATAATCATTATAATATTAAA
* * *
52188 TATAAATTCATTATTA--AATCATGATTAGCAAATCATTACTAAATCAAATCAT
1 TATAATTTCATTATTACTAATCATTACTA-CAAATCATTACT--ATCAAATCAT
52240 ATCATTATTA
Statistics
Matches: 146, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
108 1 0.01
109 26 0.18
111 21 0.14
112 66 0.45
113 29 0.20
114 3 0.02
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.42
Consensus pattern (112 bp):
TATAATTTCATTATTACTAATCATTACTACAAATCATTACTATCAAATCATTAAATATTAATAAT
AATTTCATTATTACTAATCATTACTAAATAATCATTATAATATTAAA
Found at i:52174 original size:63 final size:64
Alignment explanation
Indices: 52043--52177 Score: 229
Period size: 63 Copynumber: 2.1 Consensus size: 64
52033 TCATTATTAC
* *
52043 TAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTACCA
1 TAATTATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTACAA
*
52107 -AATTATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTA-AA
1 TAATTATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTACAA
52169 TAATTATTA
1 TAATTATTA
52178 TAATTTTAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
62 1 0.01
63 66 0.99
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.41
Consensus pattern (64 bp):
TAATTATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACTACAA
Found at i:53958 original size:84 final size:84
Alignment explanation
Indices: 53786--53946 Score: 281
Period size: 83 Copynumber: 1.9 Consensus size: 84
53776 ATGGTTTGAC
*
53786 ACTAAATATTTTTTAACACAATATTTTTTTTAAACTGGAATAAATTAAACAAATTAATTTTATAT
1 ACTAAATATTTTTAAACACAATATTTTTTTTAAACTGGAATAAATTAAACAAATTAATTTTATAT
53851 AATCTAATATAAAATAAAT
66 AATCTAATATAAAATAAAT
53870 ACTAAATATTTTTAAACACAATA-TTTTTTTAAAC-GGAAATAAATTAAACAAATTAATTTTATA
1 ACTAAATATTTTTAAACACAATATTTTTTTTAAACTGG-AATAAATTAAACAAATTAATTTTATA
*
53933 TACTCTAATATAAA
65 TAATCTAATATAAA
53947 CTAACTAACT
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
82 2 0.03
83 50 0.68
84 22 0.30
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.40
Consensus pattern (84 bp):
ACTAAATATTTTTAAACACAATATTTTTTTTAAACTGGAATAAATTAAACAAATTAATTTTATAT
AATCTAATATAAAATAAAT
Found at i:54439 original size:28 final size:28
Alignment explanation
Indices: 54408--54461 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
54398 ATAATCTAAT
*
54408 ATATAACTTAAACTAACAAATTAATATA
1 ATATAACTTAAACTAACAAACTAATATA
54436 ATATAACTTAAACTAACAAACTAATA
1 ATATAACTTAAACTAACAAACTAATA
54462 ATTTATACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
ATATAACTTAAACTAACAAACTAATATA
Found at i:54468 original size:28 final size:28
Alignment explanation
Indices: 54404--54468 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
54394 TTATATAATC
*
54404 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
54432 T-ATAATATAACTTAAACTAACAAACTAA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
54460 TAATTTATA
1 TAATATATA
54469 CTAACAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:54471 original size:21 final size:21
Alignment explanation
Indices: 54438--54486 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
54428 TTAATATAAT
54438 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
54459 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
54480 ATTAACT
1 A-TAACT
54487 AAATTTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:55023 original size:62 final size:62
Alignment explanation
Indices: 54952--55068 Score: 216
Period size: 62 Copynumber: 1.9 Consensus size: 62
54942 CTATTACAGC
54952 TGCATGCATGAGGTCTCATGAGCAGCTGCAAGAGGAATCACGCGAGGAGCAGGAGGAATAGG
