Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018398944.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_2226.0, 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: 4043
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.36
Warning! 205 characters in sequence are not A, C, G, or T
Found at i:467 original size:164 final size:164
Alignment explanation
Indices: 297--612 Score: 406
Period size: 164 Copynumber: 1.9 Consensus size: 164
287 NNNNNNNNNN
* * ** *
297 TAAAAATATTTAAGGCGAGTAATAAGGCTTTTGAAGGCAT-GATCGACTATAAAGGGTCTTTCTT
1 TAAAAATATTTAAAGCGAATAATAACACTTTTGAAGGCATGGAT-GACTATAAAGGATCTTTCTT
** * * *
361 GGATATCTTTTTCTTCATGTTTCTTAAGG-CGAATATTTAATTATTATCTATTTTAA-CTAAAAA
65 GGATATCTTTTTCTTCACATTTCTCAAGGAAG-ATATTCAATTATTATCTATTTTAATC-AAAAA
* *
424 AGTAACAAA-ATTTAATTTAAAATCAGTTATGAGGTAA
128 AGTAA-AAACATTCAACTTAAAATCAGTTATGAGGTAA
* * * *
461 TAAAAATGTTTAAAGCGAATAATAACACTTTTGAAGGCATGGGTGACTATAAATGATCTTTTTTG
1 TAAAAATATTTAAAGCGAATAATAACACTTTTGAAGGCATGGATGACTATAAAGGATCTTTCTTG
* *
526 GATATCTTTTTCTTCACATTTCTCAAGGAAGATATTCAATTATTATCTGTTTTAATCAAAAATGT
66 GATATCTTTTTCTTCACATTTCTCAAGGAAGATATTCAATTATTATCTATTTTAATCAAAAAAGT
591 AAAAACATTCAACTTAAAATCA
131 AAAAACATTCAACTTAAAATCA
613 NNNNNNNNNN
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
163 3 0.02
164 123 0.95
165 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.38
Consensus pattern (164 bp):
TAAAAATATTTAAAGCGAATAATAACACTTTTGAAGGCATGGATGACTATAAAGGATCTTTCTTG
GATATCTTTTTCTTCACATTTCTCAAGGAAGATATTCAATTATTATCTATTTTAATCAAAAAAGT
AAAAACATTCAACTTAAAATCAGTTATGAGGTAA
Found at i:1063 original size:172 final size:171
Alignment explanation
Indices: 803--2235 Score: 997
Period size: 172 Copynumber: 8.5 Consensus size: 171
793 NNNNNNAGCA
* * * * * *
803 AGTAATAAGGCTTTCGAAGGCATGGGTGGCTATAAATGGACTTTTCTTACAAATGCATATTTTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
** *
868 TCTTCACATTTCTCATGGTAGACATTCAATTATAATCTGTTTTAATAAAAATTATAAAAAAAATT
66 TCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAA-TATAAAAAAAATT
* * *
933 CAGCTAAAAATTAATTATGAGATTATAAAATTATTTAAAGCG
130 CAACTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCG
* * *
975 AGTAATCAGGCTTTCGAAGTCATAGGTGACTATAAATGGACTTTTCTTGCTAATGGATATCTTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
* **** * * * *
1040 T-TTCATGTTTTTTTTTTGTAGACATACAATTATATTCTATTTTAATAGAAAATGTAAAAAAAAT
66 TCTTCATG-TTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATA-AAAATATAAAAAAAAT
* *
1104 TCAATTTAAAATCAATTATGAGATTATAAAATCATTTAAAGCG
129 TCAACTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCG
* ********************** *
1147 CGTNNNNNNNNNNNNNNNNNNNNNNGTGACTATAAATAGACTTTTCTTGCCAATGGATATCTTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
* * ** *
1212 TCTTCATGTTTCTTAAGGTAGACATACAATTATGTTTTGTTTTAATAAAAA-ATATAAAAAAATT
66 TCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAATATA-AAAAAAATT
********** * *
1276 CAACTTAAANNNNNNNNNNAGATTATAAAATCATTTAAAGTG
130 CAACTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCG
* * *
1318 TGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGAAACTTTTCTTGCCAATGGATTTCTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATG-GACTTTTCTTGCCAATGGATATCTTT
********** *
1383 TTCTTCATGTTTCTCAAGGTAGNNNNNNNNNNATAATCTGTTTTAATAAAAA-ATATACAAAAAT
65 TTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAATATA-AAAAAAAT
* * * *
1447 TTAACCTAAAATCAATTAT-ACGATTATAAAAATATTTAAGGCG
129 TCAACTTAAAATCAATTATGA-GATTATAAAATTATTTAAAGCG
* * * * * *
1490 AGTAATAAGGCTTTTGAAGGCATGGATGATTATAAAT-TACCTTT-TTG-----GGATATCTTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
* * * * * *
1548 TCTTCATGTTTC-CTAA-GTTGAACATTCAATTATTATCTATTTTAACTAAATATGT-AATAAAA
66 TCTTCATGTTTCTC-AAGGTAG-ACATTCAATTATAATCTGTTTTAA-TAAAAATATAAAAAAAA
* * * *
1610 TTCAATTTAAAATCATTTATGAGATAATAAAA--ACGTTAAAGCG
128 TTCAACTTAAAATCAATTATGAGATTATAAAATTA-TTTAAAGCG
