Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_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: 2869312
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 11
Found at i:276345 original size:46 final size:45
Alignment explanation
Indices: 276278--276373 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 45
276268 TATGGGCACT
* * *
276278 ATATGTGTAAAACTTAAGAAATTCTTACTAAGTGGATGAATTTCCC
1 ATATGTGTAAAACTTAAGAAATTCGTACTAAGTGAACGAATTT-CC
*
276324 ATATGTGTAAAACTTAAGAAATTCGTACTGAGTGAACGAATTTCC
1 ATATGTGTAAAACTTAAGAAATTCGTACTAAGTGAACGAATTTCC
276369 ATATG
1 ATATG
276374 GACACTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (45 bp):
ATATGTGTAAAACTTAAGAAATTCGTACTAAGTGAACGAATTTCC
Found at i:276398 original size:102 final size:102
Alignment explanation
Indices: 276222--276413 Score: 287
Period size: 102 Copynumber: 1.9 Consensus size: 102
276212 TATGGGCACT
* * ** *
276222 ATATGTGTAAAACTTAATAAATTCATAATAAGTGGACGAATTTATGTATGGGCACTATATGTGTA
1 ATATGTGTAAAACTTAAGAAATTCATAATAAGTGAACGAATTTACATATGGACACTATATGTGTA
276287 AAACTTAAGAAATTC-TTACTAAGTGGATGAATTTCCC
66 AAACTTAAGAAATTCGTT-CTAAGTGGATGAATTTCCC
* * * *
276324 ATATGTGTAAAACTTAAGAAATTCGTACTGAGTGAACGAATTTCCATATGGACACTATATGTGTA
1 ATATGTGTAAAACTTAAGAAATTCATAATAAGTGAACGAATTTACATATGGACACTATATGTGTA
276389 AAACTTAAGAAATTCGTTCTAAGTG
66 AAACTTAAGAAATTCGTTCTAAGTG
276414 AACAAATTTC
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 78 0.98
103 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.33
Consensus pattern (102 bp):
ATATGTGTAAAACTTAAGAAATTCATAATAAGTGAACGAATTTACATATGGACACTATATGTGTA
AAACTTAAGAAATTCGTTCTAAGTGGATGAATTTCCC
Found at i:276481 original size:158 final size:158
Alignment explanation
Indices: 276166--276469 Score: 394
Period size: 158 Copynumber: 1.9 Consensus size: 158
276156 TATGGCCACT
* * * * *
276166 ATATGTGTAAAACTTAAGAAATTCATACTAAGTGGATGAATTTTCGTATGGGCACTATATGTGTA
1 ATATGTGTAAAACTTAAGAAATTCATACTAAGTGAACGAATTTCCATATGGACACTATATGTGTA
* * * * **
276231 AAACTTAATAAATTCATAATAAGTGGACGAATTTATGTATGGGCACTATATGTGTAAAACTTAAG
66 AAACTTAAGAAATTCATAATAAGTGAACAAATTTATGTATGAGCACTATATGTCAAAAACTTAAG
* * *
276296 AAATTCTTACTAAGTGGATGAATTTCCC
131 AAATGCATAATAAGTGGATGAATTTCCC
* *
276324 ATATGTGTAAAACTTAAGAAATTCGTACTGAGTGAACGAATTTCCATATGGACACTATATGTGTA
1 ATATGTGTAAAACTTAAGAAATTCATACTAAGTGAACGAATTTCCATATGGACACTATATGTGTA
* ** * * *
276389 AAACTTAAGAAATTCGTTCTAAGTGAACAAATTTCTGTATGAGCATTATATGTACAAAAAC-TAG
66 AAACTTAAGAAATTCATAATAAGTGAACAAATTTATGTATGAGCACTATATGT-CAAAAACTTAA
276453 GAAATGCATAATAAGTG
130 GAAATGCATAATAAGTG
276470 TATACATTTC
Statistics
Matches: 123, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
158 118 0.96
159 5 0.04
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (158 bp):
ATATGTGTAAAACTTAAGAAATTCATACTAAGTGAACGAATTTCCATATGGACACTATATGTGTA
AAACTTAAGAAATTCATAATAAGTGAACAAATTTATGTATGAGCACTATATGTCAAAAACTTAAG
AAATGCATAATAAGTGGATGAATTTCCC
Found at i:281204 original size:30 final size:31
Alignment explanation
Indices: 281145--281231 Score: 115
Period size: 30 Copynumber: 2.8 Consensus size: 31
281135 TAAGGTGAAC
* * * *
281145 CTTGGGTAGTCTCTGAAGCCCCGAGAACTTT
1 CTTGGGTAGGCTCTCAGGCCCCAAGAACTTT
281176 CTTGGGTAGGC-CTCGAGG-CCCAAGAACTTT
1 CTTGGGTAGGCTCTC-AGGCCCCAAGAACTTT
281206 CTTGGGTAGGCTCTCAGGCCCCAAGA
1 CTTGGGTAGGCTCTCAGGCCCCAAGA
281232 TGCTCCCTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
30 27 0.55
31 22 0.45
ACGTcount: A:0.20, C:0.28, G:0.29, T:0.24
Consensus pattern (31 bp):
CTTGGGTAGGCTCTCAGGCCCCAAGAACTTT
Found at i:282076 original size:163 final size:163
Alignment explanation
Indices: 281806--282206 Score: 696
Period size: 163 Copynumber: 2.5 Consensus size: 163
281796 TGAACCTTAG
* * *
281806 CTCATTACAAAAGTCTGTAGACGGCTGAGTCAATGACGAAAACTTATGAAGTTCCTTTTATCTGC
1 CTCATTACAAAAGTCTGTAGAAGGCTGAGTCAATGAGGAAAACTTATGATGTTCCTTTTATCTGC
* * *
281871 ATGTCCTTTAGCATCACTTGGTAGTTTTGTATTATTGAGCTTCCCAAAGCACACTCTTTTACTCA
66 ATGTCCTTTAGCATCACTTGGTAGTTCTATATTACTGAGCTTCCCAAAGCACACTCTTTTACTCA
281936 CCATTTTAGGTTGCAAGAATCGATCCAGTGCAT
131 CCATTTTAGGTTGCAAGAATCGATCCAGTGCAT
281969 CTCATTACAAAAGTCTGTAGAAGGCTGAGTCAATGAGGAAAACTTATGATGTTCCTTTTATCTGC
1 CTCATTACAAAAGTCTGTAGAAGGCTGAGTCAATGAGGAAAACTTATGATGTTCCTTTTATCTGC
* *
282034 ATGTCCTTTGGCATCACTTGGTAGTTCTATATTACTGAGCTTCCCAAAGCTCACTCTTTTACTCA
66 ATGTCCTTTAGCATCACTTGGTAGTTCTATATTACTGAGCTTCCCAAAGCACACTCTTTTACTCA
282099 CCATTTTAGGTTGCAAGAATCGATCCAGTGCAT
131 CCATTTTAGGTTGCAAGAATCGATCCAGTGCAT
* *
282132 CTCATTACGAAAGTCTGTAGACA-GCTGAGTCAATGAGTAAAACTTATGATGTTCCTTTTATCTG
1 CTCATTACAAAAGTCTGTAGA-AGGCTGAGTCAATGAGGAAAACTTATGATGTTCCTTTTATCTG
282196 CATGTCCTTTA
65 CATGTCCTTTA
282207 ACAAAAAATT
Statistics
Matches: 226, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
163 225 1.00
164 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (163 bp):
CTCATTACAAAAGTCTGTAGAAGGCTGAGTCAATGAGGAAAACTTATGATGTTCCTTTTATCTGC
ATGTCCTTTAGCATCACTTGGTAGTTCTATATTACTGAGCTTCCCAAAGCACACTCTTTTACTCA
CCATTTTAGGTTGCAAGAATCGATCCAGTGCAT
Found at i:285316 original size:32 final size:32
Alignment explanation
Indices: 285248--285318 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
285238 AAGGTGACCC
* ***
285248 TTGGGTAGGCTCTGAGGCCCCAAGAAACTTTT
1 TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCA
**
285280 TTGGGTAGGCTCTCAGGCCCCAAGGCACTCCA
1 TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCA
285312 TTGGGTA
1 TTGGGTA
285319 AATCATGAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.20, C:0.25, G:0.30, T:0.25
Consensus pattern (32 bp):
TTGGGTAGGCTCTCAGGCCCCAAGAAACTCCA
Found at i:289386 original size:15 final size:15
Alignment explanation
Indices: 289366--289396 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
289356 AAGCTGCGAA
289366 ATATTAAAATAACTG
1 ATATTAAAATAACTG
*
289381 ATATTAAAATGACTG
1 ATATTAAAATAACTG
289396 A
1 A
289397 AATACCTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATTAAAATAACTG
Found at i:296037 original size:54 final size:54
Alignment explanation
Indices: 295960--296414 Score: 424
Period size: 54 Copynumber: 8.4 Consensus size: 54
295950 CTATGTGTAC
* * *
295960 TATCGGTACTAAGTGTGCAACTCACGGAATTCATAATGAGTTTGTGAATTATCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* *
296014 TATCGGCACGAAGTGTGCAACTCAC-GAAATTCATAATGAGTTTGTGAATTACTG
1 TATCGGCACTAAGTGTGCAACTCACAG-AATTCATAATGAGTTTGTGAATTACCG
* * * * *
296068 TATCGACACTAAGTGTGCAACTCACAGAATTCATAATGAATTTTTTAATTATCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* * * *
296122 TATCAGCACTTAGTGTGCAACCCACATAATTCATAATGAGTTTGTGAATTACCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* * *