1 TGCATGCATGAGGTCTCATGAGCAGCTGCAAGAGGAATCACGCGAGGAGCAGGAGGAATAGG
* *
55014 TGCATGCATGAGGTCTCCTGAGCAGCTGCAAGAGGAATCACGTGAGGAGCAGGAG
1 TGCATGCATGAGGTCTCATGAGCAGCTGCAAGAGGAATCACGCGAGGAGCAGGAG
55069 TGCATGACGA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.37, T:0.15
Consensus pattern (62 bp):
TGCATGCATGAGGTCTCATGAGCAGCTGCAAGAGGAATCACGCGAGGAGCAGGAGGAATAGG
Found at i:55800 original size:13 final size:13
Alignment explanation
Indices: 55769--55861 Score: 58
Period size: 13 Copynumber: 7.5 Consensus size: 13
55759 ATCGAAATTA
* *
55769 ATAACAAATAAAC
1 ATAATAAATAAAT
*
55782 ACAATAAATAAAT
1 ATAATAAATAAAT
55795 ATAAT-AAT-AAT
1 ATAATAAATAAAT
55806 -TAATAATATTAAAT
1 ATAATAA-A-TAAAT
55820 AT--TAAATATAAT
1 ATAATAAATA-AAT
*
55832 A-AATAATTAAAAT
1 ATAATAAAT-AAAT
55845 ATAAT-AATAAAT
1 ATAATAAATAAAT
55857 A-AATA
1 ATAATA
55862 TAGTATTAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
10 4 0.06
11 9 0.14
12 14 0.22
13 28 0.44
14 7 0.11
15 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAATAAATAAAT
Found at i:55827 original size:17 final size:17
Alignment explanation
Indices: 55784--55863 Score: 87
Period size: 16 Copynumber: 4.8 Consensus size: 17
55774 AAATAAACAC
*
55784 AATAAATAAATATAAT-
1 AATAATTAAATATAATA
*
55800 AATAATT-AATAATATTA
1 AATAATTAAAT-ATAATA
55817 AAT-ATTAAATATAATA
1 AATAATTAAATATAATA
55833 AATAATTAAAATATAAT-
1 AATAATT-AAATATAATA
*
55850 AATAAATAAATATA
1 AATAATTAAATATA
55864 GTATTAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
15 3 0.05
16 28 0.51
17 15 0.27
18 9 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AATAATTAAATATAATA
Found at i:56425 original size:21 final size:18
Alignment explanation
Indices: 56399--56437 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 18
56389 TTCAAAATAT
56399 ATTATAATTATAATATTATTA
1 ATTAT-ATT-TAATA-TATTA
56420 ATTATATTTAATATATTA
1 ATTATATTTAATATATTA
56438 TACATATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 3 0.17
21 5 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATTATATTTAATATATTA
Found at i:56546 original size:25 final size:23
Alignment explanation
Indices: 56518--56593 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 23
56508 TGAATTACTA
56518 TATTTATTTATTATTATATTTTAAT
1 TATTTA-TTATTATTATA-TTTAAT
*
56543 TATTTATTA-TATT-TA-ATAAT
1 TATTTATTATTATTATATTTAAT
* *
56563 TA-ATATTATTATTATATTTATT
1 TATTTATTATTATTATATTTAAT
56585 ATATTTATT
1 -TATTTATT
56594 TCTTATTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 5 0.12
20 10 0.24
21 2 0.05
22 5 0.12
23 6 0.15
24 7 0.17
25 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTATTATTATTATATTTAAT
Found at i:56554 original size:34 final size:36
Alignment explanation
Indices: 56516--56601 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 36
56506 TTTGAATTAC
56516 TATATTTATTTATTATTATATT-TTAAT-TATTTAT
1 TATATTTATTTATTATTATATTATTAATATATTTAT
* * *
56550 TATATTTAATAATTA--ATATTATTATTATATTTAT
1 TATATTTATTTATTATTATATTATTAATATATTTAT
*
56584 TATATTTATTTCTTATTA
1 TATATTTATTTATTATTA
56602 AGTTGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
32 5 0.12
33 4 0.10
34 32 0.76
36 1 0.02
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (36 bp):
TATATTTATTTATTATTATATTATTAATATATTTAT
Found at i:56555 original size:9 final size:9
Alignment explanation
Indices: 56516--56593 Score: 69
Period size: 9 Copynumber: 9.1 Consensus size: 9
56506 TTTGAATTAC
56516 TATATTTAT
1 TATATTTAT
56525 T-TA-TTAT
1 TATATTTAT
56532 TATATTT-T