* * * **********
1653 AATAATAAGGCTTTTGAAGGCATGGGTGACTA-NNNNNNNNNNTT-TT-----TGGATATCTTTT
1 AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
* * * *
1711 TCTTCATGTTTCTCAAGGTAAACATTAAATTATTATCTGTTTTAATCAAAAATAT-AAAAATATT
66 TCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAAATT
** * * * *
1775 TGACTTAAAATCAATTATTAGATTAGAAAAATATTTAAAGTG
130 CAACTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCG
* * *
1817 AGTAATAAGGCTTTCGAAGGT-ATGGGTGACTACAAATGGGCTTTTCTTACCAATGGATATCTTT
1 AGTAATAAGGCTTTCGAA-GTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTT
* ** * * * * *
1881 TT-TTCTTGTTTCTTGAGGCAGACATTCAATTATTATCTAG-TTTAACTAAAAATGTAAAAATAT
65 TTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCT-GTTTTAA-TAAAAATATAAAAAAAA
1944 TTC-ACTTAAAATCAATTATGAGATTATAATAA-TATTTAAAGCG
128 TTCAACTTAAAATCAATTATGAGATTATAA-AATTATTTAAAGCG
* * ********** *
1987 AGTAAAAAGGTTTTCGAAGGT-ATGGGTGACTANNNNNNNNNNTTTCTTACCAATGGATATCTTT
1 AGTAATAAGGCTTTCGAA-GTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTT
* * * *
2051 TTCCTCATGTTTCTCGAGGTAGACATTCAATTTTAATATGTTTTAATGAAAAATAT-AAAAAAAT
65 TTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAAT-AAAAATATAAAAAAAAT
* * *
2115 TTAACTAAAAATTAATTATGA-AGTTATAAAATTATTTAAAGCG
129 TCAACTTAAAATCAATTATGAGA-TTATAAAATTATTTAAAGCG
* * * * * *
2158 AGTAGTAATGCTTTCAAAAG-CATGTGTGACTATAAATGAACTTTTCTTGTCAATGGATATCTTT
1 AGTAATAAGGCTTTC-GAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTT
*
2222 TTCTTCATTTTTCT
65 TTCTTCATGTTTCT
2236 TGTTAATGGA
Statistics
Matches: 965, Mismatches: 257, Indels: 79
0.74 0.20 0.06
Matches are distributed among these distances:
162 2 0.00
163 127 0.13
164 103 0.11
165 10 0.01
166 3 0.00
169 3 0.00
170 149 0.15
171 213 0.22
172 345 0.36
173 10 0.01
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.37
Consensus pattern (171 bp):
AGTAATAAGGCTTTCGAAGTCATGGGTGACTATAAATGGACTTTTCTTGCCAATGGATATCTTTT
TCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTGTTTTAATAAAAATATAAAAAAAATTC
AACTTAAAATCAATTATGAGATTATAAAATTATTTAAAGCG
Found at i:1642 original size:164 final size:161
Alignment explanation
Indices: 1453--2018 Score: 518
Period size: 163 Copynumber: 3.4 Consensus size: 161
1443 AAATTTAACC
* *
1453 TAAAATCAATTAT-ACGATTATAAAAATATTTAAGGCGAGTAATAAGGCTTTTGAAGGCATGGAT
1 TAAAATCAATTATGA-GATTATAAAAATATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGT
* * *
1517 GATTATAAATTACCTTTTTGGGATATCTTTTTCTTCATGTTTCCTAAGTTGAACATTCAATTATT
65 GACTACAAATGACCTTTTT-GGATATCTTTTTCTTCATGTTTCCTAAG-TGAACATTCAATTATT
* *
1582 ATCTATTTTAACTAAATATGTAATAAA-ATTCAATT
128 ATCTATTTTAACTAAAAATGTAA-AAATATTC-ACT
* * ** *
1617 TAAAATCATTTATGAGATAATAAAAA-CGTTAAAGCGAATAATAAGGCTTTTGAAGGCATGGGTG
1 TAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTG
********* * *
1681 ACTANNNNNNNNNNTTTTTGGATATCTTTTTCTTCATGTTT-CTCAAGGTAAACATTAAATTATT
66 ACTA-CAAATGACCTTTTTGGATATCTTTTTCTTCATGTTTCCT-AA-GTGAACATTCAATTATT
* * *
1745 ATCTGTTTTAA-TCAAAAATATAAAAATATTTGACT
128 ATCTATTTTAACT-AAAAATGTAAAAATA-TTCACT
* * * * *
1780 TAAAATCAATTATTAGATTAGAAAAATATTTAAAGTGAGTAATAAGGCTTTCGAAGGTATGGGTG
1 TAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTG
* * * * *
1845 ACTACAAATGGGCTTTTCTTACCAATGGATATCTTTTT-TTCTTGTTTCTTGAG-GCAGACATTC
66 ACTACAAAT-GAC-CTT-TT-----TGGATATCTTTTTCTTCATGTTTCCTAAGTG-A-ACATTC
*
1908 AATTATTATCTAGTTTAACTAAAAATGTAAAAATATTTCACT
121 AATTATTATCTATTTTAACTAAAAATGTAAAAATA-TTCACT
* * *
1950 TAAAATCAATTATGAGATTATAATAATATTTAAAGCGAGTAAAAAGG-TTTTCGAAGGTATGGGT
1 TAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTTTT-GAAGGCATGGGT
2014 GACTA
65 GACTA
2019 NNNNNNNNNN
Statistics
Matches: 323, Mismatches: 58, Indels: 36
0.77 0.14 0.09
Matches are distributed among these distances:
162 6 0.02
163 117 0.36
164 66 0.20
165 3 0.01
166 2 0.01
169 5 0.02
170 109 0.34
171 15 0.05
