Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005968.1 Hibiscus syriacus cultivar Beakdansim tig00014024_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: 67954
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Found at i:583 original size:11 final size:10
Alignment explanation
Indices: 548--593 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
538 AATTTAATCC
548 TTTTAT-TTAT
1 TTTTATGTT-T
558 TTTTATGTTT
1 TTTTATGTTT
568 TTTTATGTTT
1 TTTTATGTTT
*
578 TATTTAT-TTA
1 T-TTTATGTTT
588 TTTTAT
1 TTTTAT
594 TTCTCATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
9 5 0.15
10 21 0.64
11 7 0.21
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (10 bp):
TTTTATGTTT
Found at i:625 original size:2 final size:2
Alignment explanation
Indices: 614--650 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
604 TTCTTATACG
614 AT AT -T 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
651 TATTTTATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:699 original size:18 final size:18
Alignment explanation
Indices: 678--713 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
668 TTTTATCTCT
678 TTTTATTTGTTTATTTTA
1 TTTTATTTGTTTATTTTA
* *
696 TTTTTTTTGTTTTTTTTA
1 TTTTATTTGTTTATTTTA
714 ATGTTTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTATTTGTTTATTTTA
Found at i:720 original size:18 final size:17
Alignment explanation
Indices: 683--725 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
673 TCTCTTTTTA
* *
683 TTTGTTTATTTTATTTTT
1 TTTGTTTATTTTA-ATGT
*
701 TTTGTTTTTTTTAATGT
1 TTTGTTTATTTTAATGT
718 TTTGTTTA
1 TTTGTTTA
726 AACGTTATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (17 bp):
TTTGTTTATTTTAATGT
Found at i:741 original size:2 final size:2
Alignment explanation
Indices: 734--758 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
724 TAAACGTTAT
734 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 T
759 TCATTTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:878 original size:9 final size:9
Alignment explanation
Indices: 855--891 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
845 ACCTACTCTT
855 TTTTATTTA
1 TTTTATTTA
864 -TTTATTTA
1 TTTTATTTA
872 TTTTATTT-
1 TTTTATTTA
880 TTTCTATTTA
1 TTT-TATTTA
890 TT
1 TT
892 ATTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
8 11 0.44
9 12 0.48
10 2 0.08
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTATTTA
Found at i:1169 original size:12 final size:12
Alignment explanation
Indices: 1124--1298 Score: 64
Period size: 13 Copynumber: 12.8 Consensus size: 12
1114 GTATATATTA
1124 ATTTTATTTTTTT
1 ATTTT-TTTTTTT
1137 ATTTTTTCGTTTATT
1 ATTTTTT--TTT-TT
1152 ATTTTTTTTTTTT
1 A-TTTTTTTTTTT
1165 ATTTTATTTTTGTT
1 ATTTT-TTTTT-TT
*
1179 TTTGTTTTTGTTTCT
1 ATT-TTTTT-TTT-T
*
1194 GTTTATTTTCTATTT
1 ATTT-TTTT-T-TTT
**
1209 AATTCCATTTTTTT
1 -ATT-TTTTTTTTT
*
1223 ATTGTTTTTTTT
1 ATTTTTTTTTTT
* *
1235 ATTTTATTTCTT
1 ATTTTTTTTTTT
*
1247 CTTTTGGTTTTGTTT
1 ATTTT--TTTT-TTT
*
1262 -TGTTTTTATTTT
1 AT-TTTTTTTTTT
1274 ATTTTTTTTGTTTT
1 A-TTTTTTT-TTTT
1288 ATTTTTATTTT
1 ATTTTT-TTTT
1299 ACTTATTTTA
Statistics
Matches: 125, Mismatches: 16, Indels: 42
0.68 0.09 0.23
Matches are distributed among these distances:
12 29 0.23
13 31 0.25
14 30 0.24
15 22 0.18
16 13 0.10
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.79
Consensus pattern (12 bp):
ATTTTTTTTTTT
Found at i:1241 original size:5 final size:5
Alignment explanation
Indices: 1227--1318 Score: 55
Period size: 5 Copynumber: 17.8 Consensus size: 5
1217 TTTTTTATTG
* * * *
1227 TTTT- TTTTA TTTTA TTTCTTC TTTTGG TTTTG TTTTG TTTTTA TTTTA
1 TTTTA TTTTA TTTTA -TT-TTA TTTT-A TTTTA TTTTA TT-TTA TTTTA
* *
1275 TTTT- TTTTG TTTTA TTTTTA TTTTA -CTTA TTTTA TTATTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TT-TTA TTTT
1319 TCTTTGTCGT
Statistics
Matches: 73, Mismatches: 6, Indels: 17
0.76 0.06 0.18
Matches are distributed among these distances:
4 11 0.15
5 38 0.52
6 22 0.30
7 2 0.03
ACGTcount: A:0.12, C:0.03, G:0.05, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:1307 original size:20 final size:20
Alignment explanation
Indices: 1265--1318 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
1255 TTTGTTTTGT
** *
1265 TTTTA-TTTTATTTTTTTTG
1 TTTTATTTTTATTTTACTTA
1284 TTTTATTTTTATTTTACTTA
1 TTTTATTTTTATTTTACTTA
*
1304 TTTTATTATTATTTT
1 TTTTATTTTTATTTT
1319 TCTTTGTCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 5 0.17
20 25 0.83
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTATTTTACTTA
Found at i:1318 original size:25 final size:25
Alignment explanation
Indices: 1254--1319 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
1244 CTTCTTTTGG
* * * *
1254 TTTTGTTTTGTTTTTATTTTATTTT
1 TTTTATTTTATTTTTATTTTACTTA
*
1279 TTTTGTTTTATTTTTATTTTACTTA
1 TTTTATTTTATTTTTATTTTACTTA
1304 TTTTATTATTATTTTT
1 TTTTATT-TTATTTTT
1320 CTTTGTCGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 28 0.78
26 8 0.22
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.80
Consensus pattern (25 bp):