296176 TATCGGAACTAAGTGTGGAACTCAC-GACATTCATAATGAGTTTGTGAATTACCA
1 TATCGGCACTAAGTGTGCAACTCACAGA-ATTCATAATGAGTTTGTGAATTACCG
* * * * * *
296230 TATTGGCAC-ACTA-TGTGTAACCCACAGAACTCATAATGAGTTTATGAATTACCA
1 TATCGGCACTA--AGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* * * * * * *
296284 CATCGACACTATGTGTGCATCCCA-AGAAATTTATAATGATTTTGTGAATTACCG
1 TATCGGCACTAAGTGTGCAACTCACAG-AATTCATAATGAGTTTGTGAATTACCG
** * * * * *
296338 TATCAACACTATGTGTGCAA-TC-CATGGAGTTCATAAT-AGGTTTATGAATTTCCA
1 TATCGGCACTAAGTGTGCAACTCACA--GAATTCATAATGA-GTTTGTGAATTACCG
* *
296392 TTTCGGCACTTA-TGTGCAACTCA
1 TATCGGCACTAAGTGTGCAACTCA
296415 TGTACCATGT
Statistics
Matches: 327, Mismatches: 59, Indels: 29
0.79 0.14 0.07
Matches are distributed among these distances:
53 15 0.05
54 306 0.94
55 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
Found at i:302997 original size:54 final size:54
Alignment explanation
Indices: 302905--303282 Score: 474
Period size: 54 Copynumber: 7.0 Consensus size: 54
302895 CTATAAGTAA
* *
302905 TATCGACACTAAGTGTGTAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* * * * *
302959 TATGGGCACTAAGTGTGCAACTCATAGAATTCACAATGAGATTATGAATTACCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
* * **
303013 TATCAGCACTAAGTGTGTAACTCAC-GAAATTCATAATGAGTTTGTGAATTATTG
1 TATCGGCACTAAGTGTGCAACTCACAG-AATTCATAATGAGTTTGTGAATTACCG
* * *
303067 TATCGGCACTAAGTGTGAAACTCACAGAATTCATATTGAGTTTGTGAATTACCA
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
303121 TATCGGCACTAAGTGTG-AACTCACA-ACATTCATAATGAGTTTGTGAATTACCG
1 TATCGGCACTAAGTGTGCAACTCACAGA-ATTCATAATGAGTTTGTGAATTACCG
* * * * ** * **
303174 TATCGGCACCATGTATGCAACCCATGGAATTCATATTGAGTTTGTGAATTACAT
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
** * *
303228 TATCGGCACTATCTGTGCAACTCACAAAATTCATAATGAGTTTGTGAAATACCG
1 TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
303282 T
1 T
303283 TGTAGATGCT
Statistics
Matches: 275, Mismatches: 44, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.00
53 47 0.17
54 225 0.82
55 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACTCACAGAATTCATAATGAGTTTGTGAATTACCG
Found at i:303341 original size:2 final size:2
Alignment explanation
Indices: 303334--303368 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
303324 ACTTATATTA
* *
303334 AT AT AT AT AT AT AT AT AT AT AT AC AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
303369 ATAATAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:306193 original size:2 final size:2
Alignment explanation
Indices: 306186--306213 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
306176 TGGCATGTAA
306186 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
306214 GTTAGTTTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:306283 original size:2 final size:2
Alignment explanation
Indices: 306276--306300 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
306266 ATTATTTCAT
306276 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
306301 TATGTTTTTA
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:310791 original size:30 final size:30
Alignment explanation
Indices: 310720--310791 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
310710 AAATGTAATT
* *
310720 TTTTGAAAA-TTTAGTGGCTAAAGTATAAA
1 TTTTGAAAAGTTTAGTGCCAAAAGTATAAA
* *
310749 CTTTGTAAAAGTTTAGTGACCAAAATTAT-AA
1 TTTTG-AAAAGTTTAGTG-CCAAAAGTATAAA
310780 TTTTGAAAAGTT
1 TTTTGAAAAGTT
310792 ATATATTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 4 0.11
30 11 0.31
31 13 0.37
32 7 0.20
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTTGAAAAGTTTAGTGCCAAAAGTATAAA
Found at i:312116 original size:5 final size:5
Alignment explanation
Indices: 312106--312480 Score: 750
Period size: 5 Copynumber: 75.0 Consensus size: 5
312096 AAATATTGAT
312106 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312156 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312206 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312256 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312306 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312356 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312406 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA TATGA
312456 TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA
312481 AAGCCCATTG
Statistics
Matches: 370, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 370 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:319037 original size:572 final size:579
Alignment explanation
Indices: 318123--319502 Score: 1591
Period size: 572 Copynumber: 2.4 Consensus size: 579
318113 GTTTTGTAGC
* * *
318123 TTCTCTGAAACATGATACGTACCAGTGTCAAAGATCACAATTCAATGATAGACCTATTTATAATT
1 TTCTCTGAAACATGAT-CATACAAGTGTCAAAGATCACAATTCAATGATACACCTATTTATAATT
* * * *
318188 GCATAATCTTTTTTATTGGGCTTGTGACAAAAACTTCATTGTATATGAGCTGAAAATGGACATAA
65 ACATAATCTTTTTTATT-GACTTGTGA-AAAAA-TTCATTGTACATGAGGTGAAAATGGACATAA
* * * *
318253 TTTTGGATTTAAAAA-AAGATGACAATACACACTATAATCTACACACTTATTTTTTTAATTAAGT
127 GTTTGGATTTAAAAATAA-ATGACAATACACACTATAATTTACACAC-TACTTTTTTAATTAAGA
* * * *
318317 CTTTATTTTTGAAATAACGAAGATACTTTTTCTTAATCATTATAAAATCATATTTAACCCTTAGT
190 CTTTATTTTTGAAATAACGAAGATACTTTTTATTAATCAGTATAAAATAATATTTAACCCTTAAT
* * * *
318382 TTATACATATTTTATTATATTATTTTAATTTAAAACAAATCAATAATTTTGACCCTCCATATTTA
255 TTATACATATTTTATTATATCATCTTAATTTAAAACAAATCAATAATTTTGACCCTCCACATATA
* *
318447 TCAATTTAGCTTTTTATCAACAAGGTTGTTGTAGTATAGTGGTAAGTATCCTAGCTGGTCACGCA
320 TCAATTTAACTATTTATCAACAAGGTTGTTGTAGTATAGTGGTAAGTATCCTAGCTGGTCACGCA
* *** *
318512 AGTGA-TTCAAGTTTGATCCTTGACAATGGTGTTAGA-C-TTTAGTTTTACCTCTTTTTCCACCA
385 AGTGACTT-AAGTTCGATCCTTGACAATGACATTAGACCTTTTAGTTTT-CCTCCTTTTCCACCA
* *
318574 AAATAAAAAGCGCAAAAATAAATTGAAAATGACTAGCATCGA-CCAGACTCGAACCA-AAGACCT
448 AAA-AAAAAGC-CAAAAA-AAATAGAAAATGACTAACATC-ACCCAGACTCGAA-CAGAA-ACCT
* * *
318637 TCAATGTG-T-TA-GAC-TG-A-C-A-T-CAC-A-ACACTTGATGGGCTCCTAATTCCACTACAT
507 TCAATGTGTTATACAACATGAACCAACTACACTACACACCTGATGGCCTCCTAATTCCACTACAT
318691 TTTATAAT
572 TTTATAAT
* * * * *
318699 TTCTATGAAATATGATGCATACAAGTGTCAAATATCACAATTCAATAATACACCTATTTCTAATT
1 TTCTCTGAAACATGAT-CATACAAGTGTCAAAGATCACAATTCAATGATACACCTATTTATAATT
*
318764 ACATAATCTTTTTTATATGACTTGTGAAATTAAA-TCATTGTAGATGAGGTGAAAATGGACATAA
65 ACATAATCTTTTTTAT-TGACTTGTGAAA--AAATTCATTGTACATGAGGTGAAAATGGACATAA
* * * * *
318828 GTTTGGATTTAAAATATATATGATATTACATACTATAATTTA-A-AC-ACTTTTTTAGTTAAGAC
127 GTTTGGATTTAAAA-ATAAATGACAATACACACTATAATTTACACACTACTTTTTTAATTAAGAC
* ** *
