Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014924.1 Corchorus olitorius cultivar O-4 contig14957, 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: 129164
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Found at i:34375 original size:6 final size:6
Alignment explanation
Indices: 34364--34390 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
34354 TATTTATTTT
34364 TTTGGC TTTGGC TTTGGC TTTGGC TTT
1 TTTGGC TTTGGC TTTGGC TTTGGC TTT
34391 CTACTTGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.30, T:0.56
Consensus pattern (6 bp):
TTTGGC
Found at i:45283 original size:34 final size:35
Alignment explanation
Indices: 45245--45315 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
45235 AGCATCGCTT
45245 TCAC-TTTTCTCAATTTAGTTGAAGCTTCAAGGAA
1 TCACTTTTTCTCAATTTAGTTGAAGCTTCAAGGAA
45279 TCACTTTTTCTCAATTTAGTTGAAGCTTCAAGGAA
1 TCACTTTTTCTCAATTTAGTTGAAGCTTCAAGGAA
45314 TC
1 TC
45316 CTATTTGTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 4 0.11
35 32 0.89
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.39
Consensus pattern (35 bp):
TCACTTTTTCTCAATTTAGTTGAAGCTTCAAGGAA
Found at i:47508 original size:97 final size:97
Alignment explanation
Indices: 47327--47510 Score: 255
Period size: 97 Copynumber: 1.9 Consensus size: 97
47317 ATTATACCCC
* *
47327 TTTTTTTCAAATATATTTCTAAATTGTCATTATTAAAATATCTTAATTACGTCACTATTAAAATA
1 TTTTTTTCAAATATATTTCTAAATTGTCATTATTAAAATATCTTAACTACGCCACTATTAAAATA
* *
47392 TGATTTTATGTAATTTTTTTCCGATTGTACTA
66 TGAATTTATGTAATCTTTTTCCGATTGTACTA
* * *
47424 TTTTTTTCAAATATATTTCTAAATTGTCATTATTAAAATATGTTTTAACTATGCCATTATTAAAA
1 TTTTTTTCAAATATATTTCTAAATTGTCATTATTAAAATA--TCTTAACTACGCCACTATTAAAA
*
47489 TAT-AATTTAGTGTACT-TTTTTC
64 TATGAATTTA-TGTAATCTTTTTC
47511 AAATATATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
97 40 0.52
98 11 0.14
99 26 0.34
ACGTcount: A:0.33, C:0.10, G:0.06, T:0.51
Consensus pattern (97 bp):
TTTTTTTCAAATATATTTCTAAATTGTCATTATTAAAATATCTTAACTACGCCACTATTAAAATA
TGAATTTATGTAATCTTTTTCCGATTGTACTA
Found at i:48318 original size:337 final size:332
Alignment explanation
Indices: 47564--48726 Score: 1179
Period size: 337 Copynumber: 3.5 Consensus size: 332
47554 TTAAATTACA
* * * * * * *
47564 AATTAATTCGGAAAAAGGTA-GG-AAAGCGATATTAGAAGCGTGAGA-AGCCCTTCAGTCTTTTT
1 AATTAATTCAGAAAAA-ATAGGGAAAAACGATATTAAAAACGTGA-ATAGCCATTCAATCTTTTT
* * * * * *
47626 GGCT-TAGAATTATATATTTTTTATTAGTATTGTGGCCCAAAATTGAGGAGAAATT-TAT-GAGT
64 GG-TGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA-AAATTCTTTCGGGT
* * ** * **
47688 CAGTTTTTGCAAAATTTTAGCTAAAATTGTGTACTAACCATCACGGCTTTTGACAAAAAAAAAAC
127 CAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGAC----AAAAAAC
* * ** * * ** *
47753 GCATTCCGGAGCCCCGGCTTTGTTTTGCACGATTTTTGGCACCAAGTCCCATTGAAATATTTATA
188 GCATTCCAGAGCCCCGACTCAGTTTTGCACGATTTTTGGCGCCAAGACTAATTGAAATA--TCTA
* * * * * * *
47818 TATCCATTTAACCTAATCTTACCCATATTGGATTTAAGGATTTGTTTTTACGAGTAGATGAATCA
251 TATCCATCTAACCAAATC-TACACACATTGGATTTAAGGATTTATTTTTACGAGCATATGAATCA
*
47883 TGTTTCGATTCAATCAGG
315 TGTTTCGATTCAATTAGG
* * * *
47901 AATTAATTTAGAAAAAATAGGG-AAAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGG
1 AATTAATTCAGAAAAAATAGGGAAAAACGATATTAAAAACGTGAATAGCCATTCAATCTTTTTGG
47965 TGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAAT
66 TGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAAT
* * * * * * *
48030 TTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCATGCTTTTTGGCTAAAAACGCGTT-CT
131 TTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAACGCATTCCA
* * * ** **
48094 GTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCTTCAAGACTAATTGAAATATCTATATTTATC
196 G-AGCCCCGACTCAGTTTTGCACGA-TTTTTGGCGCCAAGACTAATTGAAATATCTATATCCATC
** * * * * * **
48159 TAATGAAATCTCAGACACATTGGATTTAAGGATTTCTTTTTGCGAGCATCTCAATCCGGTTTCGA
259 TAACCAAATCT-ACACACATTGGATTTAAGGATTTATTTTTACGAGCATATGAATCATGTTTCG-
*
48224 ATT-AATTAGA
322 ATTCAATTAGG
* * *
48234 AATTAATTCAGAAAAAATAGGGAAAACAAACAATATTAAAAACGTGAAAAGTCATTCAATCTTTT
1 AATTAATTCAGAAAAAATAGGG--AA-AAACGATATTAAAAACGTGAATAGCCATTCAATCTTTT
* ** * * * * ** * * *
48299 CGGCATTGAGTTATATATTTTTTATGAATATGGTCGCCGGAAATTGATGAGAAATGT-ATT-GTG
63 TGGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA-AAAT-TCTTTCGGG
*
48362 TCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAACGCA
126 TCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAACGCA
* * *
48427 TTCCAGAGCCCCGACTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCC
191 TTCCAGAGCCCCGACTCAGTTTTGCACGATTTTTGGCGCCAAGACTAATTGAAATATCTATATCC
* * * * *
48492 ATCTAACCTAATCTACCCATACTGGATTTAAAGATTTATTTTTACGAGCATATGAATCATGTTTC
256 ATCTAACCAAATCTACACACATTGGATTTAAGGATTTATTTTTACGAGCATATGAATCATGTTTC
*
48557 GATTCATTTAGG
321 GATTCAATTAGG
* * *
48569 AATTAA-TCTAGAAAAAATA-GCAAAAACGATATT-AGAA-GCGAATAGGCC-TTCAATCTTTTT
1 AATTAATTC-AGAAAAAATAGGGAAAAACGATATTAAAAACGTGAATA-GCCATTCAATCTTTTT
48629 GGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCA
64 GGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCA
48694 ATTTTTACAAAATTTTAGCCGAAATCGTGTACT
129 ATTTTTACAAAATTTTAGCCGAAATCGTGTACT
48727 GCACTCAATT
Statistics
Matches: 679, Mismatches: 126, Indels: 50
0.79 0.15 0.06
Matches are distributed among these distances:
327 1 0.00
328 6 0.01
329 93 0.14
330 5 0.01
331 9 0.01
332 3 0.00
333 84 0.12
334 38 0.06
335 84 0.12
336 51 0.08
337 249 0.37
338 55 0.08
339 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (332 bp):