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (161 bp):
TAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGCTTTTGAAGGCATGGGTG
ACTACAAATGACCTTTTTGGATATCTTTTTCTTCATGTTTCCTAAGTGAACATTCAATTATTATC
TATTTTAACTAAAAATGTAAAAATATTCACT
Found at i:1941 original size:170 final size:172
Alignment explanation
Indices: 1699--2235 Score: 602
Period size: 171 Copynumber: 3.1 Consensus size: 172
1689 NNNNNNTTTT
* * *
1699 TGGATATCTTTTTCTTCATGTTTCTCAAGGTAAACATTAAATTATTATCT-GTTTTAATCAAAAA
1 TGGATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATTATCTAGTTTTAATCAAAAA
* * * *
1763 TATAAAAATATTTGACTTAAAATCAATTATTAGATTAGAAAAATATTTAAAGTGAGTAATAAGGC
66 TATAAAAATATTTAACTTAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGC
**
1828 TTTCGAAGGTATGGGTGACTACAAATGGGCTTTTCTTACCAA
131 TTTCGAAGGTATGGGTGACTACAAATGAACTTTTCTTACCAA
* * *
1870 TGGATATCTTTTT-TTCTTGTTTCTTGAGGCAGACATTCAATTATTATCTAG-TTTAA-CTAAAA
1 TGGATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATTATCTAGTTTTAATC-AAAA
* * * *
1932 ATGTAAAAATATTTCACTTAAAATCAATTATGAGATTATAATAATATTTAAAGCGAGTAAAAAGG
65 ATATAAAAATATTTAACTTAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGG
* **********
1997 TTTTCGAAGGTATGGGTGACTANNNNNNNNNNTTTCTTACCAA
130 CTTTCGAAGGTATGGGTGACTACAAATGAACTTTTCTTACCAA
* * *
2040 TGGATATCTTTTTCCTCATGTTTCTCGAGGTAGACATTCAATT-TTA-ATATGTTTTAATGAAAA
1 TGGATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATTATCTA-GTTTTAATCAAAA
* * * * * *
2103 ATATAAAAAAATTTAACTAAAAATTAATTATGA-AGTTATAAAATTATTTAAAGCGAGTAGTAAT
65 ATATAAAAATATTTAACTTAAAATCAATTATGAGA-TTATAAAAATATTTAAAGCGAGTAATAAG
* * * * * **
2167 GCTTTCAAAAGCATGTGTGACTATAAATGAACTTTTCTTGTCAA
129 GCTTTCGAAGGTATGGGTGACTACAAATGAACTTTTCTTACCAA
*
2211 TGGATATCTTTTTCTTCATTTTTCT
1 TGGATATCTTTTTCTTCATGTTTCT
2236 TGTTAATGGA
Statistics
Matches: 300, Mismatches: 59, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
169 3 0.01
170 147 0.49
171 150 0.50
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.39
Consensus pattern (172 bp):
TGGATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTCAATTATTATCTAGTTTTAATCAAAAA
TATAAAAATATTTAACTTAAAATCAATTATGAGATTATAAAAATATTTAAAGCGAGTAATAAGGC
TTTCGAAGGTATGGGTGACTACAAATGAACTTTTCTTACCAA
Found at i:2237 original size:31 final size:31
Alignment explanation
Indices: 2199--2266 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
2189 ATAAATGAAC
2199 TTTTCTTGTCAATGGATATCTTTTTCTTCAT
1 TTTTCTTGTCAATGGATATCTTTTTCTTCAT
*
2230 TTTTCTTGTTAATGGATATCTTTTTCTTCAT
1 TTTTCTTGTCAATGGATATCTTTTTCTTCAT
*
2261 GTTTCT
1 TTTTCT
2267 CGATGGAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (31 bp):
TTTTCTTGTCAATGGATATCTTTTTCTTCAT
Found at i:2391 original size:202 final size:202
Alignment explanation
Indices: 2038--2439 Score: 522
Period size: 202 Copynumber: 2.0 Consensus size: 202
2028 NTTTCTTACC
* *
2038 AATGGATATCTTTTTCCTCATGTTTCTCGAGGTAGACATTCAATTTTAATATGTTTTAATGAAAA
1 AATGGATATCTTTTTCCTCATGTTTCTCGAGGTAGACATTCAATTATAATATGTTTTAATAAAAA
* ** *
2103 ATATAAAAAAATTTAACTAAAAATTAATTATGAAGTTATAAAATTATTTAAAGCGAGTAGTAATG
66 ATATAAAAAAATTTAACTAAAAATCAATTATGAAGTTATAAAAACATTTAAAGCGAGTAATAATG
** *
2168 CTTTCAAAAGCATGTGTGACTATAAATGAACTTTTCTTGTCAATGGATATCTTTTTCTTCATTTT
131 CTTTCAAAAGCATGTGTGACTATAAATGAACTTTTCTTCCCAATGGATATCTTTTTCTTCATGTT
2233 TCTTGTT
196 TCTTGTT
* *
2240 AATGGATATCTTTTTCTTCATGTTTCTCGATGG-AGACATTCAATTATAATCTGTTTTAATAAAA
1 AATGGATATCTTTTTCCTCATGTTTCTCGA-GGTAGACATTCAATTATAATATGTTTTAATAAAA
********** * *
2304 AATNNNNNNNNNNTTAACTTAAAATCAATTAT-AAGATTATAAAAACCTTTAAAGCGAGTAATAA
65 AATATAAAAAAATTTAACTAAAAATCAATTATGAAG-TTATAAAAACATTTAAAGCGAGTAATAA
* * *
2368 TGCTTTCGAAAGCATAG-GTGACTATAAATGGACTTTTCTTCCCAATTGATATCTTTTTCTTCAT
129 TGCTTTCAAAAGCAT-GTGTGACTATAAATGAACTTTTCTTCCCAATGGATATCTTTTTCTTCAT
2432 GTTTCTTG
193 GTTTCTTG
2440 ATGTAGACAT
Statistics
Matches: 171, Mismatches: 26, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