1 TATATTTAT
*
56540 AATTATTTAT
1 TA-TATTTAT
56550 TATATTTA-
1 TATATTTAT
* *
56558 -ATAATTAA
1 TATATTTAT
56566 TAT-TATTAT
1 TATAT-TTAT
56575 TATATTTAT
1 TATATTTAT
56584 TATATTTAT
1 TATATTTAT
56593 T
1 T
56594 TCTTATTAAG
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
7 11 0.20
8 6 0.11
9 36 0.64
10 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATTTAT
Found at i:56599 original size:13 final size:14
Alignment explanation
Indices: 56528--56599 Score: 57
Period size: 13 Copynumber: 5.5 Consensus size: 14
56518 TATTTATTTA
* *
56528 TTATTATATTTTAA
1 TTATTATATTATAT
56542 TTATT-TATTATAT
1 TTATTATATTATAT
*
56555 TTAATA-ATTA-A-
1 TTATTATATTATAT
56566 -TATTATTATTATAT
1 TTATTA-TATTATAT
56580 TTATTATATT-TAT
1 TTATTATATTATAT
*
56593 TTCTTAT
1 TTATTAT
56600 TAAGTTGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
10 4 0.09
12 5 0.11
13 24 0.51
14 9 0.19
15 5 0.11
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (14 bp):
TTATTATATTATAT
Found at i:57189 original size:128 final size:131
Alignment explanation
Indices: 56939--57205 Score: 355
Period size: 140 Copynumber: 2.0 Consensus size: 131
56929 ATTGTTAATA
*
56939 TTTTTATTTTAGTCCTTATTATCTTATATTTAATTTAATTCTGGCACGATTTGTTGTTTACTACC
1 TTTTTATATTAGTCCTTATTATCTTATATTTAATTTAATTCTGGCACGATTTGTTGTTTACTACC
* *
57004 TTTCATGCGTGTGTGTATATATATTGTTGTTGTTGTTATTATTATACTATGTACATAGATAAAAT
66 TTTCAT-CGTGTGTGTATATATA------TTGATGATATTATTATACTATGTACATAGATAAAAT
57069 TATGTGTTT
124 TATGT-TTT
* * *
57078 TTTTTATATTAGTCCTTATTATCTTGTATTTTAATTTAATTCTGGCATGATTTGTTGTTTACTGC
1 TTTTTATATTAGTCCTTATTATCTTATA-TTTAATTTAATTCTGGCACGATTTGTTGTTTACTAC
*
57143 CTTTCAT-GTGTGTGTATATATA-T-AT-ATA-TATTATACTATGTACATAGATAAATTTATGTT
65 CTTTCATCGTGTGTGTATATATATTGATGATATTATTATACTATGTACATAGATAAAATTATGTT
57203 TT
130 TT
57205 T
1 T
57206 CAACACTAGT
Statistics
Matches: 120, Mismatches: 7, Indels: 14
0.85 0.05 0.10
Matches are distributed among these distances:
127 4 0.03
128 30 0.25
129 2 0.02
130 1 0.01
131 1 0.01
138 15 0.12
139 26 0.22
140 41 0.34
ACGTcount: A:0.25, C:0.09, G:0.13, T:0.54
Consensus pattern (131 bp):
TTTTTATATTAGTCCTTATTATCTTATATTTAATTTAATTCTGGCACGATTTGTTGTTTACTACC
TTTCATCGTGTGTGTATATATATTGATGATATTATTATACTATGTACATAGATAAAATTATGTTT
T
Found at i:57357 original size:28 final size:27
Alignment explanation
Indices: 57310--57363 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
57300 ATTTATTTTT
**
57310 TATTTTTGTTATTTTTTTAAATTATTTG
1 TATTTTTGTTATTTACTTAAA-TATTTG
*
57338 TATTTTTTTTATTTACTTAAATATTT
1 TATTTTTGTTATTTACTTAAATATTT
57364 TTAAGGATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (27 bp):
TATTTTTGTTATTTACTTAAATATTTG
Found at i:59308 original size:21 final size:20
Alignment explanation
Indices: 59288--59326 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59278 ATCAATATAT
59288 TTTACATT-TGCATTTACATA
1 TTTACATTCTGCA-TTACATA
*
59308 TTTGCATTCTGCATTACAT
1 TTTACATTCTGCATTACAT
59327 TTATTTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.26, C:0.18, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTACATTCTGCATTACATA
Found at i:61541 original size:24 final size:24
Alignment explanation
Indices: 61509--61557 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61499 TGATGAGATG
61509 AATCCTTCAGGTAAGCTAAAATAA
1 AATCCTTCAGGTAAGCTAAAATAA
61533 AATCCTTCAGGTAAGCTAAAATAA
1 AATCCTTCAGGTAAGCTAAAATAA
61557 A
1 A
61558 GTCAAAAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (24 bp):
AATCCTTCAGGTAAGCTAAAATAA