TTTTATTTTATTTTTATTTTACTTA
Found at i:5372 original size:93 final size:93
Alignment explanation
Indices: 5211--5399 Score: 310
Period size: 93 Copynumber: 2.0 Consensus size: 93
5201 AATATTATGT
*
5211 ATACAATAAAGCTTGAATTGTCCCTGTAGAGCAATTGGTTAAAAGCCCCAGCTTTATGGATAAGA
1 ATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAAAGCCCCAGCTTTATGGATAAGA
5276 TTCAGCTAGCCTGATAAAGGTGATTATA
66 TTCAGCTAGCCTGATAAAGGTGATTATA
* *
5304 ATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTT-AAA-CTCCCTGACTTTATGGATAA
1 ATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAAAGC-CCCAG-CTTTATGGATAA
*
5367 TATTCAGCTAGCCTGATAAAGGTGATTATA
64 GATTCAGCTAGCCTGATAAAGGTGATTATA
5397 ATA
1 ATA
5400 TCTATACAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
91 1 0.01
92 7 0.08
93 82 0.91
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (93 bp):
ATACAATAAAGCTTGAATTGTCCCTCTAGAGCAATTGGTTAAAAGCCCCAGCTTTATGGATAAGA
TTCAGCTAGCCTGATAAAGGTGATTATA
Found at i:5461 original size:98 final size:93
Alignment explanation
Indices: 5237--5462 Score: 281
Period size: 93 Copynumber: 2.4 Consensus size: 93
5227 ATTGTCCCTG
* *
5237 TAGAGCAATTGGTTAAAAGCCCCAGCTTTATGGATAAGATTCAGCTAGCCTGATAAAGGTGATTA
1 TAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCAGCTAGCCTGATAAAGGTGATTA
* * * * *
5302 TAATACAATAAAGCTTGAGTTGTCCCTC
66 TAATACAAAAAAGATTAAGCTGTCCCAC
* * * *
5330 TAGAGCAATTGGTTAAACTCCCTGACTTTATGGATAATATTCAGCTAGCCTGATAAAGGTGATTA
1 TAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCAGCTAGCCTGATAAAGGTGATTA
*
5395 TAATATCTATACAATAATATTAAGCTGTCCCAC
66 TAATA-C-A-A-AA-AAGATTAAGCTGTCCCAC
* *
5428 TAGACCAATTTGTTAAACGCCCCGGCTTTATGGAT
1 TAGAGCAATTGGTTAAACGCCCCGGCTTTATGGAT
5463 TCAGCTAGCC
Statistics
Matches: 111, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
93 64 0.58
94 1 0.01
95 1 0.01
96 1 0.01
97 1 0.01
98 43 0.39
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (93 bp):
TAGAGCAATTGGTTAAACGCCCCGGCTTTATGGATAAGATTCAGCTAGCCTGATAAAGGTGATTA
TAATACAAAAAAGATTAAGCTGTCCCAC
Found at i:6700 original size:84 final size:84
Alignment explanation
Indices: 6584--7444 Score: 811
Period size: 84 Copynumber: 10.3 Consensus size: 84
6574 CTATTGGTAC
* * *
6584 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAACTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * * * * *
6649 CGAGGGATATTATTTACAT
66 CAAGGCACATCATTTGCAG
* * * *
6668 CATAACTTAAGGCTAGAAGGGTTATATACCAA-CAAAGACCTTCGAAGTTCGACTATGCTCAGC-
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCG-AGTTCGACTACGCTCAGCT
6731 TCAAGGCACATC-TTTGCAG
65 TCAAGGCACATCATTTGCAG
* * * * * * * * *
6750 CATAGCTTAAGTCGAGAAGGGCTATCTGCCAACCAAAGCCCTTCGAGTTTGATTACACTCAGCTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* *
6815 CGAGGGCAAATCATTTGCAG
66 C-AAGGCACATCATTTGCAG
* * *
6835 CATAACTCAAGGCTAGAATGGTTATCTGCCAA-TAAAGACCTTCGAGCTCGACTACGCTCAGC-T
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
*
6898 CAAAGGCACATCATTTGCAA
66 C-AAGGCACATCATTTGCAG
* * * * * *
6918 CATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* *
6983 CGAGGGTACATCATTTGCAG
66 C-AAGGCACATCATTTGCAG
* *
7003 CATAACTCAATGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * *
7067 CAAGGCATATCA-TTACAA
66 CAAGGCACATCATTTGCAG
* * *
7085 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTCGAGTTCGACTATGCTC-GCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
*
7149 CAAGGCACATAATTTGCAG
66 CAAGGCACATCATTTGCAG
* * * * * * * * *
7168 CATAGCTTAAGTCGAGAAGGGCTATCT----ACCAAAGACC-TCGGGTTTGATTACACTCAGCTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* *
7228 CGAGGGCACATCATTTACAG
66 C-AAGGCACATCATTTGCAG
* * * *
7248 CATAACCCAAGGCTAGGAGGGTTATATGTCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-T
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
*
7311 CAAAGGCACATCCTTTGCAG
66 C-AAGGCACATCATTTGCAG
* * ** * * * * * *
7331 CATAGCTTAA-ATTGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGC-
1 CATAACTCAAGGCT-AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
* * *
7394 TCAGAGGAAAATTACATTTACAG
65 TCA-AGGCACA-T-CATTTGCAG
* * * *
7417 CATAGCTCAAAGCAAGAAGGGCTATCTG
1 CATAACTCAAGGCTAGAAGGGTTATCTG
7445 TCAATAAATT
Statistics
Matches: 625, Mismatches: 130, Indels: 42
0.78 0.16 0.05
Matches are distributed among these distances:
78 13 0.02
79 13 0.02
80 34 0.05
82 95 0.15
83 181 0.29
84 183 0.29
85 78 0.12
86 28 0.04
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (84 bp):
CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
CAAGGCACATCATTTGCAG
Found at i:7091 original size:250 final size:249
Alignment explanation
Indices: 6584--7396 Score: 885
Period size: 250 Copynumber: 3.3 Consensus size: 249
6574 CTATTGGTAC
* * *
6584 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAACTT
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGC-T
* * * * * * * * * *
6649 CGAGGGATATTATTTACATCATAACTTAAGGCTAGAAGGGTTATATACCAA-CAAAGACCTTCGA
65 CAAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCT-CCAACCAAAGACCTTCG-
* ** * * * * *