318890 TTTATTTTTTAAATTGCGAAGATACTTGTTTATTAATCAGTATAAAATAATTTTTAACCCTTAAT
191 TTTATTTTTGAAATAACGAAGATACTT-TTTATTAATCAGTATAAAATAATATTTAACCCTTAAT
* * *
318955 TTATACATATTTTATTATATCATCTTAATTTAAAA-TAATCAATTATTTTGACCCTCGACATATA
255 TTATACATATTTTATTATATCATCTTAATTTAAAACAAATCAATAATTTTGACCCTCCACATATA
* * * * *
319019 TCAATTTAACTATTTATCAACAAGGTTGTTGTAGTATAGTGGTAAGTATTCTTGTTTGTCATGCA
320 TCAATTTAACTATTTATCAACAAGGTTGTTGTAGTATAGTGGTAAGTATCCTAGCTGGTCACGCA
* ** * ***
319084 AGTGACTTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCCTTTTCCATTGAA
385 AGTGACTTAAGTTCGATCCTTGACAATGACATTAGACCTTTTAGTTTTCCTCCTTTTCCACCAAA
* * * * * *
319149 AAAAATGCTAAAAACAATAGAAAATGACTAACATCACCCATACTCGAATAGGAAACCTTCAGTGT
450 AAAAAAGCCAAAAAAAATAGAAAATGACTAACATCACCCAGACTCGAACA-GAAACCTTCAATGT
* *
319214 GTTATACTAACATGATAACCAACTACACTACGAGACCTGATGGCCTCCTATTTCCACTACATTTT
514 GTTATAC-AACATG--AACCAACTACACTAC-ACACCTGATGGCCTCCTAATTCCACTACATTTT
319279 ATAAT
575 ATAAT
* *
319284 TTCTCTGGAACATGAT-AGTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTATAATT
1 TTCTCTGAAACATGATCA-TACAAGTGTCAAAGATCACAATTCAATGATACACCTATTTATAATT
* * * * *
319348 ACATGATCTTTTTTATTTGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGAAAATAAG
65 ACATAATCTTTTTTA-TTGACTTGTGAAA-AAATTCATTGTACATGAGGTGAAAATGGACATAAG
* * * *
319413 TTTGGATTTAAAAAATAAATGACAGTACACACTATAATTTGCACACTTATTTTTTTTAATTAAGT
128 TTTGGATTT-AAAAATAAATGACAATACACACTATAATTTACACAC-TA-CTTTTTTAATTAAGA
*
319478 CTTTATTTTTGAAATGACGAAGATA
190 CTTTATTTTTGAAATAACGAAGATA
319503 TTTGCTTCTT
Statistics
Matches: 674, Mismatches: 94, Indels: 59
0.81 0.11 0.07
Matches are distributed among these distances:
569 2 0.00
570 39 0.06
571 8 0.01
572 154 0.23
573 81 0.12
574 13 0.02
575 46 0.07
576 99 0.15
577 5 0.01
578 1 0.00
579 1 0.00
580 1 0.00
581 1 0.00
582 3 0.00
583 5 0.01
584 125 0.19
585 53 0.08
586 2 0.00
588 1 0.00
589 34 0.05
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (579 bp):
TTCTCTGAAACATGATCATACAAGTGTCAAAGATCACAATTCAATGATACACCTATTTATAATTA
CATAATCTTTTTTATTGACTTGTGAAAAAATTCATTGTACATGAGGTGAAAATGGACATAAGTTT
GGATTTAAAAATAAATGACAATACACACTATAATTTACACACTACTTTTTTAATTAAGACTTTAT
TTTTGAAATAACGAAGATACTTTTTATTAATCAGTATAAAATAATATTTAACCCTTAATTTATAC
ATATTTTATTATATCATCTTAATTTAAAACAAATCAATAATTTTGACCCTCCACATATATCAATT
TAACTATTTATCAACAAGGTTGTTGTAGTATAGTGGTAAGTATCCTAGCTGGTCACGCAAGTGAC
TTAAGTTCGATCCTTGACAATGACATTAGACCTTTTAGTTTTCCTCCTTTTCCACCAAAAAAAAA
GCCAAAAAAAATAGAAAATGACTAACATCACCCAGACTCGAACAGAAACCTTCAATGTGTTATAC
AACATGAACCAACTACACTACACACCTGATGGCCTCCTAATTCCACTACATTTTATAAT
Found at i:320188 original size:571 final size:572
Alignment explanation
Indices: 319084--320225 Score: 1957
Period size: 571 Copynumber: 2.0 Consensus size: 572
319074 TTGTCATGCA
* *
319084 AGTGACTTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCCTTTTCCATTGAA
1 AGTGACCTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCATTTTCCATTGAA
*
319149 AAAAATGCTAAAAACAATAGAAAATGACTAACATCACCCATACTCGAATAGGAAACCTTCAGTGT
66 AAAAATGCTAAAAACAATAGAAAATGACTAACATCACCCAGACTC-AATAGGAAACCTTCAGTGT
* * *
319214 GTTATACTAACATGATAACCAACTACACTACGAGACCTGATGGCCTCCTATTTCCACTACATTTT
130 GTTATACTAACATGAAAACCAACTACACTACGAGACCAGATAGCCTCCTATTTCCACTACATTTT
319279 ATAATTTCTCTGGAACATGATAGTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTAT
195 ATAATTTCTCTGGAACATGATAGTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTAT
* *
319344 AATTACATGATCTTTTTTATTTGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGAAAA
260 AATTACATGATCTTTTTAATTGGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGAAAA
*
319409 TAAGTTTGGATTTAAAAAATAAATGACAGTACACACTATAATTTGCACACTTATTTTTTTTAATT
325 TAAGTTTAGATTTAAAAAATAAATGACAGTACACACTATAATTTGCACACTTATTTTTTTTAATT
* * * *
319474 AAGTCTTTATTTTTGAAATGACGAAGATATTTGCTTCTTGTAACGACCTGAATCTCGGGTCAGTA
390 AAGTCTTTATTTTTGAAATAACAAAGATACTTGCTTCTTGTAACGACCTGAATCTAGGGTCAGTA
* *
319539 GTTCGGGTCAACCCGAGATCCATAATTTGAGCCCAAAGGATCTATTATTATTAATTTGGACCAAG
455 GTTCAGGTCAACCCGAGACCCATAATTTGAGCCCAAAGGATCTATTATTATTAATTTGGACCAAG
319604 TTTAGTATTAGTGGGCTTGAAGCTAGGCCCAAGAGCTATAGATGGGTGATGTG
520 TTTAGTATTAGTGGGCTTGAAGCTAGGCCCAAGAGCTATAGATGGGTGATGTG
319657 AGTGACCTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCATTTTCCATTGAA
1 AGTGACCTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCATTTTCCATTGAA
* * *
319722 AAAAATGCTAAAAACAATTGAAAATGACTTACATCACCCAGACTC-ATAGGAAGCCTTCAGTGTG
66 AAAAATGCTAAAAACAATAGAAAATGACTAACATCACCCAGACTCAATAGGAAACCTTCAGTGTG
* *
319786 TTATACTAACATGAAAACCAACTACACTACGATACCAGATAGCCTCTTATTTCCACTACATTTTA
131 TTATACTAACATGAAAACCAACTACACTACGAGACCAGATAGCCTCCTATTTCCACTACATTTTA
*
319851 TAATTTCTCTGGAACATGATACGTACAAGTGTCGAAGATCACAATTCAATGATACTCCTATTTAT
196 TAATTTCTCTGGAACATGATA-GTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTAT
*
319916 AATTACATGATCTTTTTAATTGGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGGAAA
260 AATTACATGATCTTTTTAATTGGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGAAAA
*
319981 TAAGTTTAGATTTATAAAATAAATGACAGTACACACTATAATTTGCACACTTA-TTTTTTTAATT
325 TAAGTTTAGATTTAAAAAATAAATGACAGTACACACTATAATTTGCACACTTATTTTTTTTAATT
* * *
320045 AAGTCTTTATTTTTGAAATAACAAAGATACTTGCTTTTTGTAA-TACCCTTAATCTAGGGTCAGT
390 AAGTCTTTATTTTTGAAATAACAAAGATACTTGCTTCTTGTAACGA-CCTGAATCTAGGGTCAGT
*
320109 AGTTCAGGTCAACCCGAGACCCATAATTTGAGCCCAAATGATCTATTATTATTAATTTGGACCAA
454 AGTTCAGGTCAACCCGAGACCCATAATTTGAGCCCAAAGGATCTATTATTATTAATTTGGACCAA
* * * *
320174 TTTTAGTGTTAGTGGGCTTGAAGCTAGGTCCAAGAGCTATATATGGGTGATG
519 GTTTAGTATTAGTGGGCTTGAAGCTAGGCCCAAGAGCTATAGATGGGTGATG
320226 AGAATGTTAT
Statistics
Matches: 536, Mismatches: 31, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
570 1 0.00
571 275 0.51
572 155 0.29
573 105 0.20
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (572 bp):
AGTGACCTAGGTTCGATCCTTGGTAATGACATTAGACCTTTTAGTTTTTCTCATTTTCCATTGAA
AAAAATGCTAAAAACAATAGAAAATGACTAACATCACCCAGACTCAATAGGAAACCTTCAGTGTG
TTATACTAACATGAAAACCAACTACACTACGAGACCAGATAGCCTCCTATTTCCACTACATTTTA
TAATTTCTCTGGAACATGATAGTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTATA
ATTACATGATCTTTTTAATTGGACTTGTAAAAGAAATTCATTGTACATGAGGTTAAAATGAAAAT
AAGTTTAGATTTAAAAAATAAATGACAGTACACACTATAATTTGCACACTTATTTTTTTTAATTA
AGTCTTTATTTTTGAAATAACAAAGATACTTGCTTCTTGTAACGACCTGAATCTAGGGTCAGTAG
TTCAGGTCAACCCGAGACCCATAATTTGAGCCCAAAGGATCTATTATTATTAATTTGGACCAAGT
TTAGTATTAGTGGGCTTGAAGCTAGGCCCAAGAGCTATAGATGGGTGATGTG
Found at i:326477 original size:34 final size:32
Alignment explanation
Indices: 326415--326484 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
326405 ACCTTACAAC
* *
326415 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