201 3 0.02
202 165 0.96
203 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.40
Consensus pattern (202 bp):
AATGGATATCTTTTTCCTCATGTTTCTCGAGGTAGACATTCAATTATAATATGTTTTAATAAAAA
ATATAAAAAAATTTAACTAAAAATCAATTATGAAGTTATAAAAACATTTAAAGCGAGTAATAATG
CTTTCAAAAGCATGTGTGACTATAAATGAACTTTTCTTCCCAATGGATATCTTTTTCTTCATGTT
TCTTGTT
Found at i:2517 original size:171 final size:167
Alignment explanation
Indices: 2244--2771 Score: 517
Period size: 171 Copynumber: 3.1 Consensus size: 167
2234 CTTGTTAATG
* *
2244 GATATCTTTTTCTTCATGTTTCTCGATGGAGACATTCAATTATAATCTGTTTTAATAAAAAATNN
1 GATATCTTTTTCTTCATGTTTCTTGATGCAGACATTCAATTATAATCTGTTTTAATAAAAAAT--
******** * *
2309 NNNNNNNNTTAACTTAAAATCAATTATAAGATTATAAAAACCTTTAAAGCGAGTAATAATGCTTT
64 ATAAAAAATTAACTTAAAAT-AATTATGAGATTATAAAAACATTTAAAGCGAGTAATAA-GCTTT
*
2374 CGAAAGCATAGGTGACTATAAATGGACTTTTCTTCCCAATT
127 CGAAAGCATGGGTGACTATAAATGGACTTTTCTTCCCAATT
* *
2415 GATATCTTTTTCTTCATGTTTCTTGATGTAGACATTCAATTATAATATGTTTTAATAAAATAATA
1 GATATCTTTTTCTTCATGTTTCTTGATGCAGACATTCAATTATAATCTGTTTTAATAAAA-AATA
* * * * *
2480 TAAAAAATTGAACTTAAAGCTAATTATGAGGTTATAAAATCATTTAAAGCAAGTGATAAGGCTTT
65 TAAAAAATT-AACTTAAA-ATAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAA-GCTTT
* * * *
2545 CGAATGCATGGGTGACTATAAATGTACTTCTCCTCCCAA-T
127 CGAAAGCATGGGTGACTATAAATGGACTTTTCTTCCCAATT
* * ** **
2585 GAATATGTTTTTCTTCATGTTTCTCT--TGACAAACATTCAATTATTCTCTAG-TTTAACCAAAA
1 G-ATATCTTTTTCTTCATGTTTCT-TGATG-CAGACATTCAATTATAATCT-GTTTTAATAAAAA
* * * * *
2647 ATGTAAAAAAGTTTAACTTAAAATTAATTATGTGATTATAAATATATTTAAAGCGAGTAATGAGA
62 ATATAAAAAA--TTAACTTAAAA-TAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAG-
* * * *
2712 CTTTCGAAGGTATGGGTGACTATAAATGGACTTTTCTTGCCAATG
123 CTTTCGAAAGCATGGGTGACTATAAATGGACTTTTCTTCCCAATT
2757 GATA-CATTTTTCTTC
1 GATATC-TTTTTCTTC
2772 TCATTTCCCA
Statistics
Matches: 294, Mismatches: 50, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
170 17 0.06
171 268 0.91
172 9 0.03
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.38
Consensus pattern (167 bp):
GATATCTTTTTCTTCATGTTTCTTGATGCAGACATTCAATTATAATCTGTTTTAATAAAAAATAT
AAAAAATTAACTTAAAATAATTATGAGATTATAAAAACATTTAAAGCGAGTAATAAGCTTTCGAA
AGCATGGGTGACTATAAATGGACTTTTCTTCCCAATT
Found at i:2733 original size:544 final size:533
Alignment explanation
Indices: 1764--2771 Score: 1122
Period size: 544 Copynumber: 1.9 Consensus size: 533
1754 AATCAAAAAT
* * * *
1764 ATAAAAATATTTGACTTAAAATCAATTATTAGATTAGAAAAATATTTAAAGTGAGTAATAAGGCT
1 ATAAAAA-ATTTAACTTAAAATCAATTATAAGATTAGAAAAACATTTAAAGCGAGTAATAAGGCT
* * * * *
1829 TTCGAAGGTATGGGTGACTACAAATGGGCTTTTCTTACCAATGGATATCTTTTTTTCTTGTTTCT
65 TTCGAAAGCATAGGTGACTACAAATGGACTTTTCTTACCAATGGATATCTTTTTTTCATGTTTCT
* * * **
1894 TGAGGCAGACATTCAATTATTATCTAGTTTAACTAAAAATGTAAAAATATTTCACTTAAAATCAA
130 TGAGGCAGACATTCAATTATAATATAGTTTAACTAAAAATATAAAAATATTGAACTTAAAATCAA
* * * *****
1959 TTATGAGATTATAATAATATTTAAAGCGAGTAAAAAGGTTTTCGAAGGTATGGGTGACTANNNNN
195 TTATGAGATTATAATAATATTTAAAGCAAGTAAAAAGGCTTTCGAAGGCATGGGTGACTAATAAA
***** * * ** *
2024 NNNNNTTTCTTACCAATGGATATCTTTTTCCTCATGTTTCTCGAGGTAGACATTCAATTTTAATA
260 TGTACTTTCCTACCAATGAATATCTTTTTCCTCATGTTTCTCGAGACAAACATTCAATTTTAATA
**
2089 TGTTTTAATGAAAAATATAAAAAAATTTAACTAAAAATTAATTATGAAGTTATAAAATTATTTAA
325 TGTTTTAACCAAAAATATAAAAAAATTTAACTAAAAATTAATTATGAAGTTATAAAATTATTTAA
* * *
2154 AGCGAGTAGTAATGCTTTCAAAAGCATGTGTGACTATAAATGAACTTTTCTTGTCAATGGATATC
390 AGCGAGTAATAATGCTTTCAAAAGCATGGGTGACTATAAATGAACTTTTCTTGCCAATGGATA-C
2219 -TTTTTCTTCATTTTTCTTGTTAATGGATATCTTTTTCTTCATGTTTCTCGATGGAGACATTCAA
454 ATTTTTCTTCATTTTTCTTGTTAATGGATATCTTTTTCTTCATGTTTCTCGATGGAGACATTCAA
2283 TTATAATCTGTTTTA
519 TTATAATCTGTTTTA
* *
2298 ATAAAAAATNNNNNNNNNNTTAACTTAAAATCAATTATAAGATTATAAAAACCTTTAAAGCGAGT
1 ATAAAAAAT----------TTAACTTAAAATCAATTATAAGATTAGAAAAACATTTAAAGCGAGT
* * * *
2363 AATAATGCTTTCGAAAGCATAGGTGACTATAAATGGACTTTTCTTCCCAATTGATATCTTTTTCT