Found at i:63657 original size:20 final size:20
Alignment explanation
Indices: 63632--63669 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
63622 TCTTCACACA
63632 AATGGGCAAAGAGGGAAACC
1 AATGGGCAAAGAGGGAAACC
63652 AATGGGCAAAGAGGGAAA
1 AATGGGCAAAGAGGGAAA
63670 GGTGTTGACA
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:0.47, C:0.11, G:0.37, T:0.05
Consensus pattern (20 bp):
AATGGGCAAAGAGGGAAACC
Found at i:64184 original size:29 final size:29
Alignment explanation
Indices: 64143--64205 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
64133 AGAAGAGGAT
*
64143 ATGAGA-AAAAATCAA-AAAAAGGAGAAA
1 ATGAGATAAAAATCAACAAAAAAGAGAAA
*
64170 ATGAGATACAAAATCAACAAAAAAGAGGAA
1 ATGAGATA-AAAATCAACAAAAAAGAGAAA
64200 A-GAGAT
1 ATGAGAT
64206 TCGAATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 1 0.03
29 13 0.42
30 11 0.35
ACGTcount: A:0.65, C:0.06, G:0.19, T:0.10
Consensus pattern (29 bp):
ATGAGATAAAAATCAACAAAAAAGAGAAA
Found at i:64300 original size:14 final size:14
Alignment explanation
Indices: 64281--64336 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
64271 GTACCCTCAC
64281 TATTATAATATTTA
1 TATTATAATATTTA
*
64295 TATTATATTATATTA
1 TATTATAATAT-TTA
*
64310 TA-TAT-ATATATA
1 TATTATAATATTTA
64322 TATATATAAT-TTTA
1 TAT-TATAATATTTA
64336 T
1 T
64337 TAATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
12 4 0.12
13 3 0.09
14 20 0.59
15 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATAATATTTA
Found at i:64315 original size:2 final size:2
Alignment explanation
Indices: 64284--64329 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
64274 CCCTCACTAT
*
64284 TA TA -A TA TT TA TA T- TA TA T- TA TA T- TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64322 TA TA TA TA
1 TA TA TA TA
64330 ATTTTATTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
1 4 0.11
2 34 0.89
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:64329 original size:10 final size:10
Alignment explanation
Indices: 64284--64329 Score: 55
Period size: 9 Copynumber: 5.0 Consensus size: 10
64274 CCCTCACTAT
*
64284 TATA-ATATT
1 TATATATATA
64293 TATAT-TATA
1 TATATATATA
64302 T-TATAT-TA
1 TATATATATA
64310 TATATATATA
1 TATATATATA
64320 TATATATATA
1 TATATATATA
64330 ATTTTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 6 0.19
9 14 0.44
10 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
TATATATATA
Found at i:65507 original size:2 final size:2
Alignment explanation
Indices: 65496--65526 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
65486 TTTATTATTC
65496 AT AT -T 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
65527 TTTATTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:65806 original size:10 final size:10
Alignment explanation
Indices: 65791--65834 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
65781 GTTTTATTTA
*
65791 TATTTTTCCT
1 TATTTTTCTT
65801 TATTTTTCTT
1 TATTTTTCTT
*
65811 TATTTTT-TA
1 TATTTTTCTT
65820 TATTTTTCTT
1 TATTTTTCTT
65830 TATTT
1 TATTT
65835 GTTTTTTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (10 bp):
TATTTTTCTT
Found at i:65852 original size:29 final size:28
Alignment explanation
Indices: 65782--65860 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 28
65772 TGTTTATTTG
*
65782 TTTTATTTATATTTTTCCTTATTTTTCT
1 TTTTATTTATATTTTTCTTTATTTTTCT
*
65810 TTATTTTTTATATTTTTCTTTATTTGTT-T
1 TT-TTATTTATATTTTTCTTTATTT-TTCT
*
65839 TTTTACTTACTATTTTATCTTT
1 TTTTATTTA-TATTTT-TCTTT
65861 GCTTTTTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 7 0.16