326447 TCCCTAGATTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
326481 TCCC
1 TCCC
326485 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:326918 original size:20 final size:21
Alignment explanation
Indices: 326890--326991 Score: 120
Period size: 20 Copynumber: 4.9 Consensus size: 21
326880 CATTCAAAAT
*
326890 GGAGTGCATGGATGCACTGTA
1 GGAGTGCATGGATGCACTGCA
* * *
326911 TG-GTGCATCGATGCACTAG-T
1 GGAGTGCATGGATGCACT-GCA
326931 GGAAGGTGCATGGATGCACTGCA
1 GG-A-GTGCATGGATGCACTGCA
326954 GGAGTGCATGGATGCAC-GCA
1 GGAGTGCATGGATGCACTGCA
326974 GGAGTGCATGGATGCACT
1 GGAGTGCATGGATGCACT
326992 TTGACACCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
20 35 0.51
21 16 0.23
22 2 0.03
23 16 0.23
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (21 bp):
GGAGTGCATGGATGCACTGCA
Found at i:327238 original size:21 final size:21
Alignment explanation
Indices: 327214--327253 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
327204 ATGTTTAATG
327214 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
327235 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
327254 CCAATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:328401 original size:20 final size:19
Alignment explanation
Indices: 328365--328411 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
328355 CTAAATCCTT
*
328365 TTTCAAAATTTCATTTTGCC
1 TTTCAAAATCTCATTTTG-C
*
328385 TTTCAAAATCT-ATTTTTGT
1 TTTCAAAATCTCA-TTTTGC
328404 TTTCAAAA
1 TTTCAAAA
328412 GAAAATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.30, C:0.15, G:0.04, T:0.51
Consensus pattern (19 bp):
TTTCAAAATCTCATTTTGC
Found at i:329800 original size:21 final size:21
Alignment explanation
Indices: 329747--329825 Score: 106
Period size: 21 Copynumber: 3.7 Consensus size: 21
329737 TGAAATGGAT
*
329747 TGCATGGATGCACTAG-TGGCAG
1 TGCATGGATGCACT-GCAGG-AG
329769 CTGCATGGATGCACTGCAGGAG
1 -TGCATGGATGCACTGCAGGAG
*
329791 TGCATAGATGCACTGCAGGAG
1 TGCATGGATGCACTGCAGGAG
329812 TGCATGGATGCACT
1 TGCATGGATGCACT
329826 TTAACACCCT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
21 33 0.63
22 3 0.06
23 16 0.31
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGAG
Found at i:342212 original size:490 final size:488
Alignment explanation
Indices: 341242--342213 Score: 1383
Period size: 490 Copynumber: 2.0 Consensus size: 488
341232 AAATGAAGTT
* * ** * *
341242 ATAACCAGCTACACCACGACACTTGATGGCCTCCTGGTTCCACTACGTTTTATAATTTCTCTTAA
1 ATAACCAACTACACCACGACACTTGATGGACTCCTAATTCCACTACGTCTTATAATTTCTCTGAA
* *
341307 ACATGATACGTACAAGTGTCAAAGATCGTAATTCAATGAGACGCCTATTTATAATTACATAATAT
66 ACATGATACGTACAAGTATCAAAGATCGCAATTCAATGAGACGCCTATTTATAATTACATAATAT
* * **
341372 TTTTTATTGGACTTGTGAAATAAATTCATTGAAGATGAGGTGAAAATGGACATGTGTTTGGATTT
131 TTTTAATTGGACTTGTGAAAGAAATTCATTGAAGATGAGGTGAAAATGGACATAAGTTTGGATTT
*
341437 AAAAATAGACAACAGTACACACTATAATTTACACACTTATTTTTTAATTAAGTCTTTATTTTTTA
196 AAAAATAGACAACAGTACAAACTATAATTTACACACTTATTTTTTAATTAAGTCTTTATTTTTTA
* *
341502 AATGATGAAAATACTTGTTTCATAATCCATATAAAATCTTATTTAACCCTTAATTTGTACATATT
261 AATGATGAAAATAATTGTTTCATAATCCATATAAAATCATATTTAACCCTTAATTTGTACATATT
* *
341567 TTATTATGTCATCTTAATTTAAAATAAATCAATAATTTTGACCCTCCATATATATCAATTTAGCT
326 TTATTATATCATCTTAATTTAAAATAAATCAATAATTTTGACCCTCCACATATATCAATTTAGCT
* * * * * * * * * *
341632 ATTTATCAACAAGGTCGTTGTAGTATTGTGATAGGTATTCTCGCCTGCCATGTGGGTGACCTAGG
391 ATCTATCAACAAGGTCATAGTAGTATAGTGATAAGTATCCCCGCCTGCCACGCGGGTGACCAAGG
* **
341697 TTCGATCCCCGGTAATGGTGTTAGACTGACGTG
456 TTCGATCCCCGGTAACGACGTTAGACTGACGTG
* *
341730 ATAACCAACTACACCATGACACCTT-ATGGGACTCCTAATTCCACTATGTCTTATAATTTCTCTG
1 ATAACCAACTACACCACGACA-CTTGAT-GGACTCCTAATTCCACTACGTCTTATAATTTCTCTG
* * * * *
341794 AAACATGATACGTACTAGTATCGAAGATTGCAATTCAATGATATGCCTATTTATAATTACATAAT
64 AAACATGATACGTACAAGTATCAAAGATCGCAATTCAATGAGACGCCTATTTATAATTACATAAT
* * * *
341859 CTTTTTAATTGGACTTGTGAAAGAAATTCATTGTATATGAGGTGAAGATGGACATAAGTTTGGAT
129 ATTTTTAATTGGACTTGTGAAAGAAATTCATTGAAGATGAGGTGAAAATGGACATAAGTTTGGAT
* ** *
341924 TTGAAAAATATATGACAGTATAAACTATAATTTACACACTTATTTTTTAATTAAGTCTTTATTTT
194 TT-AAAAATAGACAACAGTACAAACTATAATTTACACACTTATTTTTTAATTAAGTCTTTATTTT
* * * *
341989 TTAAATGATGGAGATAATTGTTTCTTAAT-CAGTATAAAATCATATTTAACCCTTAATTTTTACA
258 TTAAATGATGAAAATAATTGTTTCATAATCCA-TATAAAATCATATTTAACCCTTAATTTGTACA
*
342053 TATTTTATTATATCATCTTAATTTAAAATAAATCAATAATTTTGACCCTCCACATTTATCAATTT
322 TATTTTATTATATCATCTTAATTTAAAATAAATCAATAATTTTGACCCTCCACATATATCAATTT
* *
342118 AGCTATCTATCAACAAGGTCATAGTAGTATAGTGATAAGTATCCCCGCTTGTCACGCGGGTGACC
387 AGCTATCTATCAACAAGGTCATAGTAGTATAGTGATAAGTATCCCCGCCTGCCACGCGGGTGACC
* **
342183 AAGAGTT-GATCTCTTGTAACGACGTTAGACT
452 AAG-GTTCGATCCCCGGTAACGACGTTAGACT
342214 TCAGATTTTC
Statistics
Matches: 424, Mismatches: 55, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
488 21 0.05
489 152 0.36
490 248 0.58
491 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (488 bp):
ATAACCAACTACACCACGACACTTGATGGACTCCTAATTCCACTACGTCTTATAATTTCTCTGAA
ACATGATACGTACAAGTATCAAAGATCGCAATTCAATGAGACGCCTATTTATAATTACATAATAT
TTTTAATTGGACTTGTGAAAGAAATTCATTGAAGATGAGGTGAAAATGGACATAAGTTTGGATTT
AAAAATAGACAACAGTACAAACTATAATTTACACACTTATTTTTTAATTAAGTCTTTATTTTTTA
AATGATGAAAATAATTGTTTCATAATCCATATAAAATCATATTTAACCCTTAATTTGTACATATT
TTATTATATCATCTTAATTTAAAATAAATCAATAATTTTGACCCTCCACATATATCAATTTAGCT
ATCTATCAACAAGGTCATAGTAGTATAGTGATAAGTATCCCCGCCTGCCACGCGGGTGACCAAGG
TTCGATCCCCGGTAACGACGTTAGACTGACGTG
Found at i:347409 original size:590 final size:579
Alignment explanation
Indices: 346194--348751 Score: 2585
Period size: 590 Copynumber: 4.4 Consensus size: 579
346184 TACACAAGTT
** * *
346194 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGAATGAATTTAAAAAATAGACGA-A
1 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
* * * *
346258 AGTACACACTATAATTTACACACTTATTTTTTAATTGAGTCTATATTTTTTAAATTA-AAAGGAT
66 A-TACACACTATAATTT--ACAC-TATTTTTTAATTAAGTCTTTATTTTTTAAATGACGAA-GAT
* * * * *
346322 ACTTGTTTCTTAATCAGTATAAAATCATACTTATCCCTTGATTTGTGCTTATTTTATTTTTATCA
126 ACTTGTTTCTTAATCAGTATAAAATCATATTTAACCC-TAATTTGTGCATATTTTA-TTATATCA
* * **
346387 TCTTAATTTAAAATAAATCAATAATTTTGAC-CCTCTACATTTATCAATTTAGCTATCTATCATT
189 TCTTAATTTAAAATAAATCAATAATTTTGACACCTCT-CATTAATCAATTTAGCTATTTATCAAC
* ** *
346451 AAGGTTGTTGTAGTATAATGGTAGGTATTCTT-GCCTATCA--CATGGGTGACCTGGGTTTTGAT
253 AAGGTTGTTGTAGTATAATGGTAAGTATT-TTCGCCTATCATGCA--GGTGACC-CAG-TTCGAT
** * * * * * *
346513 CCCCAATAGCGGTGTTATACTTTAGTTTTTCCTCCTTTTCTATCAAAATAAAAAGTGCTAAAAAC
313 CCCTGACAACGGTGTTAGACTTTAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCGCTAAAAAC
* * ** * * * *
346578 AATTGAAAATGACTAGAATCGCCTAGACTCGTACCGAGGACCTTTAGTGTGTTAGAGTGACGTAA
378 AATTGAAAATGACTAGCATCGCCCAGACTCAAACCGAAGACCTTCAGTGAGTTAGACTGACGTAA
* ** * *
346643 TAACCAATTACACAACGACACCTGATTGACTCTTGGTTCCACTACGTTTTATAATTTCTCTGAAA
443 TAACCAACT--AC-ACG-CA--TGATAAACTC-TAGTTCCACTACGTTTTATAATTTCTCTTAAA
* *
346708 CATGATACGTACAAGTGTCGAAGATCACAATTCAATGATACACCTATTTATAAATTACATAATCC
501 CATGATACGTACAAGTGTCGAAGATCACAATTCAATGATATACCTATTTAT-AATTACATAATCT
346773 TTTTTATTGGACTTG
565 TTTTTATTGGACTTG
*
346788 TGAAAGAAATTCATTGTAGCTGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
1 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
* * * * * *
346853 ATACACGCTATAATTTAGAC-ATTTTTTAAGTAAGTATTCATTTTTAAAATGAC-ATAGATACTT
66 ATACACACTATAATTTACACTATTTTTTAATTAAGTCTTTATTTTTTAAATGACGA-AGATACTT
* *
346916 GTTTCTTAATCAGTATAAAATCATATTTAAACCCTAATTTGTGCATATTTTACTATCTCATCTTA
130 GTTTCTTAATCAGTATAAAATCATATTT-AACCCTAATTTGTGCATATTTTATTATATCATCTTA
346981 ATTTAAAATAAATCAATAATTTTGACACTCTACTATACATTAATCAATTTAGCTATTTATCAACA
194 ATTTAAAATAAATCAATAATTTTGACAC-CT-C--T-CATTAATCAATTTAGCTATTTATCAACA
* * * * *
347046 AGGTCGTTTTAGTATAGT-GTCAAGTATTTTCGCCTGTCATGCAGGTGACCC-GATTCAATCTCC
254 AGGTTGTTGTAGTATAATGGT-AAGTATTTTCGCCTATCATGCAGGTGACCCAG-TTCGATC-CC
* * * *
347109 -GACAACAGTGTTAGACTTTAGTTTTTCTTCCTTTTCCATCGAAATAAAAAGCGCTAAGAGCAAT
316 TGACAACGGTGTTAGACTTTAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCGCTAAAAACAAT
* * * * *
347173 TGAAAACGACTAGCATCGCCCGGACTCAAACTGAAGACCTTCATTGAGTTAGACTGACGTGATAA
381 TGAAAATGACTAGCATCGCCCAGACTCAAACCGAAGACCTTCAGTGAGTTAGACTGACGTAATAA
* *
347238 CCAACTACACCACGACACTTGATAAACTCTTAGTTCCACTA-TTTTTATAATTCCTCTTAAACAT
446 CCAACT--A-CACG-CA--TGATAAACTC-TAGTTCCACTACGTTTTATAATTTCTCTTAAACAT
* * * *
347302 GATACATACAAGTGTCGAAGATCACAAATT-AATGATATGCCTATTTATTATTATATAATCTTTT
504 GATACGTACAAGTGTCGAAGATCAC-AATTCAATGATATACCTATTTATAATTACATAATCTTTT
347366 TTATTGGACTTG
568 TTATTGGACTTG
* *
347378 TGAAAGAAATTCATTGTAGATGAGCTGAAAATGGACATAAGTTAGGATTTAAAAAATAGATGACA
1 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
* *
347443 GTACACATTATAATTTATACACTTATTTTTTAATTAAGTCTTTATATTTTTAAATGACGAAGATA
66 ATACACACTATAA-TT-TACAC-TATTTTTTAATTAAGTCTTTAT-TTTTTAAATGACGAAGATA
* * *
347508 CTTATTTCTTAATCAATATAAAATCATATTTAACCCTTAATTTGTGCATATTTTAATATATCATC
127 CTTGTTTCTTAATCAGTATAAAATCATATTTAACCC-TAATTTGTGCATATTTTATTATATCATC
* * *
347573 TTAATTTAAAATAAATCAATAATTTTGAC-TCTC-CATGTTAATCAATTTAGTTATATATCAACA
191 TTAATTTAAAATAAATCAATAATTTTGACACCTCTCA--TTAATCAATTTAGCTATTTATCAACA
* * * * *
347636 AGGTTGTTGTAGTATAATGGTAAGTATTCTAGCCTATCACGCGGGTGACCCAGTTCGATCCCTGG
254 AGGTTGTTGTAGTATAATGGTAAGTATTTTCGCCTATCATGCAGGTGACCCAGTTCGATCCCTGA
*
347701 CAACGGTGTTAGACTTTAGTTTTTCCTCCTTTTCCATTGAAATAAAAAG-GTCTAAAAACAATTG
319 CAACGGTGTTAGACTTTAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCG-CTAAAAACAATTG
* * * *
347765 AAAATGAC-AGCATCGCCCATAGTTAAACCGTAGACCTT---T-AG-T-G--T---GT--T-A--
383 AAAATGACTAGCATCGCCCAGACTCAAACCGAAGACCTTCAGTGAGTTAGACTGACGTAATAACC
* * * * *
347813 AACTA-ACG--TGAT-AAC-C-A-TCTACACCA-TTTTTATAATTTTTCTTAAACATGATGCGTA
448 AACTACACGCATGATAAACTCTAGT-TCCACTACGTTTTATAATTTCTCTTAAACATGATACGTA
* * **
347870 CAAGTGTCAAAGATCACAATTCCATGATA-AGGATATTTATAATTACATAATCTTTTTTATTGGA
512 CAAGTGTCGAAGATCACAATTCAATGATATA-CCTATTTATAATTACATAATCTTTTTTATTGGA
347934 CTTG
576 CTTG
* * * *
347938 TGAAACAAATTCATTGTAGATTAGGTGAAAATGGACGTAAGTTTGGATTTTAAAAAAATAGATGG
1 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGA-TTT-AAAAAATAGATGA
* ** * * *
348003 CAGTACACACTATAATTTACAC-ATTTTTTAATTAAGTCTTTACCTTTGAAATGGCGATGATACT
64 CAATACACACTATAATTTACACTATTTTTTAATTAAGTCTTTATTTTTTAAATGACGAAGATACT
*
348067 TGTTTCTTAATCAGTATAAAATCATATTTAACCATTAATTTGTGCATATTTTATTATATCATCTT
129 TGTTTCTTAATCAGTATAAAATCATATTTAACC-CTAATTTGTGCATATTTTATTATATCATCTT
* *
348132 AATTTAAAATAAATCAATAATTTTG--ACC-CTCATTAATC-GTTTAGCTA-TTATCAACAATGT
193 AATTTAAAATAAATCAATAATTTTGACACCTCTCATTAATCAATTTAGCTATTTATCAACAAGGT
* * * * * * * *
348192 TGTTGTAG---AGTGGTAAGTA-TTCCCCCTTGTTATGCGGGT-ATCCCAGTTTGATCCCTTACA
258 TGTTGTAGTATAATGGTAAGTATTTTCGCC-TATCATGCAGGTGA-CCCAGTTCGATCCCTGACA
** * ** *
348252 ACGGCATTAGACTTCAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCATTAAAAATAATTGAAA
321 ACGGTGTTAGACTTTAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAA
*** * * * * * * *
348317 ATGACTAGCATCAATCGGACTCGAACTGAAGATCTTCAGTGTGTTAGACTAACGTAATAACCTAC
386 ATGACTAGCATCGCCCAGACTCAAACCGAAGACCTTCAGTGAGTTAGACTGACGTAATAACCAAC
** * *
348382 TACAC-CATGATAGCCTCTGGATTCCA-TAGCGTTTTATAATTTCT-TTGAAACTTGATACGCT-
451 TACACGCATGATAAACTCTAG-TTCCACTA-CGTTTTATAATTTCTCTT-AAACATGATACG-TA
* * * * * **
348443 CAAGTGACGAAAATCACAATTCAATAATTTACCTATTTATAATTACATAATCTTTTTTGTTATAC
512 CAAGTGTCGAAGATCACAATTCAATGATATACCTATTTATAATTACATAATCTTTTTTATTGGAC
348508 TTG
577 TTG
** * * * * * * *
348511 CAAAAGGAATTCATTGTAGATGATGTGAAAATGAACATAAGTTTTGCTTTAAAAAATAGATAATA
1 TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
* * *
348576 ATACACAGTAAAATTTAAACATTTATTTTTTAAATT--GTCTTTATTTTTTAAATGACGAAGATA
66 ATACACACTATAATTT--ACA-CTATTTTTT-AATTAAGTCTTTATTTTTTAAATGACGAAGATA
* * *
348639 -TTTTTTGCTTAATCAGTATAAAATCATATTTAATCCGTAATTTGTACATATTTTATTATAT-AT
127 CTTGTTT-CTTAATCAGTATAAAATCATATTTAA-CCCTAATTTGTGCATATTTTATTATATCAT
* * *
348702 CTTAATTTAAAATAAATGAATAATTTTGAC-CCTCAACATTTATCAATTTA
190 CTTAATTTAAAATAAATCAATAATTTTGACACCTC-TCATTAATCAATTTA
348752 ACTCTCCTGT
Statistics
Matches: 1656, Mismatches: 226, Indels: 181
0.80 0.11 0.09
Matches are distributed among these distances:
548 4 0.00
549 97 0.06
550 19 0.01
552 19 0.01
553 8 0.00
554 7 0.00
555 2 0.00
556 4 0.00
557 102 0.06
558 21 0.01
559 5 0.00
560 135 0.08
561 7 0.00
562 27 0.02
563 4 0.00
564 5 0.00
566 4 0.00
567 2 0.00
568 4 0.00
569 4 0.00
570 1 0.00
571 27 0.02
572 8 0.00
573 156 0.09
574 75 0.05
575 11 0.01
576 12 0.01
577 4 0.00
578 2 0.00
581 1 0.00
583 1 0.00
584 1 0.00
585 2 0.00
586 1 0.00
588 2 0.00
589 63 0.04
590 309 0.19
591 72 0.04
592 158 0.10
593 9 0.01
594 156 0.09
595 102 0.06
596 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (579 bp):
TGAAAGAAATTCATTGTAGATGAGGTGAAAATGGACATAAGTTTGGATTTAAAAAATAGATGACA
ATACACACTATAATTTACACTATTTTTTAATTAAGTCTTTATTTTTTAAATGACGAAGATACTTG
TTTCTTAATCAGTATAAAATCATATTTAACCCTAATTTGTGCATATTTTATTATATCATCTTAAT
TTAAAATAAATCAATAATTTTGACACCTCTCATTAATCAATTTAGCTATTTATCAACAAGGTTGT
TGTAGTATAATGGTAAGTATTTTCGCCTATCATGCAGGTGACCCAGTTCGATCCCTGACAACGGT
GTTAGACTTTAGTTTTTCCTCCTTTTCCATCGAAATAAAAAGCGCTAAAAACAATTGAAAATGAC
TAGCATCGCCCAGACTCAAACCGAAGACCTTCAGTGAGTTAGACTGACGTAATAACCAACTACAC