56 AATAAGGCTTTCGAAAGCATAGGTGACTACAAATGGACTTTTCTTACCAATGGATATCTTTTT-T
* *
2428 TCATGTTTCTTGATGTAGACATTCAATTATAATAT-GTTTTAA-TAAAATAATATAAAAA-ATTG
120 TCATGTTTCTTGAGGCAGACATTCAATTATAATATAG-TTTAACT-AAA-AATATAAAAATATTG
* * * * *
2490 AACTT-AAAGCTAATTATGAGGTTATAA-AATCATTTAAAGCAAGTGATAAGGCTTTCGAATGCA
182 AACTTAAAATC-AATTATGAGATTATAATAAT-ATTTAAAGCAAGTAAAAAGGCTTTCGAAGGCA
* * * **
2553 TGGGTGACT-ATAAATGTACTTCTCCTCCCAATGAATATGTTTTTCTTCATGTTTCTCTTGACAA
245 TGGGTGACTAATAAATGTACTT-TCCTACCAATGAATATCTTTTTCCTCATGTTTCTCGAGACAA
* * * * *
2617 ACATTCAATTATT-CTCTAG-TTTAACCAAAAATGTAAAAAAGTTTAACTTAAAATTAATTATG-
309 ACATTCAATT-TTAATAT-GTTTTAACCAAAAATATAAAAAAATTTAACTAAAAATTAATTATGA
* * * * * *
2679 TGATTAT-AAATATATTTAAAGCGAGTAATGA-GACTTTCGAAGGTATGGGTGACTATAAATGGA
372 AG-TTATAAAAT-TATTTAAAGCGAGTAATAATG-CTTTCAAAAGCATGGGTGACTATAAATGAA
2742 CTTTTCTTGCCAATGGATACATTTTTCTTC
434 CTTTTCTTGCCAATGGATACATTTTTCTTC
2772 TCATTTCCCA
Statistics
Matches: 385, Mismatches: 66, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
533 2 0.01
534 7 0.02
543 113 0.29
544 251 0.65
545 12 0.03
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.38
Consensus pattern (533 bp):
ATAAAAAATTTAACTTAAAATCAATTATAAGATTAGAAAAACATTTAAAGCGAGTAATAAGGCTT
TCGAAAGCATAGGTGACTACAAATGGACTTTTCTTACCAATGGATATCTTTTTTTCATGTTTCTT
GAGGCAGACATTCAATTATAATATAGTTTAACTAAAAATATAAAAATATTGAACTTAAAATCAAT
TATGAGATTATAATAATATTTAAAGCAAGTAAAAAGGCTTTCGAAGGCATGGGTGACTAATAAAT
GTACTTTCCTACCAATGAATATCTTTTTCCTCATGTTTCTCGAGACAAACATTCAATTTTAATAT
GTTTTAACCAAAAATATAAAAAAATTTAACTAAAAATTAATTATGAAGTTATAAAATTATTTAAA
GCGAGTAATAATGCTTTCAAAAGCATGGGTGACTATAAATGAACTTTTCTTGCCAATGGATACAT
TTTTCTTCATTTTTCTTGTTAATGGATATCTTTTTCTTCATGTTTCTCGATGGAGACATTCAATT
ATAATCTGTTTTA
Found at i:2794 original size:171 final size:167
Alignment explanation
Indices: 2317--2832 Score: 516
Period size: 171 Copynumber: 3.0 Consensus size: 167
2307 NNNNNNNNNN
* *
2317 TTAACTTAAAATCAATTATAAGATTATAAAA-ACCTTTAAAGCGAGTAATAATGCTTTCGAAAGC
1 TTAACTTAAAATTAATTATGAGATTATAAAATA--TTTAAAGCGAGTAATAA-GCTTTCGAAAGC
* * ** *
2381 ATAGGTGACTATAAATGGACTTTTCTTCCCAATTGATATCTTTTTCTTCATGTTTCTTGATGTAG
63 ATGGGTGACTATAAATGGACTTTTCTTCCCAATGGATA-CTTTTTCTTCATGTTTCTCAAGGTAG
* * **
2446 ACATTCAATTATAATAT-GTTTTAATAAAATAATATAAAAAAT
127 ACATTCAATTATTATCTAG-TTTAACCAAA-AATATAAAAAAT
* ** * * * *
2488 TGAACTTAAAGCTAATTATGAGGTTATAAAATCATTTAAAGCAAGTGATAAGGCTTTCGAATGCA
1 TTAACTTAAAATTAATTATGAGATTATAAAAT-ATTTAAAGCGAGTAATAA-GCTTTCGAAAGCA
* * * * * ** ** *
2553 TGGGTGACTATAAATGTACTTCTCCTCCCAATGAATATGTTTTTCTTCATGTTTCTCTTGACAAA
64 TGGGTGACTATAAATGGACTTTTCTTCCCAATGGATA-CTTTTTCTTCATGTTTCTCAAGGTAGA
* *
2618 CATTCAATTATTCTCTAGTTTAACCAAAAATGTAAAAAAGT
128 CATTCAATTATTATCTAGTTTAACCAAAAATATAAAAAA-T
* * * *
2659 TTAACTTAAAATTAATTATGTGATTATAAATATATTTAAAGCGAGTAATGAGACTTTCGAAGGTA
1 TTAACTTAAAATTAATTATGAGATTATAAA-ATATTTAAAGCGAGTAATAAG-CTTTCGAAAGCA
* * *
2724 TGGGTGACTATAAATGGACTTTTCTTGCCAATGGATACATTTTTCTTC-TCATTTCCCAAGGTAG
64 TGGGTGACTATAAATGGACTTTTCTTCCCAATGGATAC-TTTTTCTTCAT-GTTTCTCAAGGTAG
* * *
2788 ACATTCAGTTTTTATCTAATTTAACCAAAAATATAAAAATAT
127 ACATTCAATTATTATCTAGTTTAACCAAAAATATAAAAA-AT
2830 TTA
1 TTA
2833 TAGTGAGTAA
Statistics
Matches: 278, Mismatches: 58, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
170 12 0.04
171 261 0.94
172 4 0.01
173 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (167 bp):
TTAACTTAAAATTAATTATGAGATTATAAAATATTTAAAGCGAGTAATAAGCTTTCGAAAGCATG
GGTGACTATAAATGGACTTTTCTTCCCAATGGATACTTTTTCTTCATGTTTCTCAAGGTAGACAT
TCAATTATTATCTAGTTTAACCAAAAATATAAAAAAT
Found at i:2927 original size:136 final size:134
Alignment explanation
Indices: 2683--2969 Score: 321
Period size: 136 Copynumber: 2.1 Consensus size: 134
2673 ATTATGTGAT
* * *
2683 TATAAATATATTTAAAGCGAGTAATGAGACTTTCGAAGGTATGGGTGACTATAAATGGACTTTTC
1 TATAAAAATATTTAAAGCGAGTAATAAGACTTTCGAAGGCATGGGTGACTATAAATGGACTTTTC