6713 AGTTCGACTATGCTCAGC-TC-AAGGCACATC-TTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
128 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAG-CTAGAAGGGTTAT
* * * * * * * *
6775 CTGCCAACCAAAGCCCTTCGAGTTTGATTACACTCAGCTTCGAGGGCAAATCATTTGCAG
192 CTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGC-TCAAAGGCAAATCATTTACAA
* * *
6835 CATAACTCAAGGCTAGAATGGTTATCTGCCAA-TAAAGACCTTCGAGCTCGACTACGCTCAGCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
*
6899 AAAGGCACATCATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGA
66 -AAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCT-CCAACCAAAGACCTTCGA
*
6964 GTTCGATTACACTCAGCTTCGAGGGTACATCATTTGCAGCATAACTCAATGCTAGAAGGGTTATC
129 GTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATC
* *
7029 TGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCA-TTACAA
193 TGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCAAATCATTTACAA
* *
7085 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTCGAGTTCGACTATGCTC-GCTC
1 CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT-
* * *
7149 CAAGGCACATAATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT---ACCAAAGACC-TCGGG
65 CAAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTCCAACCAAAGACCTTCGAG
* * * * *
7210 TTTGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACCCAAGGCTAGGAGGGTTATAT
130 TTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAA-GCTAGAAGGGTTATCT
* * * * *
7275 GTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACATCCTTTGCAG
194 GCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCAAATCATTTACAA
* * ** * * * * * *
7331 CATAGCTTAA-ATTGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACTCAGCT
1 CATAACTCAAGGCT-AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCT
7395 CA
65 CA
7397 GAGGAAAATT
Statistics
Matches: 482, Mismatches: 69, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
245 108 0.22
246 62 0.13
247 3 0.01
249 2 0.00
250 160 0.33
251 79 0.16
252 34 0.07
253 33 0.07
254 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (249 bp):
CATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
AAGGCACATAATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTCCAACCAAAGACCTTCGAGT
TCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTCAAGCTAGAAGGGTTATCTGC
CAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCAAATCATTTACAA
Found at i:7389 original size:413 final size:416
Alignment explanation
Indices: 6584--7444 Score: 1234
Period size: 413 Copynumber: 2.1 Consensus size: 416
6574 CTATTGGTAC
* *
6584 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTACGCTCAACTT
1 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTC
* * * * * *
6649 CGAGGGATATTATTTACATCATAACTTAAGGCTAGAAGGGTTATATACCAACAAAGACCTTCGAA
66 CAAGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATATACCAACAAAGACATTCGAA
*
6714 GTTCGACTATGCTCAGCTCAAGGCACATCTTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
131 GTTCGACTATGCTCAGCTCAAGGCACATATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT--
* * *
6779 CAACCAAAGCCCTTCGAGTTTGATTACACTCAGCTTCGAGGGCAAATCATTTGCAGCATAACTCA
194 C-ACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCAAATCATTTACAGCATAACCCA
* * *
6844 AGGCTAGAATGGTTATCTGCCAATAAAGACCTTCGAGCTCGACTACGCTCAGCTCAAAGGCACAT
258 AGGCTAGAAGGGTTATATGCCAACAAAGACCTTCGAGCTCGACTACGCTCAGCTCAAAGGCACAT
* * * * *
6909 CATTTGCAACATAGCTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGATTAC
323 CATTTGCAACATAGCTTAAATCGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTAC
6974 ACTCAGCTTCGAGGGTACATCATTTGCAG
388 ACTCAGCTTCGAGGGTACATCATTTGCAG
* * *
7003 CATAACTCAATGCTAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACGCTCAGCTC
1 CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTC
* *
7067 CAAGGCATATCA-TTACAACATAACTCAAGGCTAGAAGGGTTATCTGCCAACCAAAGACATTCG-
66 CAAGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATATACCAA-CAAAGACATTCGA
7130 AGTTCGACTATGCTC-GCTCCAAGGCACATAATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
130 AGTTCGACTATGCTCAGCT-CAAGGCACAT-ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
* *
7194 T-ACCAAAGACC-TCGGGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACCCA
193 TCACCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCAAATCATTTACAGCATAACCCA
* * *
7257 AGGCTAGGAGGGTTATATGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCAAAGGCACAT
258 AGGCTAGAAGGGTTATATGCCAACAAAGACCTTCGAGCTCGACTACGCTCAGCTCAAAGGCACAT
* * *
7322 CCTTTGCAGCATAGCTTAAATTGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTAC
323 CATTTGCAACATAGCTTAAATCGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTAC
* * *
7387 ACTCAGC-TC-AGAGGAAAATTACATTTACAG
388 ACTCAGCTTCGAG-GGTACA-T-CATTTGCAG
* * *
7417 CATAGCTCAAAGCAAGAAGGGCTATCTG
1 CATAACTCAAGGCAAGAAGGGTTATCTG
7445 TCAATAAATT
Statistics
Matches: 396, Mismatches: 40, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
411 2 0.01
412 6 0.02
413 172 0.43
414 41 0.10
416 3 0.01
417 59 0.15
418 83 0.21
419 30 0.08
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (416 bp):
CATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAACTC
CAAGGCATATCATTTACAACATAACTCAAGGCTAGAAGGGTTATATACCAACAAAGACATTCGAA
GTTCGACTATGCTCAGCTCAAGGCACATATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTCA
CCAAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCAAATCATTTACAGCATAACCCAAGG
CTAGAAGGGTTATATGCCAACAAAGACCTTCGAGCTCGACTACGCTCAGCTCAAAGGCACATCAT
TTGCAACATAGCTTAAATCGAGAAAGGCTATCTACCAACAAAAGACCTTCGAGTTCGATTACACT
CAGCTTCGAGGGTACATCATTTGCAG
Found at i:9105 original size:5 final size:5
Alignment explanation
Indices: 9095--9165 Score: 56
Period size: 5 Copynumber: 13.4 Consensus size: 5
9085 TATATATATA
* *
9095 TTATT TTATT TTATT TTAATCCT TT-TA TTATT CT-TT TTATTT GTTCATT
1 TTATT TTATT TTATT TT-AT--T TTATT TTATT TTATT TTA-TT -TT-ATT
9144 TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TT
9166 TTGTTTTAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
4 5 0.09
5 34 0.63
6 7 0.13
7 4 0.07
8 4 0.07
ACGTcount: A:0.18, C:0.06, G:0.01, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:9346 original size:17 final size:17
Alignment explanation
Indices: 9320--9370 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
9310 CTCTTTTTTA
9320 TTTA-TTTATTTATATT
1 TTTATTTTATTTATATT
*
9336 TTTATTTTATTTTTATT
1 TTTATTTTATTTATATT
* *
9353 ATTATTTAATATTATATT
1 TTTATTTTAT-TTATATT
9371 ATATACCTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 4 0.14
17 19 0.66
18 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTTATTTATATT
Found at i:9589 original size:17 final size:16
Alignment explanation
Indices: 9569--9617 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
9559 ATTAATTTTT
9569 TTATTATTTTTCGTTTA
1 TTATTATTTTT-GTTTA
*
9586 TTATTTTTTTTGTTTTA
1 TTATTATTTTTG-TTTA
*
9603 TTTTTATTTTTGTTT
1 TTATTATTTTTGTTT
9618 CTGTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.12, C:0.02, G:0.06, T:0.80
Consensus pattern (16 bp):
TTATTATTTTTGTTTA
Found at i:9606 original size:5 final size:5
Alignment explanation
Indices: 9586--9760 Score: 59
Period size: 5 Copynumber: 32.4 Consensus size: 5
9576 TTTTCGTTTA
* * *
9586 TTATT TT-TT TTGTT TTATTT TTATTT TTGTT TCTGTT TTATTT TCTATT
1 TTATT TTATT TTATT TTA-TT TTA-TT TTATT T-TATT TTA-TT T-TATT
* ** * * * *
9635 TAATT CCATT TTTTCT TTTATT TTTATT TTATT TCTTTT TTGGTT TTGTT
1 TTATT TTATT TTAT-T T-TATT -TTATT TTATT T-TATT TT-ATT TTATT
* * *
9685 TTTTGT TTTTT TTTATT TTA-T TTATT TTATT TTGTTT TTATT TTATTT
1 TTAT-T TTATT T-TATT TTATT TTATT TTATT TT-ATT TTATT TTA-TT
*
9733 TTATT TT-TAC TTATT TTATT ATTATT TT
1 TTATT TTAT-T TTATT TTATT -TTATT TT
9761 TCTTTGTCGT
Statistics
Matches: 134, Mismatches: 18, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
4 9 0.07
5 60 0.45
6 60 0.45
7 5 0.04
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (5 bp):
TTATT
Found at i:9607 original size:6 final size:6
Alignment explanation
Indices: 9598--9761 Score: 74
Period size: 6 Copynumber: 26.7 Consensus size: 6
9588 ATTTTTTTTG
* * *
9598 TTTTAT TTTTAT TTTTGT TTCT-G TTTTAT TTTCTAT TTAATTCCAT TTTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT TT--TT--AT TTTTAT
* ** *
9649 CTTTTAT TTTTA- TTTTAT TTCT-T TTTTGG TTTTGT TTTT-T GTTTT-T
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT -TTTTAT
* *
9695 TTTTA- TTTTAT TTATTTT ATTTTGT TTTTA- TTTTAT TTTTAT TTTTACTT
1 TTTTAT TTTTAT TT-TTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTA--T
*
9745 ATTTTAT TATTAT TTTT
1 -TTTTAT TTTTAT TTTT
9762 CTTTGTCGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 38
0.71 0.08 0.21
Matches are distributed among these distances:
5 28 0.22
6 68 0.54
7 13 0.10
8 6 0.05
9 6 0.05
10 4 0.03
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:9697 original size:9 final size:9
Alignment explanation
Indices: 9645--9761 Score: 60
Period size: 9 Copynumber: 12.6 Consensus size: 9
9635 TAATTCCATT
9645 TTTTCTTTTA
1 TTTT-TTTTA
9655 TTTTTATTTTA
1 -TTTT-TTTTA
*
9666 TTTCTTTT-
1 TTTTTTTTA
** *
9674 TTGGTTTTG
1 TTTTTTTTA
*
9683 TTTTTTGT-
1 TTTTTTTTA
9691 TTTTTTTTA
1 TTTTTTTTA
*
9700 TTTTATTTA
1 TTTTTTTTA
*
9709 TTTTATTTTG
1 TTTT-TTTTA
*
9719 TTTTTATT-
1 TTTTTTTTA
*
9727 TTATTTTTA
1 TTTTTTTTA
*
9736 TTTTTACTTA
1 TTTTT-TTTA
9746 TTTTATTATTA
1 TTTT-TT-TTA
9757 TTTTT
1 TTTTT
9762 CTTTGTCGTT
Statistics
Matches: 82, Mismatches: 17, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
8 19 0.23
9 28 0.34
10 18 0.22
11 17 0.21
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:9708 original size:4 final size:5
Alignment explanation
Indices: 9645--9760 Score: 71
Period size: 5 Copynumber: 22.8 Consensus size: 5
9635 TAATTCCATT
* * * * *
9645 TTTTC TTTTA TTTTTA TTTTA TTTCTT TTTTGG TTTTG TTTT- TTGT-
1 TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTT-A TTTTA TTTTA TTTTA
*
9691 TTTT- TTTTA TTTTA -TTTA TTTTA TTTTGT TTTTA TTTTA TTTTTA TTTT-
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTT-A TTTTA TTTTA -TTTTA TTTTA
*
9740 TACTTA TTTTA TTATTA TTTT
1 T-TTTA TTTTA TT-TTA TTTT
9761 TCTTTGTCGT
Statistics