GCATGATAAACTCTAGTTCCACTACGTTTTATAATTTCTCTTAAACATGATACGTACAAGTGTCG
AAGATCACAATTCAATGATATACCTATTTATAATTACATAATCTTTTTTATTGGACTTG
Found at i:353117 original size:10 final size:10
Alignment explanation
Indices: 353094--353144 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
353084 TATCTCTCTT
353094 GTTT-TTTTA
1 GTTTATTTTA
*
353103 CTTTATTTTA
1 GTTTATTTTA
353113 GTTTATTTTACA
1 GTTTATTTT--A
**
353125 ACTTATTTTA
1 GTTTATTTTA
353135 GTTTATTTTA
1 GTTTATTTTA
353145 CAACTTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 3 0.09
10 22 0.67
12 8 0.24
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.67
Consensus pattern (10 bp):
GTTTATTTTA
Found at i:353121 original size:22 final size:22
Alignment explanation
Indices: 353105--353152 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
353095 TTTTTTTACT
353105 TTATTTTAGTTTATTTTACAAC
1 TTATTTTAGTTTATTTTACAAC
353127 TTATTTTAGTTTATTTTACAAC
1 TTATTTTAGTTTATTTTACAAC
353149 TTAT
1 TTAT
353153 ATGTAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTTTAGTTTATTTTACAAC
Found at i:353623 original size:37 final size:37
Alignment explanation
Indices: 353568--353654 Score: 140
Period size: 37 Copynumber: 2.4 Consensus size: 37
353558 TTAAACCCGC
353568 ACCCGACCCGACCTGACCCGAATATCACACATAAAAA
1 ACCCGACCCGACCTGACCCGAATATCACACATAAAAA
* *
353605 ACCCGACACGA-CTCGACCCGAATATCACACTTAAAAA
1 ACCCGACCCGACCT-GACCCGAATATCACACATAAAAA
353642 ACCCGACCCGACC
1 ACCCGACCCGACC
353655 CGAATAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
36 2 0.04
37 42 0.93
38 1 0.02
ACGTcount: A:0.38, C:0.40, G:0.11, T:0.10
Consensus pattern (37 bp):
ACCCGACCCGACCTGACCCGAATATCACACATAAAAA
Found at i:353904 original size:37 final size:38
Alignment explanation
Indices: 353834--353906 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
353824 AACCCAAACC
*
353834 CGACCCGAATATCACACTTAAAAAAACTCGACCCGACT
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
353872 CGACCCGAATATCACACTT-AAAAAACCCGACCCGA
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGA
353907 ACAAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
37 15 0.44
38 19 0.56
ACGTcount: A:0.40, C:0.36, G:0.11, T:0.14
Consensus pattern (38 bp):
CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
Found at i:354133 original size:38 final size:38
Alignment explanation
Indices: 354081--354153 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
354071 AACCCGAACC
354081 CGACCCGATCCGACCCGAATATCACACTTAAAAAAACT
1 CGACCCGATCCGACCCGAATATCACACTTAAAAAAACT
354119 CGACCCGA-CTCGACCCGAATATCACACTTAAAAAA
1 CGACCCGATC-CGACCCGAATATCACACTTAAAAAA
354154 CCAGACCCGA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
37 1 0.03
38 33 0.97
ACGTcount: A:0.40, C:0.34, G:0.11, T:0.15
Consensus pattern (38 bp):
CGACCCGATCCGACCCGAATATCACACTTAAAAAAACT
Found at i:354387 original size:262 final size:260
Alignment explanation
Indices: 353520--354388 Score: 1306
Period size: 263 Copynumber: 3.4 Consensus size: 260
353510 TATAAGGTAA
* * * *
353520 AATTATAT-TTTTTTCGGGTCGGTCCGATTTTTTTCACCTTAAACCCGCACCCGACCCGACCTGA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
* * *
353584 CCCGAATATCACACAT-AAAAAACCCGACACGACTCGACCCGAATATCACACTTAAAAAACCCGA
66 CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
* *
353648 CCCGACCCGAATAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATTCGACCC
131 CCCGACCC-AACAAAATAAAGTTTCAT-CGACCCGACCCGAATATATGAATTAGAAATCCGACCC
*
353713 GACCCGACCCGAAATAATAAAAAAATATTTTTATTTAATGAAAACAGTGACTTAATCCTACCCGA
194 GACCCGACCCGAAATAAT-AAAAAATATTTTTATTTAAT-AAAACAGTGACTTAATCCGACCCGA
353778 CCCG
257 CCCG
* *
353782 AATTATATATATATTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCC--A----A----ACCCGA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
353837 CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
66 CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
*
353902 CCCG----AACAAAATAAAGTTTCATTCGACCCGACCCGAATATATGAATTAGAAATCCGACCAG
131 CCCGACCCAACAAAATAAAGTTTCA-TCGACCCGACCCGAATATATGAATTAGAAATCCGACCCG
* * *
353963 ACCCGACCCGAAATAGTAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACT
195 ACCCGACCCGAAATAATAAAAAATATTTTTATTTAAT-AAAACAGTGACTTAATCCGACCCGACC
354028 CG
259 CG
* *
354030 AATTATATATATTTTCGGGTCGGTCCG-GTTTTTTCACCCTAAACCCGAACCCGACCCGATCCGA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
*
354094 CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCAGA
66 CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
* *
354159 CCCGACCCAACAAAATAAAGTTTCATCATACCCGACCCGAATATATGAATTACAAATCCGACCCG
131 CCCGACCCAACAAAATAAAGTTTCATC-GACCCGACCCGAATATATGAATTAGAAATCCGACCCG
*
354224 ACCAGACCCGAAATAATAAAAAAGTATTTTTATTTAATAAAATCAGTGACTTAATCCGACCCGAC
195 ACCCGACCCGAAATAATAAAAAA-TATTTTTATTTAATAAAA-CAGTGACTTAATCCGACCCGAC
354289 CCG
258 CCG
* * *
354292 AATTATATATATTTTCGGGTCCGTCCGATTTTTTTCACCCTAAACTCGAACCCGACCCGACCCAA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
354357 CCCGAATATCACACTTAAAAAAAC-CGACCCGA
66 CCCGAATATCACACTTAAAAAAACTCGACCCGA
354389 ATATATGAAT
Statistics
Matches: 554, Mismatches: 32, Indels: 42
0.88 0.05 0.07
Matches are distributed among these distances:
247 18 0.03
248 72 0.13
249 69 0.12
250 1 0.00
253 21 0.04
254 50 0.09
257 74 0.13
260 2 0.00
261 77 0.14
262 79 0.14
263 91 0.16
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (260 bp):
AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
CCCGAATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGA
CCCGACCCAACAAAATAAAGTTTCATCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGA
CCCGACCCGAAATAATAAAAAATATTTTTATTTAATAAAACAGTGACTTAATCCGACCCGACCCG
Found at i:354966 original size:2 final size:2
Alignment explanation
Indices: 354959--354986 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
354949 TCATGTATGA
354959 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
354987 ACACACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:356495 original size:25 final size:22
Alignment explanation
Indices: 356446--356497 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
356436 ATATAAAATT
*
356446 AAATTATTTACGTTTATGTGTA
1 AAATAATTTACGTTTATGTGTA
*
356468 AAATAATTTACGTTTATTTGTA
1 AAATAATTTACGTTTATGTGTA
*
356490 AAAAAATT
1 AAATAATT
356498 ATTGTGTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (22 bp):
AAATAATTTACGTTTATGTGTA
Found at i:359834 original size:26 final size:25
Alignment explanation
Indices: 359805--359854 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
359795 AATATTACAA
359805 TAACTGATATTAAATGATAAATAAAT