* * * * *
2748 TTGCCAATGGATACATTTTTCTTCTCATTTCCCAAGGTAGACATTCAGTTTTTATCTAATTTAAC
66 TTCCCAATGGATA-ATGTTTCTTCTCATTTCCCAAGGCAGACATTCAATTATTATCTAATTTAA-
2813 CAAAAA
129 CAAAAA
* * *
2819 TATAAAAATATTTATAGTGAGTAATAAGACTTTTGAAGGCATGGGTGACTATAAATGGA-TTTCT
1 TATAAAAATATTTAAAGCGAGTAATAAGACTTTCGAAGGCATGGGTGACTATAAATGGACTTT-T
* ** * *
2883 CTTCCCAATGGGT-ATGTTT-TTCATCATGTCTTTCAAGGCAGACATTTAATTATTATCTATTTT
65 CTTCCCAATGGATAATGTTTCTTC-TCAT-T-TCCCAAGGCAGACATTCAATTATTATCTAATTT
2946 AACAAAAGA
127 AACAAAA-A
*
2955 -AGTAAAAAAATTTAA
1 TA-TAAAAATATTTAA
2970 CTTAAAATCA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
133 3 0.02
134 9 0.07
135 10 0.08
136 105 0.83
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (134 bp):
TATAAAAATATTTAAAGCGAGTAATAAGACTTTCGAAGGCATGGGTGACTATAAATGGACTTTTC
TTCCCAATGGATAATGTTTCTTCTCATTTCCCAAGGCAGACATTCAATTATTATCTAATTTAACA
AAAA
Found at i:3271 original size:479 final size:478
Alignment explanation
Indices: 2341--3273 Score: 1092
Period size: 479 Copynumber: 1.9 Consensus size: 478
2331 ATTATAAGAT
*
2341 TATAAAAACCTTTAAAGCGAGTAATAATGCTTTCGAAAGCATAGGTGACTATAAATGGACTTTTC
1 TATAAAAACATTTAAAGCGAGTAATAATGCTTTCGAAAGCATAGGTGACTATAAATGGACTTTTC
* * ** * * * *
2406 TTCCCAATTGATATCTTTTTCTTCATGTTTCTTGATGTAGACATTCAATTATAATATGTTTTAAT
66 TTCCCAATGGATATCTTTTTCATCATGTTTCTCAAGGCAGACATTCAATTATAATATATTTTAAC
* * * * *
2471 AAAATAATATAAAAAATTGAACTTAAAGCTAATTATGAGGTTATAAAATCATTTAAAGCAAGTGA
131 AAAAGAATATAAAAAATTGAACTTAAAGCTAATTACGAGATTAAAAAATCATTTAAAGCAAGTAA
* * * * *
2536 TAAGGCTTTCGAATGCATGGGTGACTATAAATGTACTTCTCCTCCCAATGAATATGTTTTTCTTC
196 CAAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTCCTCCCAATGAATATCTTTTTCTTC
* * * * *
2601 ATGTTTCTCTTGACAAACATTCAATTATTCTCTAGTTTAACCAAAAATGTAAAAAAGTTTAACTT
261 ATGTTTCTCTAGACAAACATTCAATTATTATCTACTTCAACCAAAAATGTAAAAAAGTTCAACTT
* * * * * * * ** * *
2666 AAAATTAATTATGTGATTATAAATATATTTAAAGCGAGTAATGAGACTTTCGAAGGTATGGGTGA
326 AAAATCAATTACGAGATTACAAAAATATTTAAAACGAATAAAAAGACTTCCGAAGGCATGGGTGA
* * * *
2731 CTATAAATGGACTTTTCTTGCCAATGGATACATTTTTCTTCTCATTTCCCAAGGTAGACATTCAG
391 CTATAAAAGGACCTTTCTTGCCAATGGATACATTTTTCTTCACATTTCCCAAGGGAGACATTCAG
2796 TTTTTATCTAATTTAACCAAAAA
456 TTTTTATCTAATTTAACCAAAAA
* * * * * *
2819 TATAAAAATATTTATAGTGAGTAATAA-GACTTTTGAAGGCATGGGTGACTATAAATGGA-TTTC
1 TATAAAAACATTTAAAGCGAGTAATAATG-CTTTCGAAAGCATAGGTGACTATAAATGGACTTT-
* * * * *
2882 TCTTCCCAATGGGTATGTTTTTCATCATGTCTT-TCAAGGCAGACATTTAATTATTATCTATTTT
64 TCTTCCCAATGGATATCTTTTTCATCATGT-TTCTCAAGGCAGACATTCAATTATAATATATTTT
* * *
2946 AACAAAAGAAGTA-AAAAAATTTAACTTAAA-ATCAATTACGAGATTAGAAAAAT-ATTTAAAGT
128 AACAAAAGAA-TATAAAAAATTGAACTTAAAGCT-AATTACGAGATTA-AAAAATCATTTAAAGC
* * * * * ** * *
3008 TAGTAACAAGGCTTTCGAAGGTATGGATGATTATAAGTGGACTTTTTTTTGCCAATGGATATCTT
190 AAGTAACAAGGCTTTCGAAGGCATGGATGACTATAAATGGAC-TTCTCCTCCCAATGAATATCTT
* *
3073 TTTCTTC-TCGTTTC-CTAAGGCAGACATTCAATTATTATCTACTTCAACCAAAAATGTAAAAGA
254 TTTCTTCAT-GTTTCTCT-AGACAAACATTCAATTATTATCTACTTCAACCAAAAATGTAAAA-A
*
3136 A-TTCAACTTGAAATCAATTACGAGATTACAAAAATATTTAAAACGAATAAAAAGACTTCCGAAG
316 AGTTCAACTTAAAATCAATTACGAGATTACAAAAATATTTAAAACGAATAAAAAGACTTCCGAAG
* * * *
3200 GCATGGGTGACTCTAAAAGGACCTTTCTTGCCAATGGATATATTTTTCTTCACGTTTCCCGAGGG
381 GCATGGGTGACTATAAAAGGACCTTTCTTGCCAATGGATACATTTTTCTTCACATTTCCCAAGGG
3265 AGACATTCA
446 AGACATTCA
3274 ATTATAATCT
Statistics
Matches: 376, Mismatches: 69, Indels: 19
0.81 0.15 0.04
Matches are distributed among these distances:
477 5 0.01
478 178 0.47
479 191 0.51
480 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (478 bp):
TATAAAAACATTTAAAGCGAGTAATAATGCTTTCGAAAGCATAGGTGACTATAAATGGACTTTTC
TTCCCAATGGATATCTTTTTCATCATGTTTCTCAAGGCAGACATTCAATTATAATATATTTTAAC
AAAAGAATATAAAAAATTGAACTTAAAGCTAATTACGAGATTAAAAAATCATTTAAAGCAAGTAA
CAAGGCTTTCGAAGGCATGGATGACTATAAATGGACTTCTCCTCCCAATGAATATCTTTTTCTTC
ATGTTTCTCTAGACAAACATTCAATTATTATCTACTTCAACCAAAAATGTAAAAAAGTTCAACTT