Matches: 92, Mismatches: 9, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
4 15 0.16
5 49 0.53
6 28 0.30
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:9712 original size:25 final size:25
Alignment explanation
Indices: 9685--9732 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9675 TGGTTTTGTT
*
9685 TTTTGTTTT-TTTTTATTTTATTTA
1 TTTTATTTTGTTTTTATTTTATTTA
9709 TTTTATTTTGTTTTTATTTTATTT
1 TTTTATTTTGTTTTTATTTTATTT
9733 TTATTTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.12, C:0.00, G:0.04, T:0.83
Consensus pattern (25 bp):
TTTTATTTTGTTTTTATTTTATTTA
Found at i:9729 original size:21 final size:20
Alignment explanation
Indices: 9645--9761 Score: 85
Period size: 21 Copynumber: 5.5 Consensus size: 20
9635 TAATTCCATT
*
9645 TTTTCTTTTATTTTTATTTTA
1 TTTTATTTT-TTTTTATTTTA
* *
9666 TTTCT-TTTTTGGTTTTGTTTTT
1 TTT-TATTTTT--TTTTATTTTA
*
9688 TGTTTTTTTTTATTTTA-TTTA
1 T-TTTATTTTT-TTTTATTTTA
9709 TTTTATTTTGTTTTTATTTTA
1 TTTTATTTT-TTTTTATTTTA
**
9730 TTTTTATTTTTACTTATTTTA
1 -TTTTATTTTTTTTTATTTTA
9751 TTATTATTTTT
1 TT-TTATTTTT
9762 CTTTGTCGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
20 15 0.19
21 33 0.42
22 24 0.30
23 7 0.09
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTTTTTATTTTA
Found at i:9757 original size:11 final size:10
Alignment explanation
Indices: 9645--9760 Score: 71
Period size: 11 Copynumber: 11.4 Consensus size: 10
9635 TAATTCCATT
*
9645 TTTTCTTTTA
1 TTTTATTTTA
9655 TTTTTATTTTA
1 -TTTTATTTTA
* *
9666 TTTCTTTTTTGG
1 TTT-TATTTT-A
*
9678 TTTTGTTTT-
1 TTTTATTTTA
*
9687 TTGT-TTTT-
1 TTTTATTTTA
9695 TTTTATTTTA
1 TTTTATTTTA
9705 -TTTATTTTA
1 TTTTATTTTA
*
9714 TTTTGTTTTTA
1 TTTT-ATTTTA
9725 TTTTATTTTTA
1 TTTTA-TTTTA
*
9736 TTTT-TACTTA
1 TTTTAT-TTTA
9746 TTTTATTATTA
1 TTTTATT-TTA
9757 TTTT
1 TTTT
9761 TCTTTGTCGT
Statistics
Matches: 85, Mismatches: 10, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
8 7 0.08
9 17 0.20
10 13 0.15
11 45 0.53
12 3 0.04
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.80
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:12294 original size:28 final size:28
Alignment explanation
Indices: 12258--12325 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
12248 CCTAAATTAA
*
12258 GTATTAGTGACACGTGTTATGATATTTG
1 GTATTAGTGACACGTGTCATGATATTTG
12286 GTATTAGTGACACGTGTCATGATATTTG
1 GTATTAGTGACACGTGTCATGATATTTG
*
12314 ATATTAGTGACA
1 GTATTAGTGACA
12326 TATGGCATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (28 bp):
GTATTAGTGACACGTGTCATGATATTTG
Found at i:12334 original size:28 final size:28
Alignment explanation
Indices: 12259--12336 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
12249 CTAAATTAAG
* ** *
12259 TATTAGTGACACGTGTTATGATATTTGG
1 TATTAGTGACACATGGCATGATATTTGA
* *
12287 TATTAGTGACACGTGTCATGATATTTGA
1 TATTAGTGACACATGGCATGATATTTGA
*
12315 TATTAGTGACATATGGCATGAT
1 TATTAGTGACACATGGCATGAT
12337 CTGATTCGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (28 bp):
TATTAGTGACACATGGCATGATATTTGA
Found at i:24222 original size:2 final size:2
Alignment explanation
Indices: 24215--24259 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
24205 GTGGTAGAGA
24215 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24257 AT A
1 AT A
24260 AGAAAAGCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26164 original size:21 final size:21
Alignment explanation
Indices: 26113--26165 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
26103 ATTCTGACTA
26113 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * * *
26134 TTGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
26155 TCGCAATGCGA
1 TCGCATTGCGA
26166 ATACGTAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:26786 original size:19 final size:19
Alignment explanation
Indices: 26759--26904 Score: 132
Period size: 19 Copynumber: 8.1 Consensus size: 19
26749 GAAATGACTA
*
26759 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26778 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
* *
26792 TCTCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
26811 TCGCGTTGAGATTTTCATT
1 TCGCGTTGCGATTTTCATT
26830 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
26844 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
26863 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
26883 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
26903 TC
1 TC
26905 AACCAAAAGA
Statistics
Matches: 102, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
14 19 0.19
16 5 0.05
17 6 0.06
19 39 0.38
20 32 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:26830 original size:52 final size:52
Alignment explanation
Indices: 26759--26896 Score: 195
Period size: 52 Copynumber: 2.6 Consensus size: 52
26749 GAAATGACTA
* **
26759 TCGCATTGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCAATAGTCATT
* * *
26811 TCGCGTTGAGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCAATAGTCATT
*
26863 TCCGCGTTGCGATTTTCATTCTCTCGTTGCGATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATT
26897 TTCATTTCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
52 47 0.62
53 17 0.22
54 12 0.16
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.44
Consensus pattern (52 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCTCGTTGCAATAGTCATT
Found at i:28783 original size:94 final size:92
Alignment explanation
Indices: 28593--28818 Score: 359
Period size: 94 Copynumber: 2.5 Consensus size: 92
28583 TAGATTGCTT
*
28593 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGTTTATTAACACTGTGAAGTTAGTAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTTTATTAACACTGTGAAGTTAGTAT
28656 TTGTCTTTTGTTTTGTCTTTTGGTTGA
66 TTGTCTTTTGTTTTGTCTTTTGGTTGA
* *
28683 AGTAAATTTATTAGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGT-TT-ATTAACACTGTGAAGTTAGT
28748 ATTTGTC-TTTGTTTTGTCTTTTGGTTGAA
64 ATTTGTCTTTTGTTTTGTCTTTTGGTTG-A
* *
28777 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTT
28819 GCAAGTTTGA
Statistics
Matches: 125, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
90 34 0.27
92 3 0.02
93 23 0.18
94 65 0.52
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.46
Consensus pattern (92 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTTTATTAACACTGTGAAGTTAGTAT
TTGTCTTTTGTTTTGTCTTTTGGTTGA
Found at i:29200 original size:21 final size:21
Alignment explanation
Indices: 29176--29242 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
29166 TCATTCCTCG
29176 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
29197 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
29218 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
29239 AGAG
1 AGAG
29243 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:29200 original size:42 final size:42
Alignment explanation
Indices: 29124--29242 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
29114 AACTCGCCTG
* * * * * * *
29124 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
29166 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
29208 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
29243 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:30602 original size:14 final size:14
Alignment explanation
Indices: 30583--30618 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
30573 ATTGTTTAAT
30583 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
30597 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
30611 TGATTTGT
1 TGATTTGT
30619 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:30770 original size:33 final size:33
Alignment explanation
Indices: 30725--30804 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
30715 AAAAATGACT
* * *
30725 ATCGCAATGCGAAATGAAAATCGCAACGATAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
30758 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
30791 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
30805 CTAAATTCGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:30784 original size:19 final size:19
Alignment explanation
Indices: 30725--30785 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
30715 AAAAATGACT
*
30725 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
30744 ATCGCAA--CG--AT-AGA
1 ATCGCAACGCGAAATGAAA
30758 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
30777 ATCGCAACG
1 ATCGCAACG
30786 ACAAAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 9 0.26
15 2 0.06
16 2 0.06
17 2 0.06
18 2 0.06
19 18 0.51
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:30832 original size:19 final size:19
Alignment explanation
Indices: 30810--30940 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
30800 CGAAACTAAA
30810 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
30829 TTCGCTTTGTGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
30844 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
30862 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
30877 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
30895 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
30910 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
30928 TTCGCATTGCGAT
1 TTCGCGTTGCGAT
30941 AGTCATTTCC
Statistics
Matches: 80, Mismatches: 17, Indels: 30
0.63 0.13 0.24
Matches are distributed among these distances:
14 25 0.31
16 9 0.11
17 9 0.11
19 37 0.46
ACGTcount: A:0.11, C:0.24, G:0.19, T:0.46
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:30856 original size:33 final size:33
Alignment explanation
Indices: 30814--30940 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
30804 ACTAAATTCG
* * *
30814 CGTTGCGATTTTCATTTCGCTTTGTGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
30847 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
30880 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
30913 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
30941 AGTCATTTCC
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:30887 original size:14 final size:14
Alignment explanation
Indices: 30868--30922 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
30858 TCATTTCGCA