AATTAATTCAGAAAAAATAGGGAAAAACGATATTAAAAACGTGAATAGCCATTCAATCTTTTTGG
TGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAAT
TTTTACAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAACGCATTCCA
GAGCCCCGACTCAGTTTTGCACGATTTTTGGCGCCAAGACTAATTGAAATATCTATATCCATCTA
ACCAAATCTACACACATTGGATTTAAGGATTTATTTTTACGAGCATATGAATCATGTTTCGATTC
AATTAGG
Found at i:49154 original size:23 final size:23
Alignment explanation
Indices: 49126--49172 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
49116 CTGTTTAATA
49126 TTATAATTATAGAT-TTAATCTAT
1 TTATAATTATAGATATTAAT-TAT
*
49149 TTATAATTATATATATTAATTAT
1 TTATAATTATAGATATTAATTAT
49172 T
1 T
49173 AATTCTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTATAATTATAGATATTAATTAT
Found at i:49219 original size:24 final size:23
Alignment explanation
Indices: 49192--49237 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
49182 TTTCGAATAT
49192 TTCTATTTCATTTATTTTCATTTA
1 TTCTATTTCATTTA-TTTCATTTA
**
49216 TTCTATTTTTTTTATTTCATTT
1 TTCTATTTCATTTATTTCATTT
49238 CGAACTTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (23 bp):
TTCTATTTCATTTATTTCATTTA
Found at i:49404 original size:13 final size:13
Alignment explanation
Indices: 49386--49411 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49376 AACCATTATG
49386 ATTAGTTGATAAT
1 ATTAGTTGATAAT
49399 ATTAGTTGATAAT
1 ATTAGTTGATAAT
49412 TTTGTGAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTAGTTGATAAT
Found at i:53069 original size:333 final size:332
Alignment explanation
Indices: 51488--55694 Score: 4012
Period size: 333 Copynumber: 12.6 Consensus size: 332
51478 AAATAAAATA
* **
51488 ATGTTTCGATTCAATTAGGAATTAATCTAGAAAAAATAGGAAAAATGATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAAT-TAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* *
51553 GCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* *
51618 AAATTCTTTCGGGTCAATTTTTACAAAATTTTATCCGAAATCGTGTACTGACTATCACGCTTTTT
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTT
* * * ** *
51683 GGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCATGCTTTTTTGGCTTCAAGAT-TAATT
195 GACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAG-TCTCATT
* * ** ** * * *
51747 GAAATATATATATTTATCTAATGAAATCTCAGGCACATTGGATTTAAGGATTTCTTTTTACGGGC
259 GAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGC
*
51812 TTATCAATC
324 ATATCAATC
** * * *
51821 CGGTTTCTAATT-AATTAGAAATTAATTCA-AGAAAAATAGGGAAAAAAACAATATTAAAAACGT
1 ATGTTTC-GATTCAATTAGAAATTAATT-AGA-AAAAATA-GG--AAAAACAATATTAGAAGCGT
* * ** * * * * **
51884 GAAAAGCCCTTCAATCTTTTCAGCATTGAGTTATATATTTTTTATGAA-TATGGTCGCCGGAAAT
60 GAATAGCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT-AAGTATCGTGGCCAAAAAT
* * * *
51948 TGATGAGAAATGT-TTT-GTGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCA
124 TGAGGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCA
* * * * * * *
52011 CGATTTTTGACAAAAAAAAAAAAGCATTCCCG-AGCCCCGGCTCTGTTTTGCACGATTTTTT-GC
187 CGCTTTTTGAC-----TAAAAACGCATT-CTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGC
* * * * * * *
52074 GCAAAGTCTCATTGAAATATCTATATCCATTTAACCTAATCTTACCCATACTGGATTTAAAGATT
246 GCCAAGTCTCATTGAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATT
* * *
52139 AGTTTCTACGAGCATATGAATC
311 TGTTTTTACGAGCATATCAATC
* * * *
52161 ATGTTTCGATTCAATTAGGAATTAATCGAGAAAAAATAGGACAAACGATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAAT-TAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* * *
52226 GCCTTTCAA-ATTTTTGGTGTTGAATTATATA-TTTTTATGAGTATCGTGGCC-AAAATTGAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* *
52288 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATGGTGTACTAACTAACACGCTTTTT
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTT
* * * ** *
52353 GGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGCCTTCAAGAC-CAATT
195 GACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTC-ATT
* *** * * * * *
52417 GAAATATCTATATTTATCTAGTGAAATCTCAGCCACAATAGATTTAAGGATTTCTTTTTACGAGC
259 GAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGC
*
52482 ATCTCAATC
324 ATATCAATC
** * * *
52491 CGGTTTCGAATT-AATTAGAAATTAATTCGGAAAAAATAGGGAAAAAACAATATTAAAAACGTGA
1 ATGTTTCG-ATTCAATTAGAAATTAATT-AGAAAAAATA-GG-AAAAACAATATTAGAAGCGTGA
* * * * ** * ** **
52555 AAAGTCATTT-AATCTTTTCGGCATTGGGTTATATA-TTTTTATGAA-TATGGTCACCGGAAATT
62 ATAG-CCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT-AAGTATCGTGGCCAAAAATT
* * * *
52617 GATGAGAAATGT-TTT-GTGTCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCAC
125 GAGGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCAC
* * * * * * *
52680 GATTTTTGACGAAAAAACGTATTCCAG-AGCCCCGGCTCTGTTTTGCACGA-TTTTTGGCGCCAA
188 GCTTTTTGAC-TAAAAACGCATT-CTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAA
* * * * * * *
52743 GTCTCATTGAAATGTCTATATCAATCCAACCTAATCTTACCCATACTGGATTTAAAGATTTGTTT
251 GTCTCATTGAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTT
*
52808 TTACGAGCATATGAATC
316 TTACGAGCATATCAATC
* * * *
52825 ATGTTTCGATTCAATTTGGAATTAATCTAGAAAAAATAGCAAAAACGATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAAT-TAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* * * * *
52890 GGCC-TTCAATCATTTTGGTGTTGAATTATATACTTTTTATAAGTATCATGGCCAAAAATTGAAG
65 -GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGG
52954 AAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTT
129 AAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTT
* * ** * *
53019 TGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCTTCAAGACTAATT
194 TGACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTCATT
* ** * * * * *
53084 GAAATATCTATATTTATCTAATGAAATCTCAACCACATTAGATTTAAGGATTTCTTTTTGCGAGC
259 GAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGC
*
53149 ATCTCAATC
324 ATATCAATC
** * * *
53158 CGGTTTCGAATT-AATTAGAAATTAATTCGGAAAAAATAGGGAAAAAAACAATATTAAAAACGTG
1 ATGTTTCG-ATTCAATTAGAAATTAATT-AGAAAAAATA-GG--AAAAACAATATTAGAAGCGTG
* * * * * * * ** **
53222 AAAAGCCCTTCAATCTTTTCGACATTGAGTTATATATTTTTTATGAA-TATGGTCACCGGAAATT
61 AATAGCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT-AAGTATCGTGGCCAAAAATT
* * * * *
53286 GATGAGAATTGTTTTGTGTCGAA-TTTTACAAAATTTTAGCCGAAATCGTGTACTAA-TCATCAC
125 GAGGAAAATTCTTTCGGGTC-AATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACT-ATCAC
* * * * * *
53349 GATTTTTGACAAAAACACGCATTCCG-GAGCTCCGGCTCTGTTTTGCACGA-TTTTTGGCGCCAA
188 GCTTTTTGACTAAAA-ACGCATTCTGTG-GCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAA
* * * * * * * *
53412 GTCTCATTCAAATATCTATATCCATCTAACCTATTCTTACCCATACTGGATTTAAAGATTGGTTT
251 GTCTCATTGAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTT
*
53477 TTACGAGCATATGAATC
316 TTACGAGCATATCAATC
* * *
53494 ATGTTTCGATTCAATTAGGAATTAATCTAGAAAAAATAGGAAAGACGATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAAT-TAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* *
53559 GCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* * *
53624 AAATTCTTTCCGGTCAATTTTTACAAAATTTTAGCCAAAATCGTGTACTAATTATCAC-CTTTTT
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGC-TTTT
* * ** * *
53688 TGGCTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGACTTCAAGACTAATT
194 TGACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTCATT
* * ** * * *
53753 GAAATATATATATTTATCTAATGAAATCTCAGCCACATTGGATTTAAGGATTTCTTTTTACGAGC
259 GAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGC
* *
53818 TTCTCAATC
324 ATATCAATC
** * **
53827 CGGTTTCGAATT-AATTAGAAATTAATTCAGAAAAAATAGGCAAAAAAAACAATATTAAAAATGT
1 ATGTTTCG-ATTCAATTAGAAATTAATT-AGAAAAAATAGG----AAAAACAATATTAGAAGCGT
* * * * * ** **
53891 GAAAAGCCATTCAATCTTTTTGGCATTGAGTTATATATTTTTTATGAA-TATGGTCACCGGAAAT
60 GAATAGCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT-AAGTATCGTGGCCAAAAAT
* * ** *
53955 TGATGAGAAATGT-TTT-GTGTCAATTTTTGTAAAATTTTAGCCGAAATCGTGTACTAACCATCA
124 TGAGGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCA
*** * * * *
54018 TAATTTTTGACAAAAAACGCATTCCG-GAGCCCCGGCTCTGTTTTGCACGA-TTTTTGGCGCCAA
187 CGCTTTTTGACTAAAAACGCATTCTGTG-GCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAA
* * * * * *
54081 GTCTCATTGAAATATCTATATCCATCTAACCTAATCTTACCCATACTGGATTTAAAGATTAGTTT
251 GTCTCATTGAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTT
* *
54146 CTACGAGCATATGAATC
316 TTACGAGCATATCAATC
* * * **
54163 ATGTTTCGATTCGATTAGGAATTAATCTAGAAAAAATAGGACAAATGATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAAT-TAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* *
54228 GCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* *
54293 AAATTCTTTCGGGTCAACTTTTACAAAATTTTAGCCGAAATGGTGTACTAACTATCACGCTTTTT
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTT
* * ** * *
54358 GGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCTTCAAGACTAATTG
195 GACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTCATTG
* * * ** * * *
54423 AAATATATATATTTGTCTAATGAAATCTCAGCCACATTGGATTTAAGGATTTCTTTTTACGA-CA
260 AAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGCA
54487 -ATCAATC
325 TATCAATC
** * *
54494 CGGTTTCGAATT-AATTAGAAATTAATTCGGAAAAATAGGGAAAAAACAATATTAGAAGCGTGAA
1 ATGTTTCG-ATTCAATTAGAAATTAATTAGAAAAAATA-GG-AAAAACAATATTAGAAGCGTGAA
* * * * * * *** *
54558 AAGCC-TTCAATCTTTTCGGCATTGAGTTATATATTTTTTATGAA-TATGGTCGCTGGAAGTTGA
63 TAGCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTAT-AAGTATCGTGGCCAAAAATTGA
* ** * * *
54621 TGAGAAATGT-TTT-GTATCAATTTTTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGG
127 GGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGC
* * ** * * *
54684 TTTTTGACAAAAAAAAACGCATTCCG-GAGCAACAGCTCTGTTTTGCACGA-TTTTTGGCGCCAA
190 TTTTTGAC---TAAAAACGCATTCTGTG-GCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAA
* * * * * * *
54747 GTCTCATTGAAATATATATATCCATCTAACCTAATCTTACCCATATTGGATTTAAAAATTTATTT
251 GTCTCATTGAAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTT
* *
54812 TTACGAGCGTATGAATC
316 TTACGAGCATATCAATC
* * * *
54829 ATGTTTCGATTCAATTAGGAATTAATTTAGAGAAAATTGGAAAAACTATATTAGAAGCGTGAATA
1 ATGTTTCGATTCAATTAGAAATTAA-TTAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* * *
54894 ACCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* * * *
54959 AAATTCTTTCGGGTCACTATTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGGTTTTG
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTT
* * * * * * * * *
55024 GGCTAAAAACGCGTTCTGTAGCCCCGACTCAATTTTGCATGATTTTTTTGCGTCAAGACTAATTG
195 GACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTCATTG
* * * * *
55089 AAATATCTATATTTATCTAACGAAATATCAGCCACATTGAATTT-AAGAATTTGTTTTTACGAGC
260 AAATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAG-ATTTGTTTTTACGAGC
*
55153 ATCTCAATC
324 ATATCAATC
** * * * *
55162 CGGTTTCGATTTAATTAGAAATTAATTCAGAAAAAATAGAAAAAAAAATATTAGAAGCGTGAAAA
1 ATGTTTCGATTCAATTAGAAATTAATT-AGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* * * **
55227 GCCCTTCAATCTTTTTGGCGTTGAGTTATGGAGTATATGTTTTATGAA-TATGGTGGCCGGAAAT
65 GCCTTTCAATCTTTTTGGCGTTGAATTAT--A-TAT-T-TTTTAT-AAGTATCGTGGCCAAAAAT
* ** * * * *