29 29 0.67
30 7 0.16
ACGTcount: A:0.15, C:0.09, G:0.01, T:0.75
Consensus pattern (28 bp):
TTTTATTTATATTTTTCTTTATTTTTCT
Found at i:68113 original size:18 final size:18
Alignment explanation
Indices: 68090--68144 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 18
68080 TCATTTCCTT
68090 TTATTATTCATATTATTA
1 TTATTATTCATATTATTA
68108 TTATTA-T-ATATATATTA
1 TTATTATTCATAT-TATTA
68125 TTTATT-TTCAT-TTGATTA
1 -TTATTATTCATATT-ATTA
68143 TT
1 TT
68145 TTTTAAATAC
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
16 4 0.12
17 9 0.28
18 17 0.53
19 2 0.06
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.64
Consensus pattern (18 bp):
TTATTATTCATATTATTA
Found at i:68123 original size:14 final size:14
Alignment explanation
Indices: 68091--68240 Score: 53
Period size: 12 Copynumber: 11.3 Consensus size: 14
68081 CATTTCCTTT
68091 TATTATTCATAT-TA
1 TATTATT-ATATATA
68105 TTATTATTATATATA
1 -TATTATTATATATA
68120 TATTATT-TAT-T-
1 TATTATTATATATA
*
68131 T-TCATT-TGAT-TA
1 TATTATTAT-ATATA
* *
68143 T-TTTTTAAATACTA
1 TATTATTATATA-TA
68157 TATT-TTAT-TATA
1 TATTATTATATATA
*
68169 TATATATT-TAAATA
1 TAT-TATTATATATA
* **
68183 TTTTACTTATA-AGCG
1 TATTA-TTATATA-TA
68198 TATTATTACTATATA
1 TATTATTA-TATATA
68213 TA-TA-TATATATA
1 TATTATTATATATA
68225 TA-TA-TATATATA
1 TATTATTATATATA
68237 TATT
1 TATT
68241 GTAATTATCT
Statistics
Matches: 107, Mismatches: 12, Indels: 34
0.70 0.08 0.22
Matches are distributed among these distances:
10 5 0.05
11 4 0.04
12 32 0.30
13 12 0.11
14 32 0.30
15 21 0.20
16 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (14 bp):
TATTATTATATATA
Found at i:68214 original size:2 final size:2
Alignment explanation
Indices: 68207--68239 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
68197 GTATTATTAC
68207 TA 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 TA T
68240 TGTAATTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:68448 original size:29 final size:29
Alignment explanation
Indices: 68381--68448 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 29
68371 TATTATTTTG
* *
68381 TTTATTTTGT-TTATTTATATTTTTCCTTC
1 TTTATTTT-TATTATTTATATTTTTCATTA
* *
68410 TTT-TTCTTTATTTTTTATATTTTTTATTA
1 TTTATT-TTTATTATTTATATTTTTCATTA
68439 TTTATTTTTA
1 TTTATTTTTA
68449 CTTACTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 3 0.09
29 27 0.84
30 2 0.06
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (29 bp):
TTTATTTTTATTATTTATATTTTTCATTA
Found at i:71097 original size:15 final size:17
Alignment explanation
Indices: 71063--71099 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
71053 TACAAACCAT
*
71063 TTTTATCTTAAAAATGA
1 TTTTATCTTAAAAATAA
71080 TTTT-TCTT-AAAATAA
1 TTTTATCTTAAAAATAA
71095 TTTTA
1 TTTTA
71100 AAAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTTATCTTAAAAATAA
Found at i:72506 original size:27 final size:28
Alignment explanation
Indices: 72474--72526 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
72464 ATGTAAATAT
*
72474 TTTTATACATCTTAAT-AATATTTTAAA
1 TTTTATACATATTAATAAATATTTTAAA
**
72501 TTTTATTTATATTAATAAATATTTTA
1 TTTTATACATATTAATAAATATTTTA
72527 CTGAAAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTATACATATTAATAAATATTTTAAA
Found at i:72525 original size:21 final size:20
Alignment explanation
Indices: 72500--72558 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
72490 AATATTTTAA
*
72500 ATTTTATTTATATTAATAAAT
1 ATTTTATATATATTAAT-AAT
*
72521 ATTTTACTGA-AAATTAATAAT
1 ATTTTA-T-ATATATTAATAAT
*