30868 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
30882 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
30899 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
30915 TTGCGATT
1 TTGCGATT
30923 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 14 0.41
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:30949 original size:19 final size:17
Alignment explanation
Indices: 30857--30940 Score: 72
Period size: 17 Copynumber: 5.1 Consensus size: 17
30847 CGTTGCGATT
30857 TTCATTTCGCATTGCGA
1 TTCATTTCGCATTGCGA
*
30874 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
30888 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
*
30907 TTC-TCTCG--TTGCGA
1 TTCATTTCGCATTGCGA
30921 TTTTCATTTCGCATTGCGA
1 --TTCATTTCGCATTGCGA
30940 T
1 T
30941 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 4, Indels: 20
0.69 0.05 0.26
Matches are distributed among these distances:
14 12 0.23
16 14 0.26
17 15 0.28
19 12 0.23
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (17 bp):
TTCATTTCGCATTGCGA
Found at i:31006 original size:20 final size:20
Alignment explanation
Indices: 30934--31006 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
30924 TCATTTCGCA
*
30934 TTGCGATAGTCATTTCCTTG
1 TTGCGATAGTCATTTCCATG
* *** *
30954 TTGCGATAGACATTAAAATAA
1 TTGCGATAGTCATTTCCAT-G
*
30975 TTGCGA-ACGTCATTTCCGTG
1 TTGCGATA-GTCATTTCCATG
30995 TTGCGATAGTCA
1 TTGCGATAGTCA
31007 AAAGAATGCC
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCATG
Found at i:33512 original size:24 final size:24
Alignment explanation
Indices: 33478--33531 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
33468 CTGAAAAATC
33478 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
33502 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
33526 ATCAAA
1 ATCAAA
33532 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:33545 original size:24 final size:24
Alignment explanation
Indices: 33478--33545 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
33468 CTGAAAAATC
* * *
33478 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
33502 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
33526 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
33546 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:35719 original size:2 final size:2
Alignment explanation
Indices: 35706--35738 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
35696 GGAAGTTAAG
*
35706 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35739 GAATTGAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:43806 original size:16 final size:16
Alignment explanation
Indices: 43769--43810 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 16
43759 GACATGACCC
*
43769 GTTGACTTTGATCAGA
1 GTTGACTTTGACCAGA
43785 ---GACTTTGACCAGA
1 GTTGACTTTGACCAGA
43798 GTTGACTTTGACC
1 GTTGACTTTGACC
43811 CGAAAAGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
13 12 0.55
16 10 0.45
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (16 bp):
GTTGACTTTGACCAGA
Found at i:45938 original size:2 final size:2
Alignment explanation
Indices: 45927--46009 Score: 159
Period size: 2 Copynumber: 42.0 Consensus size: 2
45917 AGGTGTGGAG
45927 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46010 GCTCAAACTT
Statistics
Matches: 80, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 79 0.99
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:51957 original size:20 final size:20
Alignment explanation
Indices: 51921--51959 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51911 TCAAAAAAAT
**
51921 AATTTAAATATCTATTTGAA
1 AATTTAAATATAGATTTGAA
51941 AATTTAAATATAGATTTGA
1 AATTTAAATATAGATTTGA
51960 TAGTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (20 bp):
AATTTAAATATAGATTTGAA
Found at i:53142 original size:23 final size:23
Alignment explanation
Indices: 53111--53190 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
53101 TAAAAATCTT
53111 TGTCCTTGTGACACACTTTTCTC
1 TGTCCTTGTGACACACTTTTCTC
* **
53134 TGTCTTTGTGACACGTTTTTCTC
1 TGTCCTTGTGACACACTTTTCTC
*
53157 TG-CACTTGTGGCACACTTTTTCTC
1 TGTC-CTTGTGACACAC-TTTTCTC
*
53181 TGTCATTGTG
1 TGTCCTTGTG
53191 GCACGATCCT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
22 1 0.02
23 30 0.65
24 14 0.30
25 1 0.02
ACGTcount: A:0.11, C:0.25, G:0.17, T:0.46
Consensus pattern (23 bp):
TGTCCTTGTGACACACTTTTCTC
Found at i:53181 original size:24 final size:24
Alignment explanation
Indices: 53115--53194 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 24
53105 AATCTTTGTC
* *
53115 CTTGTGACACAC-TTTTCTCTG-T
1 CTTGTGGCACACTTTTTCTCTGCA
53137 CTT-TGTG-ACACGTTTTTCTCTGCA
1 CTTGTG-GCACAC-TTTTTCTCTGCA
53161 CTTGTGGCACACTTTTTCTCTGTCA
1 CTTGTGGCACACTTTTTCTCTG-CA
53186 -TTGTGGCAC
1 CTTGTGGCAC
53195 GATCCTTATG
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
21 6 0.12
22 3 0.06
23 9 0.18
24 23 0.47
25 8 0.16
ACGTcount: A:0.12, C:0.26, G:0.17, T:0.44
Consensus pattern (24 bp):
CTTGTGGCACACTTTTTCTCTGCA
Found at i:58992 original size:8 final size:8
Alignment explanation