55291 TGATGAAAAATGGTTTCGTGTCAATTTTTGCAAAATTTTAGCCGAAATTGTGTACTAACCATCAT
124 TGA-GGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCA-
* * * * * *
55356 AG-TTTTTGACTAAAAACGCGATT-TGGGGTCCCGACTCTGTTTTGCATGA-TTTTTGGTGCCAA
187 CGCTTTTTGACTAAAAACGC-ATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAA
* * *
55418 GTCTCATTGAAATATTTATATCCATCTAACCAAATCTCGA-CCACATTGGATTTAAGGATTTGTT
251 GTCTCATTGAAATATCTATATCTATCTAACCAAATCTC-ACCCACATTGGATTTAAAGATTTGTT
* * *
55482 ATTACGAGCATCTAAATC
315 TTTACGAGCATATCAATC
* * * * * ** * *
55500 ATGTTTCGATTTACTTAGAAATTAATTCGGAAAAAATAGGAAAATCGATATTAGAAGTATAAAAA
1 ATGTTTCGATTCAATTAGAAATTAATT-AGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATA
* * * * * * *
55565 GCCTTTTAATCTTTTTGCCGTTGAATTATATTTTTTTTATGAGTATCATGGCAAAAAATTTAGGA
65 GCCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGA
* * * * * *
55630 AAATTCTTTCGGGTAAATTTTCACAAAATTTTAACCGAAATCGTGTATTAACCATCACGGTTTTT
130 AAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTT
55695 TGGTAATAAA
Statistics
Matches: 3092, Mismatches: 662, Indels: 241
0.77 0.17 0.06
Matches are distributed among these distances:
328 2 0.00
329 36 0.01
330 102 0.03
331 142 0.05
332 412 0.13
333 786 0.25
334 301 0.10
335 191 0.06
336 485 0.16
337 221 0.07
338 186 0.06
339 98 0.03
340 93 0.03
341 35 0.01
342 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (332 bp):
ATGTTTCGATTCAATTAGAAATTAATTAGAAAAAATAGGAAAAACAATATTAGAAGCGTGAATAG
CCTTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATAAGTATCGTGGCCAAAAATTGAGGAA
AATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAATCGTGTACTAACTATCACGCTTTTTG
ACTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCATGATTTTTTGGCGCCAAGTCTCATTGA
AATATCTATATCTATCTAACCAAATCTCACCCACATTGGATTTAAAGATTTGTTTTTACGAGCAT
ATCAATC
Found at i:53569 original size:669 final size:668
Alignment explanation
Indices: 50161--55694 Score: 6748
Period size: 669 Copynumber: 8.2 Consensus size: 668
50151 TAATAGGGAA
* * * * * ** * *
50161 AAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTTGGCATTGAGTTATATATTTTTAATG
1 AAAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATG
* * *** ** * * * **
50226 AATATGGTCAACGGAAATTGATGAGAAATGT-TTT-GTGTCAAATTTTGTAAAATTTTAGCCGAA
66 AGTATCGTGGCCAAAAATTGAGGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAA
* *** * * * * *
50289 ATCGTGTACTAACCATCATAATTTTTGACAAAAAACGCATTCCG-GAGCCCCGG-TACTGTTTTG
129 ATCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTG-GCCCCGGCT-CAGTTTTG
* * * * * ** *** * * *
50352 CACGA-TTTTTGG-TGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAAT-TTACCCATA
192 CATGATTTTTTGGCT-TCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACA
* ** * * *** * * *
50414 CTGGATTTAAGGATTTGGTTTTACGAGCATATGAATTATGTTTCG-ATTCAATTTGGAATTAA-G
256 TTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATT-AATTAGAAATTAATT
* * * * * * ** *
50477 CTAGAAAAAATA--G-CAAAAACAATATTAGAAGCCTGAATAGCGTTTCAATCTTTTTGGTC-TT
320 C-GGAAAAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGG-CATT
* * * ** ** * *
50538 GAATTATATATTTTTTATGAGTATCGTGGCCAAAAATTGAGGA-AAAT-TCTTTCGGGTCAATTT
383 GAGTTATATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGT-TTT-GTGTCAATTT
* * * * * * * * ***
50601 TTACAAAATTATAGCCGAAATCGTGTACTAACTATCACGCTTTCTGGC-TAAAAACGCGTTTTAT
446 TTGCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGC-ATTCCG
* * * ** * * * **
50665 G-GCCCCGACTCAGTTTTGCATGATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCT
510 GAGCCCCGGCTCTGTTTTGCACGA-TTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCT
*** * * * * * * * * * * **
50729 AATGAAATCTCAGCTACATTAGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAA
574 AACCTAATCTTACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCG-A
* *
50794 TT-AATTAGAAATTAAT-TCGGAAAAAATAGGG
638 TTCAATTAGGAATTAATCT-AGAAAAAATA-GG
* * * * ** *
50825 AAAAACTGATATTAAAAACGTGAAAAGCCCTTCAATCTTTTTGGCATTGAGTTATATATTTTTTA
1 -AAAAC-GATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTA
* * * ** * * * * *
50890 TGAATATGGTCGCCGGAAATTGATGAGAGATGT-TTT-GTGTCAAATTTTGCAAAATTTTAGCCG
64 TGAGTATCGTGGCCAAAAATTGAGGA-AAAT-TCTTTCGGGTCAATTTTTACAAAATTTTAGCCG
* ** * * * *
50953 AAATCGTGTACTAACTATCACGATTTTTAACAAAAAAACGCATTCCG-GAGCCCCGGCTCTGTTT
127 AAATCGTGTACTAACTATCACGCTTTTTGGC-TAAAAACGCGTTCTGTG-GCCCCGGCTCAGTTT
* ** * * * ** *** * * *
51017 TGCACGA--TTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATCTTACCCAT
190 TGCATGATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCAC
* * * * * * ** *
51080 ACTGGATTTAAAGATTTGTTTCTACGAGCATGTGAATCATGTTTCG-ATTCAATTAGGAATTAA-
255 ATTGGATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATT-AATTAGAAATTAAT
* * ** * * * * * * **
51143 ACTAGAAAAAATA-GG--AAAAATGATATTAGAAGCGTCAATAGCCTTTCAATCTTTTTGGTGTT
319 TC-GGAAAAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATT
* * * * *
51205 GAATTATATATTTTTTATGAATATGATCGCCGGAAATTGATGAGAGATGTTTTGTGTCAAATTTT
383 GAGTTATATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTT
* ** *
51270 GCAAAATTTTAGCCGAAACCGTGTACTAAGTATCACGATTTTTAACAAAAAAACGCATTCCGGAG
448 GCAAAATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGCATTCCGGAG
* **
51335 CCCCGGCTCTATTTTGCACTTTTTTTGGCGCCAAGTCTCATTGAAATATCTA-ATTCCATCTAAC
513 CCCCGGCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATA-TCCATCTAAC
* * *
51399 CTAATCTTACCCATACTGGATTTAAAGATTTGTTTCTACCAGCATATGAATAATGTTTCGATTAT
577 CTAATCTTACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCG---A-