1 TAACTGATATTAAATGAT-AATAAAT
*
359831 TAACTGATATTAAATTATAATAAA
1 TAACTGATATTAAATGATAATAAA
359855 CAAAATAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (25 bp):
TAACTGATATTAAATGATAATAAAT
Found at i:360147 original size:3 final size:3
Alignment explanation
Indices: 360141--360174 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
360131 ATCATCATCA
* *
360141 TCG TCG TCG TCA TCG TTG TCG TCG TCG TCG TCG T
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG T
360175 GAGCAGCTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.29, G:0.29, T:0.38
Consensus pattern (3 bp):
TCG
Found at i:360153 original size:12 final size:12
Alignment explanation
Indices: 360138--360174 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
360128 ACCATCATCA
360138 TCATCGTCGTCG
1 TCATCGTCGTCG
*
360150 TCATCGTTGTCG
1 TCATCGTCGTCG
*
360162 TCGTCGTCGTCG
1 TCATCGTCGTCG
360174 T
1 T
360175 GAGCAGCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.05, C:0.30, G:0.27, T:0.38
Consensus pattern (12 bp):
TCATCGTCGTCG
Found at i:362193 original size:8 final size:8
Alignment explanation
Indices: 362155--362197 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
362145 CTGCAAAAAA
362155 AATTAAAT
1 AATTAAAT
*
362163 AAATAAA-
1 AATTAAAT
362170 ATATTAAAT
1 A-ATTAAAT
362179 AATTTAAAT
1 AA-TTAAAT
362188 AATTAAAT
1 AATTAAAT
362196 AA
1 AA
362198 AATAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
7 1 0.03
8 20 0.67
9 9 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AATTAAAT
Found at i:362212 original size:11 final size:12
Alignment explanation
Indices: 362160--362225 Score: 53
Period size: 12 Copynumber: 5.2 Consensus size: 12
362150 AAAAAAATTA
362160 AATAAATAAAAT
1 AATAAATAAAAT
*
362172 ATTAAATAATTTAAAT
1 AATAAAT-A---AAAT
362188 AATTAAATAAAAT
1 AA-TAAATAAAAT
362201 AATAAA-AAAAT
1 AATAAATAAAAT
* *
362212 ACTAAATATAAT
1 AATAAATAAAAT
362224 AA
1 AA
362226 AATATACCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
11 10 0.23
12 15 0.35
13 7 0.16
16 6 0.14
17 5 0.12
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAATAAAAT
Found at i:362737 original size:31 final size:31
Alignment explanation
Indices: 362681--362766 Score: 120
Period size: 31 Copynumber: 2.8 Consensus size: 31
362671 AAAATCACCC
* * * *
362681 AATTATTTTTAGTACTTGTTATTATGGGTTT
1 AATTGTTTTTAATATTTATTATTATGGGTTT
362712 AATT-TTCTTTAATATTTATTATTATGGGTTT
1 AATTGTT-TTTAATATTTATTATTATGGGTTT
362743 AATTGTTTTTAATATTTATTATTA
1 AATTGTTTTTAATATTTATTATTA
362767 GGAGTCAAGT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
30 2 0.04
31 46 0.92
32 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.60
Consensus pattern (31 bp):
AATTGTTTTTAATATTTATTATTATGGGTTT
Found at i:371217 original size:6 final size:6
Alignment explanation
Indices: 371208--371239 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
371198 TTGTAGTTGG
371208 CCAGCC CCAGCC CCAGCC CCAGCC CCAGCC CC
1 CCAGCC CCAGCC CCAGCC CCAGCC CCAGCC CC
371240 GAGTTCGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.69, G:0.16, T:0.00
Consensus pattern (6 bp):
CCAGCC
Found at i:371544 original size:37 final size:39
Alignment explanation
Indices: 371466--371545 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
371456 AACAAGTTGG
* *
371466 AAAATATTTATATATTTTATTTAAAAAATTTAAATTCAT
1 AAAATATTTATATATTTTATTTAAAAAATTGAAAATCAT
*
371505 AAAAT-TTATATATATTTT-TTTATAAAATTGAAAAT-AT
1 AAAATATT-TATATATTTTATTTAAAAAATTGAAAATCAT
371542 AAAA
1 AAAA
371546 ATGTTTAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 6 0.16
38 16 0.43
39 15 0.41
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (39 bp):
AAAATATTTATATATTTTATTTAAAAAATTGAAAATCAT
Found at i:371960 original size:20 final size:20
Alignment explanation
Indices: 371935--371972 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
371925 TTTGGTTCAC
*
371935 GGAATAGAAGATTACCAGTA
1 GGAATAAAAGATTACCAGTA
371955 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
371973 ATAATAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.24, T:0.18
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTA
Found at i:372559 original size:650 final size:653
Alignment explanation
Indices: 371325--372571 Score: 1819
Period size: 650 Copynumber: 1.9 Consensus size: 653
371315 CGGAAATATG
*
371325 ATTACTGAAAATGTTATATTTTGTATTTGATTGGTTTAACAGGAATGTAGAATTACCATGTTTGG
1 ATTACTGAAAATGTTATATTTTGTACTTGATTGGTTTAACAGGAATGTAGAATTACCATGTTTGG
*
371390 CTAAAGGAATAAAAAATTATTGAAATATATATTTGACCAAATTATCTTTATTATATATTTGTTTT
66 CTAAAGGAATAAAAAATTATTGAAATATATATTTGACCAAATTATCCTTATTATATATTTGTTTT
* *
371455 TAACAAGTTGGAAAATATTTATATATTTTATTTAAAAAATTTAAATTCATAAAATTTATATATAT
131 TAACAAGTTAGAAAATATTTATATATTTTATTTAAAAAATTTAAATTCATAAAAGTTATATATAT
* * * *
371520 TTTTTTATAAAATTGAAAATATAAAAATGTTTAATGAAATGGTAAAATTTTATTTTAACCCTTGA
196 TTTTTTACAAAATTAAAAATATAAAAAGGTTTAATGAAATGGTAAAATTTTATTTTAACCCATGA
*
371585 ACTTTATATAAAATTTTAATTATAGATATTTTTTTATAAATCTAAAATAGTTTAAGGATAAATTT
261 ACTTCATATAAAATTTTAATTATAGA-ATTTTTTTATAAATCTAAAATAGTTTAAGGATAAATTT
*
371650 GTAATTTAACATTCATAGAAATTTTTATTATTCAATGACAGAAGAATTATATTTTTGAAAAAAAA
325 GTAATTTAACATTCATAGAAATTTTTATTATTCAATGACAGAAGAATGATA-TTTT-AAAAAAAA
* *
371715 TTAAGGGTATTATAGTCCAAAACGCCAGTAATCCAACAATACATAAGGAAAGGGAGGTAATGACA
388 TTAAGGGCATTATAGTCCAAAACGACAGTAATCCAACAATACATAAGGAAAGGGAGGTAATGACA
* * * * * * * *
371780 TTTCCGGTAATATACTCTAAAAAATCTACTATTGATAATAAAATATTACCGGTAATAAGATTTCC
453 TTCCCAGTAATATACCCCAAAAAATCTACTATTGATAATAAAAGATTACCGGGAATAACATTCCC
* * * *** *
371845 GGCCAACCAAATATGGGAATGCGAATTCCATTCCCATGAGAATCTTACATTCCTTGATCCAAACA
518 GGCCAACCAAACAGGGGAATGCGAATTCCATTCCCATGAGAATCTCACATTCCCCCAACCAAACA
*
371910 CCCCCTAAGGGTGCATTTGGTTCACGGAATAGAAGATTACCAGTAGGAATAAAAGATTACCAGAT
583 CACCCTAAGGGTGCATTTGGTTCACGGAATAGAAGATTACCAGTAGGAATAAAAGATTACCAGAT
371975 AATAGA
648 AATAGA
* * * * * * *
371981 ATTACTGAGAATGTTGTATTTTGTGCTTGGTTGGTTTAGCAGGAATGTA-AGATTGCCGTGTTTG
1 ATTACTGAAAATGTTATATTTTGTACTTGATTGGTTTAACAGGAATGTAGA-ATTACCATGTTTG
* * * * *
372045 GTTAAAGGAATAAAAGATTATT-ATAATGTATATTTGTCCAAATTGTCCTTATTATATATTTGGT
65 GCTAAAGGAATAAAAAATTATTGA-AATATATATTTGACCAAATTATCCTTATTATATATTT-G-
*
372109 TTTTTAACAAGTTAGAAAATATTTATATATTTTCTTTAAAAAAATTTAAATTCAT-AAAGTT-TA
127 TTTTTAACAAGTTAGAAAATATTTATATATTTTATTT-AAAAAATTTAAATTCATAAAAGTTATA
*
372172 TATATTTTTTTACAAAATTAAAAATATAAAAAGGTTTAATGAAA-GAGTAAATTTTTATTTTAAC
191 TATATTTTTTTACAAAATTAAAAATATAAAAAGGTTTAATGAAATG-GTAAAATTTTATTTTAAC
*
372236 TCATGAACTTCATATAAAATTTTAATTATAG-ATTTTTTTATAAATCTAAAATAGTTTAAGGATA
255 CCATGAACTTCATATAAAATTTTAATTATAGAATTTTTTTATAAATCTAAAATAGTTTAAGGATA