Indices: 58979--59019 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
58969 CTCATTTTCA
58979 GAGAATTT
1 GAGAATTT
58987 GAGAATTT
1 GAGAATTT
*
58995 -AGAGTTT
1 GAGAATTT
*
59002 GGGAATTT
1 GAGAATTT
59010 GAGAATTT
1 GAGAATTT
59018 GA
1 GA
59020 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:59321 original size:128 final size:127
Alignment explanation
Indices: 59090--59378 Score: 569
Period size: 128 Copynumber: 2.3 Consensus size: 127
59080 TAATCGGAGT
59090 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAAGAATATGTTATC
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAAGAATATGTTATC
59155 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
66 ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
59217 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTAT
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCA-AGAATATGTTAT
59282 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
65 CATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
59345 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG
1 ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCG
59379 ATTTTCTGAG
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
127 52 0.32
128 109 0.68
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (127 bp):
ACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAAGAATATGTTATC
ATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTC
Found at i:60037 original size:34 final size:34
Alignment explanation
Indices: 59999--60099 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
59989 AAATTTAATG
*
59999 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
* * * *
60033 TTAAATTTCGAATAATATTATTTTTATTTTTATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
60067 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
60100 AAAATTTATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:60648 original size:21 final size:21
Alignment explanation
Indices: 60618--60690 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
60608 TATGGTATAA
*
60618 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
60639 AACCCGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTAGGAATGT
*
60660 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
60681 AACCCTGCGG
1 AACCCTGCGG
60691 AGATGGCATA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.21, C:0.29, G:0.34, T:0.16
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:60721 original size:21 final size:21
Alignment explanation
Indices: 60695--60741 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
60685 CTGCGGAGAT
*
60695 GGCATATAAACTGGTGGGCTC
1 GGCATATAAACTGGAGGGCTC
* * *
60716 GGCATATGAAGTGGAGGGCTG
1 GGCATATAAACTGGAGGGCTC
60737 GGCAT
1 GGCAT
60742 GTACCCCTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.40, T:0.21
Consensus pattern (21 bp):
GGCATATAAACTGGAGGGCTC
Found at i:62508 original size:34 final size:32
Alignment explanation
Indices: 62470--62553 Score: 89
Period size: 34 Copynumber: 2.6 Consensus size: 32
62460 AATTCTAATT
62470 AAATAATAATTATATAAATATTATTTTAATA-AAA
1 AAATAATAATTATATAAATA-TA--TTAATATAAA
* *
62504 AAATAATATTTACATAAATATATTAATATAAA
1 AAATAATAATTATATAAATATATTAATATAAA
* * *
62536 ATATAATAACTATTTAAA
1 AAATAATAATTATATAAA
62554 AAATACTAAC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
31 6 0.14
32 16 0.38
33 2 0.05
34 18 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (32 bp):
AAATAATAATTATATAAATATATTAATATAAA
Found at i:62530 original size:31 final size:34
Alignment explanation
Indices: 62470--62544 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 34
62460 AATTCTAATT
*
62470 AAATAATAATTATATAAATATTATTTTAATA-AAA
1 AAATAATAATTACATAAATATTA-TTTAATATAAA
*
62504 AAATAATATTTACATAAATA-TA-TTAATATAAA
1 AAATAATAATTACATAAATATTATTTAATATAAA
*
62536 ATATAATAA
1 AAATAATAA
62545 CTATTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 6 0.17
32 10 0.28
33 2 0.06
34 18 0.50
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATAATAATTACATAAATATTATTTAATATAAA
Found at i:63066 original size:2 final size:2
Alignment explanation
Indices: 63059--63087 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
63049 TGTCAGTGAC
63059 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
63088 CTTACCAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64130 original size:2 final size:2
Alignment explanation
Indices: 64123--64157 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
64113 ATTCACACTT
64123 TA 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 TA T
64158 GCGTGGAGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:66157 original size:21 final size:21
Alignment explanation
Indices: 66133--66174 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
66123 CAAAAAAACT
66133 AAAAAAACGTGTCA-AAAGAC
1 AAAAAAACGTGTCATAAAGAC
*
66153 AAAAAAATGTGTCATAAAGAC
1 AAAAAAACGTGTCATAAAGAC
66174 A
1 A
66175 TGATTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.12, G:0.14, T:0.14
Consensus pattern (21 bp):
AAAAAAACGTGTCATAAAGAC
Done.