51464 TTATCCAAAAAATAAAATAAAATAATGTTTCGATTCAATTAGGAATTAATCTAGAAAAAATAGG
638 -T-T-C---------AAT----T-A-G----G--------A---ATTAATCTAGAAAAAATAGG
*
51528 AAAAATGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
1 -AAAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
*
51593 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTATCCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
*
51658 TCGTGTACTGACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
130 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
* * *
51723 GCTTTTTTGGCTTCAAGATTAATTGAAATATATATATTTATCTAATGAAATCTCAGGCACATTGG
195 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGG
* * * * *
51788 ATTTAAGGATTTCTTTTTACGGGCTTATCAATCCGGTTTCTAATTAATTAGAAATTAATTC-AAG
260 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGA-
*
51852 AAAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCAGCATTGAGTTA
324 AAAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTA
*
51917 TATATTTTTTATGAATATGGTCGCCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAA
389 TATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAA
* *
51982 TTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAAAAAAAGCATTCCCGAGCC
454 TTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGAC----AAAAAAACGCATTCCGGAGCC
* * *
52047 CCGGCTCTGTTTTGCACGATTTTTTGCGCAAAGTCTCATTGAAATATCTATATCCATTTAACCTA
515 CCGGCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTA
* *
52112 ATCTTACCCATACTGGATTTAAAGATTAGTTTCTACGAGCATATGAATCATGTTTCGATTCAATT
580 ATCTTACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATT
*
52177 AGGAATTAATCGAGAAAAAATAGG
645 AGGAATTAATCTAGAAAAAATAGG
*
52201 ACAAACGATATTAGAAGCGTGAATAGCCTTTCAA-ATTTTTGGTGTTGAATTATATA-TTTTTAT
1 A-AAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
52264 GAGTATCGTGGCC-AAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
* *
52328 TGGTGTACTAACTAACACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
130 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
* * * * * *
52393 GATTTTTTGCCTTCAAGACCAATTGAAATATCTATATTTATCTAGTGAAATCTCAGCCACAATAG
195 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGG
52458 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
260 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
* * * *
52523 AAAATAGGG-AAAAAACAATATTAAAAACGTGAAAAGTCATTTAATCTTTTCGGCATTGGGTTAT
325 AAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTAT
52587 ATA-TTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAAT
390 ATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAAT
* * *
52651 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACGAAAAAACGTATTCCAGAGCCCCGGC
455 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGCATTCCGGAGCCCCGGC
* * *
52716 TCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATGTCTATATCAATCCAACCTAATCTT
520 TCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATCTT
*
52781 ACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTTGGAA
585 ACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGGAA
*
52846 TTAATCTAGAAAAAATAGCA
650 TTAATCTAGAAAAAATAG-G
* *
52866 AAAACGATATTAGAAGCGTGAATAGGCC-TTCAATCATTTTGGTGTTGAATTATATACTTTTTAT
1 AAAACGATATTAGAAGCGTGAATA-GCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
* * *
52930 AAGTATCATGGCCAAAAATTGAAGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
52995 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
130 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
* * *
53060 GATTTTTTGGCTTCAAGACTAATTGAAATATCTATATTTATCTAATGAAATCTCAACCACATTAG
195 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGG
*
53125 ATTTAAGGATTTCTTTTTGCGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
260 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
*
53190 AAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGACATTGAGTTAT
325 AAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTAT
* *
53255 ATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAATTGTTTTGTGTCGAA-TTTTACAAAA
390 ATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTC-AATTTTTGCAAAA
* * *
53319 TTTTAGCCGAAATCGTGTACTAATCATCACGATTTTTGACAAAAACACGCATTCCGGAGCTCCGG
454 TTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGCATTCCGGAGCCCCGG
* *
53384 CTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTCAAATATCTATATCCATCTAACCTATTCT
519 CTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATCT
*
53449 TACCCATACTGGATTTAAAGATTGGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGGA
584 TACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGGA
53514 ATTAATCTAGAAAAAATAGG
649 ATTAATCTAGAAAAAATAGG
53534 AAAGACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
1 AAA-ACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
* *
53599 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCCGGTCAATTTTTACAAAATTTTAGCCAAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
* *
53664 TCGTGTACTAATTATCAC-CTTTTTTGGCTAAAAACGCATTCTGTGGCCCCGGCTCAGTTTTGCA
130 TCGTGTACTAACTATCACGC-TTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCA
*
53728 TGATTTTTTGACTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTG
194 TGATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTG
* *
53793 GATTTAAGGATTTCTTTTTACGAGCTTCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCAGA
259 GATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGA
* * * *
53858 AAAAATAGGCAAAAAAAACAATATTAAAAATGTGAAAAGCCATTCAATCTTTTTGGCATTGAGTT
324 AAAAATAGG-GAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTT
*
53923 ATATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGTAAA
388 ATATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAA
**
53988 ATTTTAGCCGAAATCGTGTACTAACCATCATAATTTTTGAC-AAAAAACGCATTCCGGAGCCCCG
453 ATTTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGCATTCCGGAGCCCCG
54052 GCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATC
518 GCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATC
* * *
54117 TTACCCATACTGGATTTAAAGATTAGTTTCTACGAGCATATGAATCATGTTTCGATTCGATTAGG
583 TTACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGG
54182 AATTAATCTAGAAAAAATAGG
648 AATTAATCTAGAAAAAATAGG
*
54203 ACAAATGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
1 A-AAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
*
54268 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAACTTTTACAAAATTTTAGCCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
*
54333 TGGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
130 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
*
54398 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTGTCTAATGAAATCTCAGCCACATTGG
195 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGG
*
54463 ATTTAAGGATTTCTTTTTACGA-CA-ATCAATCCGGTTTCGAATTAATTAGAAATTAATTCGG-A
260 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
* *
54525 AAAATAGGG-AAAAAACAATATTAGAAGCGTGAAAAG-CCTTCAATCTTTTCGGCATTGAGTTAT
325 AAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTAT
* * * *
54588 ATATTTTTTATGAATATGGTCGCTGGAAGTTGATGAGAAATGTTTTGTATCAATTTTTGCAAAAT
390 ATATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAAT
* ** *
54653 TTTAGCCGAAATCGTGTACTAACCATCACGGTTTTTGACAAAAAAAAACGCATTCCGGAGCAACA
455 TTTAGCCGAAATCGTGTACTAACCATCACGATTTTTGAC--AAAAAAACGCATTCCGGAGCCCCG
*
54718 GCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATATATATCCATCTAACCTAATC
518 GCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATC
* * * *
54783 TTACCCATATTGGATTTAAAAATTTATTTTTACGAGCGTATGAATCATGTTTCGATTCAATTAGG
583 TTACCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGG
* * *
54848 AATTAATTTAGAGAAAATTGG
648 AATTAATCTAGAAAAAATAGG
* *
54869 AAAAACTATATTAGAAGCGTGAATAACCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
1 -AAAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
* *
54934 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCACTATTTACAAAATTTTAGCCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
* * * * *
54999 TCGTGTACTAACTATCACGGTTTTGGGCTAAAAACGCGTTCTGTAGCCCCGACTCAATTTTGCAT
130 TCGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCAT
* * * * * *
55064 GATTTTTTTGCGTCAAGACTAATTGAAATATCTATATTTATCTAACGAAATATCAGCCACATTGA
195 GATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGG
* * * *
55129 ATTTAAGAATTTGTTTTTACGAGCATCTCAATCCGGTTTCGATTTAATTAGAAATTAATTCAGAA
260 ATTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAA
* * * *
55194 AAAATA--GAAAAAAA-AATATTAGAAGCGTGAAAAGCCCTTCAATCTTTTTGGCGTTGAGTTAT
325 AAAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTAT
** * *
55256 GGAGTATATGTTTTATGAATATGGTGGCCGGAAATTGATGAAAAATGGTTTCGTGTCAATTTTTG
390 --A-TAT-T-TTTTATGAATATGGTCACCGGAAATTGATGAGAAAT-GTTTTGTGTCAATTTTTG
* * * * *
55321 CAAAATTTTAGCCGAAATTGTGTACTAACCATCA-TAGTTTTTGAC-TAAAAACGCGATT-TGGG
449 CAAAATTTTAGCCGAAATCGTGTACTAACCATCACGA-TTTTTGACAAAAAAACGC-ATTCCGGA
* * * * *
55383 GTCCCGACTCTGTTTTGCATGATTTTTGGTGCCAAGTCTCATTGAAATATTTATATCCATCTAAC
512 GCCCCGGCTCTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAAC
* * * * * *
55448 CAAATCTCGACCACAT--TGGATTTAAGGATTTGTTATTACGAGCATCTAAATCATGTTTCGATT
577 CTAATCT-TACC-CATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATT
* * * *
55511 TACTTAGAAATTAAT-TCGGAAAAAATAGG
640 CAATTAGGAATTAATCT-AGAAAAAATAGG
** * * * ** *
55540 AAAATCGATATTAGAAGTATAAAAAGCCTTTTAATCTTTTTGCCGTTGAATTATATTTTTTTTAT
1 AAAA-CGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTAT
* * * * * *
55605 GAGTATCATGGCAAAAAATTTAGGAAAATTCTTTCGGGTAAATTTTCACAAAATTTTAACCGAAA
65 GAGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAA
* * *
55670 TCGTGTATTAACCATCACGGTTTTT
130 TCGTGTACTAACTATCACGCTTTTT
55695 TGGTAATAAA
Statistics
Matches: 4364, Mismatches: 401, Indels: 202
0.88 0.08 0.04
Matches are distributed among these distances:
663 121 0.03
664 212 0.05
665 29 0.01
666 634 0.15
667 622 0.14
668 257 0.06
669 1062 0.24
670 393 0.09
671 288 0.07
672 30 0.01
673 85 0.02
674 57 0.01
676 1 0.00
683 3 0.00
684 1 0.00
687 1 0.00
688 2 0.00
689 2 0.00
690 1 0.00
694 3 0.00
700 1 0.00
701 38 0.01
702 123 0.03
703 103 0.02
704 22 0.01
705 2 0.00
706 139 0.03
707 1 0.00
710 130 0.03
711 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (668 bp):
AAAACGATATTAGAAGCGTGAATAGCCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATG
AGTATCGTGGCCAAAAATTGAGGAAAATTCTTTCGGGTCAATTTTTACAAAATTTTAGCCGAAAT
CGTGTACTAACTATCACGCTTTTTGGCTAAAAACGCGTTCTGTGGCCCCGGCTCAGTTTTGCATG
ATTTTTTGGCTTCAAGACTAATTGAAATATATATATTTATCTAATGAAATCTCAGCCACATTGGA
TTTAAGGATTTCTTTTTACGAGCATCTCAATCCGGTTTCGAATTAATTAGAAATTAATTCGGAAA
AAATAGGGAAAAAAACAATATTAAAAACGTGAAAAGCCCTTCAATCTTTTCGGCATTGAGTTATA
TATTTTTTATGAATATGGTCACCGGAAATTGATGAGAAATGTTTTGTGTCAATTTTTGCAAAATT
TTAGCCGAAATCGTGTACTAACCATCACGATTTTTGACAAAAAAACGCATTCCGGAGCCCCGGCT
CTGTTTTGCACGATTTTTGGCGCCAAGTCTCATTGAAATATCTATATCCATCTAACCTAATCTTA
CCCATACTGGATTTAAAGATTTGTTTTTACGAGCATATGAATCATGTTTCGATTCAATTAGGAAT
TAATCTAGAAAAAATAGG
Found at i:65628 original size:6 final size:6
Alignment explanation