72542 ATTTTATATATCTTAAT
1 ATTTTATATATATTAAT
72559 TCTTAAGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 1 0.03
20 7 0.23
21 15 0.48
22 8 0.26
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTTTATATATATTAATAAT
Found at i:72655 original size:25 final size:26
Alignment explanation
Indices: 72627--72689 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
72617 TAAAACTATT
72627 AAATATATTTTAAT-TTT-T-AATGTAA
1 AAATATATTTT-ATCTTTATCAAT-TAA
*
72652 AAATATATATTTATCTTTATCACTTAA
1 AAATATAT-TTTATCTTTATCAATTAA
72679 AAATATATTTT
1 AAATATATTTT
72690 GTTCTTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 10 0.30
26 9 0.27
27 12 0.36
28 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.51
Consensus pattern (26 bp):
AAATATATTTTATCTTTATCAATTAA
Found at i:72856 original size:16 final size:18
Alignment explanation
Indices: 72832--72869 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
72822 AATGATTAAA
*
72832 TTTATTTTAAT-T-TATT
1 TTTAATTTAATATATATT
72848 TTTAATTTAATATATATT
1 TTTAATTTAATATATATT
72866 TTTA
1 TTTA
72870 TATTAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 1 0.05
18 8 0.42
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTAATTTAATATATATT
Found at i:73021 original size:15 final size:15
Alignment explanation
Indices: 73001--73050 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
72991 TTTATTAAAA
73001 AATAAAATTATATTT
1 AATAAAATTATATTT
**
73016 AAT-AAATTAATATAAA
1 AATAAAATT-ATAT-TT
73032 AATAAAA-TATATTT
1 AATAAAATTATATTT
73046 AATAA
1 AATAA
73051 GTTAAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
14 10 0.36
15 11 0.39
16 4 0.14
17 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAAAATTATATTT
Found at i:73027 original size:23 final size:24
Alignment explanation
Indices: 72972--73021 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
72962 TTAAGTGAAG
*
72972 AAAAAGATAAAATTTATATTTTATT
1 AAAAA-ATAAAATTTATATTTTAAT
72997 AAAAAATAAAA-TTATA-TTTAAT
1 AAAAAATAAAATTTATATTTTAAT
73019 AAA
1 AAA
73022 TTAATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 8 0.33
23 5 0.21
24 6 0.25
25 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
AAAAAATAAAATTTATATTTTAAT
Found at i:73045 original size:30 final size:31
Alignment explanation
Indices: 72998--73055 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
72988 TATTTTATTA
72998 AAAAATAAAATTATATTTAATAAATTAATAT
1 AAAAATAAAATTATATTTAATAAATTAATAT
*
73029 AAAAATAAAA-TATATTTAATAAGTTAA
1 AAAAATAAAATTATATTTAATAAATTAA
73056 GAAAAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (31 bp):
AAAAATAAAATTATATTTAATAAATTAATAT
Found at i:73761 original size:23 final size:23
Alignment explanation
Indices: 73716--73759 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
73706 TTTACCCTAA
73716 AAATAAAAATATTTTATAATTTT
1 AAATAAAAATATTTTATAATTTT
73739 AAAT-AAAATATTTTA-AATTTT
1 AAATAAAAATATTTTATAATTTT
73760 TTTAGGTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 11 0.52
23 4 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATAAAAATATTTTATAATTTT
Found at i:73915 original size:15 final size:16
Alignment explanation
Indices: 73895--73927 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
73885 AATTTTTCCT
73895 TGTTTTAATTAT-TTA
1 TGTTTTAATTATCTTA
*
73910 TGTTTTAGTTATCTTA
1 TGTTTTAATTATCTTA
73926 TG
1 TG
73928 CTCATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.12, T:0.64
Consensus pattern (16 bp):
TGTTTTAATTATCTTA
Found at i:74899 original size:4 final size:5