AAAATCAATTACGAGATTACAAAAATATTTAAAACGAATAAAAAGACTTCCGAAGGCATGGGTGA
CTATAAAAGGACCTTTCTTGCCAATGGATACATTTTTCTTCACATTTCCCAAGGGAGACATTCAG
TTTTTATCTAATTTAACCAAAAA
Found at i:3838 original size:171 final size:170
Alignment explanation
Indices: 2823--4043 Score: 888
Period size: 171 Copynumber: 7.1 Consensus size: 170
2813 CAAAAATATA
* * * * * * *
2823 AAAAT-ATTTATAGTGAGTAATAAGACTTTTGAAGGCATGGGTGACTATAAATGGA-TTTCTCTT
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTC-T
* * * * * * * *
2886 CCCAATGGGTATGTTTTTCATCATGTCTT-TCAAGGCAGACATTTAATTATTATCTATTTTAACA
65 GCCAATGGATATCTTTTTCTTCATGT-TTCTCAAGGTAGACATTCAATTATAATCTATTTTAATA
* * *
2950 AAAGAA-GTAAAAAAATTTAACTTAAAATCAATTACGAGATTAGA
129 AAA-AATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTA-T
** * * * * * *
2994 AAAAT-ATTTAAAGTTAGTAACAAGGCTTTCGAAGGTATGGATGATTATAAGTGGACTTTTTTTT
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGAC-TTTTTCT
* * * * *
3058 GCCAATGGATATCTTTTTCTTC-TCGTTTC-CTAAGGCAGACATTCAATTATTATCTACTTCAAC
65 GCCAATGGATATCTTTTTCTTCAT-GTTTCTC-AAGGTAGACATTCAATTATAATCTATTTTAAT
* * * *
3121 CAAAAATGTAAAAGAATTCAACTTGAAATCAATTACGAGATTACA
128 AAAAAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTA-T
* * * * * * *
3166 AAAAT-ATTTAAA-ACGAATAAAAAGACTTCCGAAGGCATGGGTGACTCTAAAAGGAC-CTTTCT
1 AAAATCATTTAAAGA-GAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTC-
* * * * * *
3228 TGCCAATGGATATATTTTTCTTCACGTTTCCCGAGGGAGACATTCAATTATAATCTGTTTTAATA
64 TGCCAATGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAATA
* ********* *
3293 AAAAATATANNNNNNNNNNACTTAAAATCAATTATGAGGTTAT
129 AAAAATGTA-AAAAATTCAACTTAAAATCAATTATGAGATTAT
* * * * * *
3336 AAAATTATTTAAAGCGAATAATAAGGCTTTCGAAAGTATCGCTGACTATAAATAGAC-TTTTCTT
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTC-T
* * * * * * *
3400 GCCAAAGCATATCTTTTTCTTCACGTTTCTCAAGGTAAACATTTAATTATGATCTATTTTAAT-G
65 GCCAATGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAATAA
*
3464 AAAATGTAACAAAATTCAACTTAAAATCAATTATGAGGTTAT
130 AAAATGTAA-AAAATTCAACTTAAAATCAATTATGAGATTAT
********** * * * *
3506 ANNNNNNNNNNAAGCGAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTTTTCTA
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTCTG
* * *
3571 CCAATGGATATCTTTTTCTTCGTATTTCAT-GAGGTAGACATTCAATTATAATCTATTTTAATAA
66 CCAATGGATATCTTTTTCTTCATGTTTC-TCAAGGTAGACATTCAATTATAATCTATTTTAATAA
* **********
3635 AAAATTTTAAAAAATTNNNNNNNNNNTCAATTATGAGATTAT
130 AAAA-TGTAAAAAATTCAACTTAAAATCAATTATGAGATTAT
* * ** * *
3677 AAAATCATTTAAATAGAATAATAAGGCTTTCTAAGACATGGGTGACCATAAATGGACTTTTTCGG
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTCTG
* * * * * * *
3742 CAAAAGGATATCTTTTTCTTCATGTTTCTCGAGGTAGACATTTAATTATAATCTGTTTGAATAAC
66 CCAATGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAATAAA
* *
3807 ACATGTAAAATAATTCAACTTAAAATCAATTATGAGGTTAT
131 AAATGTAAAA-AATTCAACTTAAAATCAATTATGAGATTAT
*********** *
3848 AAAATCANNNNNNNNNNGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAAT-GAGC-TTTTCT
1 AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGA-CTTTTTC-
* * * * *
3911 TACCAATGGATATCTTTTTCTTCACGTTTCTCATGGTAGACGTTCAATTATAATCTGTTTTAATA
64 TGCCAATGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAATA
* * ** *
3976 AGAAATATAAAAAAATTTGACTTAAAATCAATCATGAGATTAT
129 AAAAATGT-AAAAAATTCAACTTAAAATCAATTATGAGATTAT
* *
4019 AAAATCATTTAAAGCGAGTAATAAG
1 AAAATCATTTAAAGAGAATAATAAG
Statistics
Matches: 810, Mismatches: 216, Indels: 48
0.75 0.20 0.04
Matches are distributed among these distances:
170 146 0.18
171 525 0.65
172 135 0.17
173 4 0.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (170 bp):
AAAATCATTTAAAGAGAATAATAAGGCTTTCGAAGGTATGGGTGACTATAAATGGACTTTTTCTG
CCAATGGATATCTTTTTCTTCATGTTTCTCAAGGTAGACATTCAATTATAATCTATTTTAATAAA
AAATGTAAAAAATTCAACTTAAAATCAATTATGAGATTAT
Found at i:4015 original size:342 final size:337
Alignment explanation