Indices: 65584--65617 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
65574 GATGGCCCCC
* *
65584 ATGGGG ATGGGA ATGGGG ATGGGG ATGGGC ATGG
1 ATGGGG ATGGGG ATGGGG ATGGGG ATGGGG ATGG
65618 CGGGAATGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.03, G:0.59, T:0.18
Consensus pattern (6 bp):
ATGGGG
Found at i:72537 original size:2 final size:2
Alignment explanation
Indices: 72525--72557 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
72515 ACACATCATG
*
72525 TA TA CA 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
72558 TAAAGTCACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:81847 original size:12 final size:12
Alignment explanation
Indices: 81832--81917 Score: 50
Period size: 12 Copynumber: 7.2 Consensus size: 12
81822 TTCCTGTTCC
81832 TCCTTATTTTCG
1 TCCTTATTTTCG
* ** *
81844 TCCTTGTCCTCT
1 TCCTTATTTTCG
*
81856 TCCTT-TTCTTCC
1 TCCTTATT-TTCG
*
81868 TCCTTAATTTCG
1 TCCTTATTTTCG
** *
81880 TCCTTATCCTCT
1 TCCTTATTTTCG
*
81892 TCCTT-TTCTTCC
1 TCCTTATT-TTCG
81904 TCCTTATTTTCG
1 TCCTTATTTTCG
81916 TC
1 TC
81918 ATTGTCCTTG
Statistics
Matches: 53, Mismatches: 17, Indels: 8
0.68 0.22 0.10
Matches are distributed among these distances:
11 2 0.04
12 48 0.91
13 3 0.06
ACGTcount: A:0.06, C:0.35, G:0.05, T:0.55
Consensus pattern (12 bp):
TCCTTATTTTCG
Found at i:81872 original size:36 final size:36
Alignment explanation
Indices: 81828--81925 Score: 169
Period size: 36 Copynumber: 2.7 Consensus size: 36
81818 CCTCTTCCTG
81828 TTCCTCCTTATTTTCGTCCTTGTCCTCTTCCTTTTC
1 TTCCTCCTTATTTTCGTCCTTGTCCTCTTCCTTTTC
* *
81864 TTCCTCCTTAATTTCGTCCTTATCCTCTTCCTTTTC
1 TTCCTCCTTATTTTCGTCCTTGTCCTCTTCCTTTTC
*
81900 TTCCTCCTTATTTTCGTCATTGTCCT
1 TTCCTCCTTATTTTCGTCCTTGTCCT
81926 TGTCCTCTTC
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.06, C:0.35, G:0.05, T:0.54
Consensus pattern (36 bp):
TTCCTCCTTATTTTCGTCCTTGTCCTCTTCCTTTTC
Found at i:86678 original size:14 final size:13
Alignment explanation
Indices: 86659--86693 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
86649 TAAAAAGATA
*
86659 AAAAAAAACGCAGG
1 AAAAAAAACCCA-G
86673 AAAAAAAACCCAG
1 AAAAAAAACCCAG
86686 AAAAAAAA
1 AAAAAAAA
86694 TTTCTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.74, C:0.14, G:0.11, T:0.00
Consensus pattern (13 bp):
AAAAAAAACCCAG
Found at i:100208 original size:8 final size:8
Alignment explanation
Indices: 100187--100215 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
100177 AGGGAGGGGC
100187 ATGGCAAT
1 ATGGCAAT
100195 -TGGCAAT
1 ATGGCAAT
100202 ATGGCAAT
1 ATGGCAAT
100210 ATGGCA
1 ATGGCA
100216 TATCTTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (8 bp):
ATGGCAAT
Found at i:114457 original size:27 final size:27
Alignment explanation
Indices: 114427--114481 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
114417 TTTACTTATA
114427 TTTCTTTGTTGAGATTGCATTTAGCCT
1 TTTCTTTGTTGAGATTGCATTTAGCCT
114454 TTTCTTTGTTGAGATTGCATTTAGCCT
1 TTTCTTTGTTGAGATTGCATTTAGCCT
114481 T
1 T
114482 AGTATTCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (27 bp):
TTTCTTTGTTGAGATTGCATTTAGCCT
Found at i:116516 original size:103 final size:104
Alignment explanation
Indices: 116338--116531 Score: 268
Period size: 103 Copynumber: 1.9 Consensus size: 104
116328 TTATGAACAT
* * * *
116338 ATAAGTTGGTCAGGGGGAAATTGGATCCGAACCAGAATAAATGGGCACGAACAGGCTCATAGACT
1 ATAAGTTGGTCAGGGGAAAATTGGATCCGAACCAGAATAAATGGGCACGAACAAGCCCAAAGACT
116403 ATAGCCCACGTTTTT-TAT-CCATACTCAAAACGACAAA
66 ATAGCCCACGTTTTTCTATCCCATACTCAAAACGACAAA
* * ** *
116440 ATAAGTTGGGTCTGGGGAAAATTGGATCCGAACCAGACTAAATGGGC-TTATTCAAGCCCAAAGA
1 ATAAGTT-GGTCAGGGGAAAATTGGATCCGAACCAGAATAAATGGGCACGA-ACAAGCCCAAAGA
116504 CTATAGCCCACGTTTTTCTATCCCATAC
64 CTATAGCCCACGTTTTTCTATCCCATAC
116532 AAACGACGTC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
102 8 0.10
103 62 0.78
104 3 0.04
105 6 0.08
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.24
Consensus pattern (104 bp):
ATAAGTTGGTCAGGGGAAAATTGGATCCGAACCAGAATAAATGGGCACGAACAAGCCCAAAGACT
ATAGCCCACGTTTTTCTATCCCATACTCAAAACGACAAA
Found at i:128738 original size:333 final size:325
Alignment explanation
Indices: 128126--129161 Score: 1423
Period size: 333 Copynumber: 3.2 Consensus size: 325
128116 CTCGAATGAT
* * **
128126 TTTAGCACATAATTTCGGTCAAGATTTTGCAAAAATTGACCTGAATGATTTTTCCCCAATTTTTG
1 TTTAGCACA-GATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTG
* * * *
128191 GCCAAAATACTCATAAAAAATATATAAATCATCGCCAAAAAAATTGAAGGGTTTTTCATGCTTCG
65 GCCAAAATACTCATAAAAAATATATAAATCGTAGCCAAAAAAATTGAAGGGTTTTTAAAGCTTCG
* * *
128256 AATATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCTATTAAATCGAAACCGGATTCTAATGCT
130 AATATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTCTGATGCT
* * *
128321 CGTAAAAACAAATCTTTAAATCTTACGTGGCTAAGATTTGGGTAGATGAATATAGATATTCCAAG
195 CGTAAAAACAAATCTTTAAATCATATGTGGCTGAGATTTGGGTAGATGAATATAGATATTCCAAG
* *
128386 GAGTCTTGGCGCAAAAAATCATACAAAACTGAGCCGGGGCCCCGGAAGGCGTTTTTAGAAGAAAA
260 GAGTCTTGGCGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGAAGAAAA
128451 C
325 C
128452 TGTGATGGTTAGCACACGATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAA
1 -----T--TTAGCACA-GATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAA
* * * *
128517 ATTTTTAGCCAAAATACTCATAAAAAATATATGAATCGTTGCCAAAAAGATTGAAGGGTTTTTAA
58 ATTTTTGGCCAAAATACTCATAAAAAATATATAAATCGTAGCCAAAAAAATTGAAGGGTTTTTAA
* * *
128582 AGCTTCGAATATTGTTTTTCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTA
123 AGCTTCGAATATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTC
* * * *
128647 TGATGCTCGTAAAAAAAAATCTTCAAATCATATGTGGCTGAGATTTAGGCAGATGAATATAGATA
188 TGATGCTCGTAAAAACAAATCTTTAAATCATATGTGGCTGAGATTTGGGTAGATGAATATAGATA
* * *
128712 TTCAAAGGAGTCTTGGCGCCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAACGTGTTTTTAG
253 TTCCAAGGAGTCTTGGCGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAG
**
128777 CCGAAAAC
318 AAGAAAAC
*
128785 TTT------GATTTCGGTCAAGATTTTGCAAAAATTGAGCCGAATGATTTTTCCTAAATTTTTGG
1 TTTAGCACAGATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGG
* * *
128844 CCAAAATACTCATAAAAAATATATAAATCGTAGCCAAAAATATTGAAGGGTTTTTCACA-CTTCA
66 CCAAAATACTCATAAAAAATATATAAATCGTAGCCAAAAAAATTGAAGGGTTTTT-AAAGCTTCG
*
128908 AATATCATTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTCTGATGCT
130 AATATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTCTGATGCT
* * *
128973 CGTAAAAACAAATATTTAAAT-ATTATGTTGCTGAGATTTGGGTAGATGAATATAAATATTCCAA
195 CGTAAAAACAAATCTTTAAATCA-TATGTGGCTGAGATTTGGGTAGATGAATATAGATATTCCAA
* *
129037 GGAGTCTTGGCGCCAAATATCATACAAAACTGAGCCGGGGCCCCGGAACGCATTTTT--------
259 GGAGTCTTGGCGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGAAGAAA
129094 AC
324 AC
*
129096 ---A-CAC-GATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTCAAA-TCTTG
1 TTTAGCACAGATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCT-AAATTTTTG
129155 GCCAAAA
65 GCCAAAA
129162 ATC
Statistics
Matches: 639, Mismatches: 57, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
311 2 0.00
312 56 0.09
313 3 0.00
318 1 0.00
319 278 0.44
320 2 0.00
326 2 0.00
328 1 0.00
331 1 0.00
333 293 0.46
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (325 bp):
TTTAGCACAGATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGG
CCAAAATACTCATAAAAAATATATAAATCGTAGCCAAAAAAATTGAAGGGTTTTTAAAGCTTCGA
ATATCGTTTTTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTCTGATGCTC
GTAAAAACAAATCTTTAAATCATATGTGGCTGAGATTTGGGTAGATGAATATAGATATTCCAAGG
AGTCTTGGCGCCAAAAATCATACAAAACTGAGCCGGGGCCCCGGAACGCGTTTTTAGAAGAAAAC
Found at i:129048 original size:319 final size:312
Alignment explanation
Indices: 128137--129161 Score: 1264
Period size: 319 Copynumber: 3.2 Consensus size: 312
128127 TTAGCACATA
* **
128137 ATTTCGGTCAAGATTTTGCAAAAATTGACCTGAATGATTTTTCCCCAATTTTTGGCCAAAATACT
1 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGGCCAAAATACT
* * * * * * *
128202 CATAAAAAATATATAAATCATCGCCAAAAAAATTGAAGGGTTTTTCATGCTTCGAATATCGTTTT
66 CATAAAAAATATATAAATCGTAGCCAAAAAGATTGAAGGGTTTTTAAAGCTTCAAATATCATTTT
* * * * * *
128267 TCCTATGCTTTTCCGAATTAATTTCCTATTAAATCGAAACCGGATTCTAATGCTCGTAAAAACAA
131 TCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTATGATGCTCGTAAAAAAAA
* * * * * * * * *
128332 ATCTTTAAATCTTACGTGGCTAAGATTTGGGTAGATGAATATAGATATTCCAAGGAGTCTTGGCG
196 ATATTCAAATCATATGTGGCTGAGATTTAGGCAGATGAATATAAATATTCAAAGGAGTCTTGGCG
* * *
128397 CAAAAAATCATACAAAACTGAGCCGGGGCCCCGGAAGGCGTTTTTAGAAGAAAACTGTGATGGTT
261 CCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAA--C----------G--CA-T-T--T--TT
*
128462 AGCACACG
306 A-CAAACG
*
128470 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTAGCCAAAATACT
1 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGGCCAAAATACT
* * * **
128535 CATAAAAAATATATGAATCGTTGCCAAAAAGATTGAAGGGTTTTTAAAGCTTCGAATATTGTTTT
66 CATAAAAAATATATAAATCGTAGCCAAAAAGATTGAAGGGTTTTTAAAGCTTCAAATATCATTTT
128600 TCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTATGATGCTCGTAAAAAAAA
131 TCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTATGATGCTCGTAAAAAAAA
* *
128665 ATCTTCAAATCATATGTGGCTGAGATTTAGGCAGATGAATATAGATATTCAAAGGAGTCTTGGCG
196 ATATTCAAATCATATGTGGCTGAGATTTAGGCAGATGAATATAAATATTCAAAGGAGTCTTGGCG
**
128730 CCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAACGTGTTTTTAGCCGAAAACTTTG
261 CCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAACGCATTTTTA--C--AAAC---G
*
128789 ATTTCGGTCAAGATTTTGCAAAAATTGAGCCGAATGATTTTTCCTAAATTTTTGGCCAAAATACT
1 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGGCCAAAATACT
* *
128854 CATAAAAAATATATAAATCGTAGCCAAAAATATTGAAGGGTTTTTCACA-CTTCAAATATCATTT
66 CATAAAAAATATATAAATCGTAGCCAAAAAGATTGAAGGGTTTTT-AAAGCTTCAAATATCATTT
* * *
128918 TTCCTATGCTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTCTGATGCTCGTAAAAACA
130 TTCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTATGATGCTCGTAAAAAAA
* * * * *
128983 AATATTTAAAT-ATTATGTTGCTGAGATTTGGGTAGATGAATATAAATATTCCAAGGAGTCTTGG
195 AATATTCAAATCA-TATGTGGCTGAGATTTAGGCAGATGAATATAAATATTCAAAGGAGTCTTGG
* * *
129047 CGCCAAATATCATACAAAACTGAGCCGGGGCCCCGGAACGCATTTTTACACACG
259 CGCCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAACGCATTTTTACAAACG
*
129101 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTCAAA-TCTTGGCCAAAA
1 ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCT-AAATTTTTGGCCAAAA
129162 ATC
Statistics
Matches: 627, Mismatches: 56, Indels: 39
0.87 0.08 0.05
Matches are distributed among these distances:
312 56 0.09
313 6 0.01
314 1 0.00
315 4 0.01
316 3 0.00
317 2 0.00
318 2 0.00
319 279 0.44
320 2 0.00
321 1 0.00
331 1 0.00
333 270 0.43
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (312 bp):
ATTTCGGTCAAGATTTTGCAAAAATTGACCCGAATGATTTTTCCTAAATTTTTGGCCAAAATACT
CATAAAAAATATATAAATCGTAGCCAAAAAGATTGAAGGGTTTTTAAAGCTTCAAATATCATTTT
TCCTATACTTTTCCGAATTAATTTCCAATTAAATCGAAACTGGATTATGATGCTCGTAAAAAAAA
ATATTCAAATCATATGTGGCTGAGATTTAGGCAGATGAATATAAATATTCAAAGGAGTCTTGGCG
CCAAAAATCATACAAAACTGAGCCGGAGCCCCGGAACGCATTTTTACAAACG
Done.