Alignment explanation
Indices: 74872--74901 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
74862 AAATTATTTT
74872 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
74902 ATCATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:74903 original size:15 final size:15
Alignment explanation
Indices: 74872--74901 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
74862 AAATTATTTT
74872 ATAAAATAAAATAAA
1 ATAAAATAAAATAAA
74887 ATAAAAT-AAATAAA
1 ATAAAATAAAATAAA
74901 A
1 A
74902 ATCATCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (15 bp):
ATAAAATAAAATAAA
Found at i:77549 original size:42 final size:42
Alignment explanation
Indices: 77500--77618 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
77490 TAATAGGTCG
* * *
77500 AGATCTATAGCGGCGTTTTTAGAACAAACGCCGTAAAAGATC
1 AGATCTATAGCAGCGTTTTTGGAACAAACGCCGCAAAAGATC
* * * *
77542 AGATCTATAGCAACGTTTATGGAACAAACACCGCAAAAGGTC
1 AGATCTATAGCAGCGTTTTTGGAACAAACGCCGCAAAAGATC
77584 AGATCTATAGCAGCGTTTTTGGATACAAACGCCGC
1 AGATCTATAGCAGCGTTTTTGGA-ACAAACGCCGC
77619 TAATTACCTT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 56 0.85
43 10 0.15
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AGATCTATAGCAGCGTTTTTGGAACAAACGCCGCAAAAGATC
Found at i:78848 original size:20 final size:20
Alignment explanation
Indices: 78825--78868 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
78815 TGTAAGATTG
78825 CCAGTAAGAATAAAAAATTA
1 CCAGTAAGAATAAAAAATTA
* *
78845 CCAGTAGGAATAAAAGATTA
1 CCAGTAAGAATAAAAAATTA
78865 CCAG
1 CCAG
78869 GGAACATGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (20 bp):
CCAGTAAGAATAAAAAATTA
Found at i:81029 original size:21 final size:21
Alignment explanation
Indices: 81005--81058 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
80995 GGCACGTCGA
* *
81005 TGGTGATTGGTGGCGTAACGG
1 TGGTGACTGGTGGCGCAACGG
* * *
81026 TGGTCACTGATGGCGCGACGG
1 TGGTGACTGGTGGCGCAACGG
*
81047 TGGTGAGTGGTG
1 TGGTGACTGGTG
81059 CACCGATTTG
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.48, T:0.26
Consensus pattern (21 bp):
TGGTGACTGGTGGCGCAACGG
Found at i:81262 original size:43 final size:44
Alignment explanation
Indices: 81199--81306 Score: 155
Period size: 43 Copynumber: 2.5 Consensus size: 44
81189 AGAAAAACGT
* *
81199 CACTAAGGTACATAACTATTGCGGCGTTTATTACAAAAAAA-AC
1 CACTAAAGTACATGACTATTGCGGCGTTTATTACAAAAAAATAC
* * * *
81242 CACTTAATTACATGATTATTGCGGCGTTTATTACAAAAAAATGC
1 CACTAAAGTACATGACTATTGCGGCGTTTATTACAAAAAAATAC
81286 CACTAAAGTACATGACTATTG
1 CACTAAAGTACATGACTATTG
81307 TGACATTTGA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
43 36 0.65
44 19 0.35
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (44 bp):
CACTAAAGTACATGACTATTGCGGCGTTTATTACAAAAAAATAC
Found at i:84999 original size:19 final size:19
Alignment explanation
Indices: 84975--85018 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
84965 TACCATATTT
84975 AAACTTTGAATTCAAAATC
1 AAACTTTGAATTCAAAATC
84994 AAACTTTGAATTCAAAATC
1 AAACTTTGAATTCAAAATC
*
85013 GAACTT
1 AAACTT
85019 AGAAATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (19 bp):
AAACTTTGAATTCAAAATC
Found at i:85069 original size:16 final size:17
Alignment explanation
Indices: 85048--85081 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
85038 TGATGAGTGA
85048 TTTATTTAGTTA-TTAT
1 TTTATTTAGTTAGTTAT
*
85064 TTTATTTCGTTAGTTAT
1 TTTATTTAGTTAGTTAT
85081 T
1 T
85082 AAGACAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.68
Consensus pattern (17 bp):
TTTATTTAGTTAGTTAT
Done.