Indices: 2837--4043 Score: 916
Period size: 341 Copynumber: 3.5 Consensus size: 337
2827 TATTTATAGT
* * * * * * *
2837 GAGTAATAAGACTTTTGAAGGCATGGGTGACTATAAATGGA-TTTCTCTTCCCAATGGGTATGTT
1 GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTT-TCTTACCAATGGATATCTT
* * * * * * * * *
2901 TTTCATCATGTCTT-TCAAGGCAGACATTTAATTATTATCTATTTTAACAAAAGAA-GTAAAAAA
65 TTTCTTCACGT-TTCTCATGGTAGACATTCAATTATAATCTGTTTTAATAAAA-AATATAAAAAA
* * * ** * * *
2964 ATTTAACTTAAAATCAATTACGAGATTAGAAAAAT-ATTTAAAGTTAGTAACAAGGCTTTCGAAG
128 ATTTGACTTAAAATCAATTATGAGATTA-TAAAATCATTTAAAGAGAATAATAAGGCTTTCGAAA
* * * ** * * * * * * * *
3028 GTATGGATGATTATAAGTGGACTTTTTTTTGCCAATGGATATCTTTTTCTTCTCGTTTC-CTAAG
192 GCATCGCTGACCATAAATAGAC-TTTTCTGGCAAAAGCATATCTTTTTCTTCACGTTTCTC-AAG
* * * * * * ** *
3092 GCAGACATTCAATTATTATCTACTTCAACCAAAAATGTAA-AAGAATTCAACTTGAAATCAATTA
255 GTAAACATTTAATTATAATCTATTTGAA-TGAAAATGTAACAA-AATTCAACTTAAAATCAATTA
* * * * *
3156 CGAGATTACAAAAATATTTAAAAC
318 TGAGGTT--ATAAA-A-TCAAAGC
* * * * * * * * * * *
3180 GAATAAAAAGACTTCCGAAGGCATGGGTGACTCTAAAAGGACCTTTCTTGCCAATGGATATATTT
1 GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTTTCTTACCAATGGATATCTTT
* * *******
3245 TTCTTCACGTTTCCCGA-GGGAGACATTCAATTATAATCTGTTTTAATAAAAAATATANNNNNNN
66 TTCTTCACGTTTCTC-ATGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAAT
*** * * * *
3309 NNNACTTAAAATCAATTATGAGGTTATAAAATTATTTAAAGCGAATAATAAGGCTTTCGAAAGTA
130 TTGACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGAGAATAATAAGGCTTTCGAAAGCA
* * *
3374 TCGCTGACTATAAATAGACTTTTCTTGCCAAAGCATATCTTTTTCTTCACGTTTCTCAAGGTAAA
195 TCGCTGACCATAAATAGACTTTTCTGGCAAAAGCATATCTTTTTCTTCACGTTTCTCAAGGTAAA
* *
3439 CATTTAATTATGATCTATTTTAATGAAAATGTAACAAAATTCAACTTAAAATCAATTATGAGGTT
260 CATTTAATTATAATCTATTTGAATGAAAATGTAACAAAATTCAACTTAAAATCAATTATGAGGTT
******
3504 ATANNNNNNNNNNAAGC
325 ATA----AAATCAAAGC
3521 GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTTT-TCTACCAATGGATATCTT
1 GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTTTCT-TACCAATGGATATCTT
* * *
3585 TTTCTT--CGTATT-TCATGAGGTAGACATTCAATTATAATCTATTTTAATAAAAAATTTTAAAA
65 TTTCTTCACGT-TTCTCAT--GGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAA
********** * *
3647 AATTNNNNNNNNNNTCAATTATGAGATTATAAAATCATTTAAATAGAATAATAAGGCTTTC-TAA
127 AATTTGACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGAGAATAATAAGGCTTTCGAAA
* * * * * *
3711 GACATGGGTGACCATAAATGGACTTTT-TCGGCAAAAGGATATCTTTTTCTTCATGTTTCTCGAG
192 G-CATCGCTGACCATAAATAGACTTTTCT-GGCAAAAGCATATCTTTTTCTTCACGTTTCTCAAG
* *
3775 GTAGACATTTAATTATAATCTGTTTGAAT-AACACATGTAA-AATAATTCAACTTAAAATCAATT
255 GTAAACATTTAATTATAATCTATTTGAATGAA-A-ATGTAACAA-AATTCAACTTAAAATCAATT
****
3838 ATGAGGTTATAAAATCANNNNNNNN
317 ATGAGGTTATAAAATCA----AAGC
**
3863 NNGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAAT-GAGCTTTTCTTACCAATGGATATCTT
1 GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGA-CTTTTCTTACCAATGGATATCTT
* *
3927 TTTCTTCACGTTTCTCATGGTAGACGTTCAATTATAATCTGTTTTAATAAGAAATATAAAAAAAT
65 TTTCTTCACGTTTCTCATGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAAT
* * *
3992 TTGACTTAAAATCAATCATGAGATTATAAAATCATTTAAAGCGAGTAATAAG
130 TTGACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGAGAATAATAAG
Statistics
Matches: 687, Mismatches: 147, Indels: 61
0.77 0.16 0.07
Matches are distributed among these distances:
338 1 0.00
339 6 0.01
340 9 0.01
341 255 0.37
342 248 0.36
343 158 0.23
344 10 0.01
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.34
Consensus pattern (337 bp):
GAGTAATAAGGCTTTCGAAGGTATGGGTGGCTATAAATGGACTTTTCTTACCAATGGATATCTTT
TTCTTCACGTTTCTCATGGTAGACATTCAATTATAATCTGTTTTAATAAAAAATATAAAAAAATT
TGACTTAAAATCAATTATGAGATTATAAAATCATTTAAAGAGAATAATAAGGCTTTCGAAAGCAT
CGCTGACCATAAATAGACTTTTCTGGCAAAAGCATATCTTTTTCTTCACGTTTCTCAAGGTAAAC
ATTTAATTATAATCTATTTGAATGAAAATGTAACAAAATTCAACTTAAAATCAATTATGAGGTTA
TAAAATCAAAGC
Done.