* * * * *
372300 AATTTGTAATTTAACCTTCGTA-TAATTTTTGTTATTCAATGACAGAATAATGATA-TTT-AAAA
320 AATTTGTAATTTAACATTCATAGAAATTTTTATTATTCAATGACAGAAGAATGATATTTTAAAAA
* * *
372362 AAATTAAGGGCATTTTAGTCCAAAACGACGGTAATCCAACAATACCTAAGGAAAGGGAGGTAATG
385 AAATTAAGGGCATTATAGTCCAAAACGACAGTAATCCAACAATACATAAGGAAAGGGAGGTAATG
* ** *
372427 ACATTCCCAGTAATATACCCCAAAAAATCTACTATTGGTAATGTAAGATTACCGGGAATGACATT
450 ACATTCCCAGTAATATACCCCAAAAAATCTACTATTGATAATAAAAGATTACCGGGAATAACATT
* * * *
372492 CCCGGCCAACCAAACGGGGGAATGTGGATTCCATTCCTATGAGAATCTCACATTCCCCCAACCAA
515 CCCGGCCAACCAAACAGGGGAATGCGAATTCCATTCCCATGAGAATCTCACATTCCCCCAACCAA
372557 ACACACCCTAAGGGT
580 ACACACCCTAAGGGT
372572 CTATGTTGCA
Statistics
Matches: 526, Mismatches: 59, Indels: 18
0.87 0.10 0.03
Matches are distributed among these distances:
650 185 0.35
652 3 0.01
654 29 0.06
655 55 0.10
656 108 0.21
657 89 0.17
658 40 0.08
659 17 0.03
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (653 bp):
ATTACTGAAAATGTTATATTTTGTACTTGATTGGTTTAACAGGAATGTAGAATTACCATGTTTGG
CTAAAGGAATAAAAAATTATTGAAATATATATTTGACCAAATTATCCTTATTATATATTTGTTTT
TAACAAGTTAGAAAATATTTATATATTTTATTTAAAAAATTTAAATTCATAAAAGTTATATATAT
TTTTTTACAAAATTAAAAATATAAAAAGGTTTAATGAAATGGTAAAATTTTATTTTAACCCATGA
ACTTCATATAAAATTTTAATTATAGAATTTTTTTATAAATCTAAAATAGTTTAAGGATAAATTTG
TAATTTAACATTCATAGAAATTTTTATTATTCAATGACAGAAGAATGATATTTTAAAAAAAATTA
AGGGCATTATAGTCCAAAACGACAGTAATCCAACAATACATAAGGAAAGGGAGGTAATGACATTC
CCAGTAATATACCCCAAAAAATCTACTATTGATAATAAAAGATTACCGGGAATAACATTCCCGGC
CAACCAAACAGGGGAATGCGAATTCCATTCCCATGAGAATCTCACATTCCCCCAACCAAACACAC
CCTAAGGGTGCATTTGGTTCACGGAATAGAAGATTACCAGTAGGAATAAAAGATTACCAGATAAT
AGA
Found at i:372608 original size:18 final size:18
Alignment explanation
Indices: 372587--372626 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
372577 TTGCACGGAT
*
372587 ACGGATACAGATACGGGG
1 ACGGATACAGAGACGGGG
* *
372605 ACGGATACGGGGACGGGG
1 ACGGATACAGAGACGGGG
372623 ACGG
1 ACGG
372627 GAAACGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.47, T:0.07
Consensus pattern (18 bp):
ACGGATACAGAGACGGGG
Found at i:372611 original size:12 final size:12
Alignment explanation
Indices: 372581--372620 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
372571 TCTATGTTGC
**
372581 ACGGATACGGAT
1 ACGGATACGGGG
*
372593 ACAGATACGGGG
1 ACGGATACGGGG
372605 ACGGATACGGGG
1 ACGGATACGGGG
372617 ACGG
1 ACGG
372621 GGACGGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.42, T:0.10
Consensus pattern (12 bp):
ACGGATACGGGG
Found at i:372869 original size:64 final size:64
Alignment explanation
Indices: 372791--372910 Score: 188
Period size: 64 Copynumber: 1.9 Consensus size: 64
372781 AACAAACAAC
* * *
372791 AATATTAAAATGTCAAAT-TTCAAGATTCAAACCATAATATTAACTCTAGAATAATAAAATCCAT
1 AATATTAAAATGTCAAATCTT-AAGACTCAAACCATAATATTAAATCTAGAAAAATAAAATCCAT
*
372855 AATATTAAATTGTCAAATCTTAAGACTCAAACCATAATATTAAATCTAGAAAAATA
1 AATATTAAAATGTCAAATCTTAAGACTCAAACCATAATATTAAATCTAGAAAAATA
372911 TTAAACTCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
64 49 0.96
65 2 0.04
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (64 bp):
AATATTAAAATGTCAAATCTTAAGACTCAAACCATAATATTAAATCTAGAAAAATAAAATCCAT
Found at i:375261 original size:13 final size:13
Alignment explanation
Indices: 375243--375270 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
375233 AACAAAGCAT
375243 GCAAATATAAAAG
1 GCAAATATAAAAG
375256 GCAAATATAAAAG
1 GCAAATATAAAAG
375269 GC
1 GC
375271 GAAAAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.11, G:0.18, T:0.14
Consensus pattern (13 bp):
GCAAATATAAAAG
Found at i:375522 original size:11 final size:11
Alignment explanation
Indices: 375506--375531 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
375496 TTATAAAATG
375506 ATAACCATGTA
1 ATAACCATGTA
375517 ATAACCATGTA
1 ATAACCATGTA
375528 ATAA
1 ATAA
375532 GCAACATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (11 bp):
ATAACCATGTA
Found at i:376953 original size:17 final size:17
Alignment explanation
Indices: 376931--376963 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
376921 ACATTTATTT
*
376931 ATATAAAATATAATATA
1 ATATAAAAAATAATATA
376948 ATATAAAAAATAATAT
1 ATATAAAAAATAATAT
376964 TATAATATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATATAAAAAATAATATA
Found at i:381500 original size:15 final size:15
Alignment explanation
Indices: 381474--381521 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
381464 TTCAAACATC
*
381474 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
381490 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
381507 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
381522 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:387345 original size:22 final size:21
Alignment explanation
Indices: 387303--387342 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
387293 GAGTTTATTT
*
387303 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
387324 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
387343 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:389377 original size:21 final size:21
Alignment explanation
Indices: 389338--389397 Score: 84
Period size: 22 Copynumber: 2.8 Consensus size: 21
389328 CAAACCATTC
* * *
389338 AGGGGGAATCGATACCCCCTT
1 AGGGGGAATCGGTTCCCCTTT
389359 AGGGGAGAATCGGTTCCCCTTT
1 AGGGG-GAATCGGTTCCCCTTT
389381 AGGGGGAATCGGTTCCC
1 AGGGGGAATCGGTTCCC
389398 TCTGAGCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 17 0.49
22 18 0.51
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGGGGAATCGGTTCCCCTTT
Found at i:390913 original size:13 final size:14
Alignment explanation
Indices: 390867--390916 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
390857 AAGTCAACGT
*
390867 GTTGACTCTATCCGA
1 GTTGACTCAAT-CGA
*
390882 GTTGACTCAATCAA
1 GTTGACTCAATCGA
*
390896 GTTGACTCAGT-GA
1 GTTGACTCAATCGA
390909 GTTGACTC
1 GTTGACTC
390917 TGCTTAATCC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 9 0.29
14 12 0.39
15 10 0.32
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (14 bp):
GTTGACTCAATCGA
Found at i:399854 original size:18 final size:20
Alignment explanation
Indices: 399805--399854 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
399795 CTATGCCACC
399805 AGTATCGATACTAAACCCTTG
1 AGTATCGATACTAAA-CCTTG
** *
399826 AGTATAAATACTCAA-C-TG
1 AGTATCGATACTAAACCTTG
399844 AGTATCGATAC
1 AGTATCGATAC
399855 CAAATTTTTC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 11 0.46
19 1 0.04
21 12 0.50
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTAAACCTTG
Found at i:399998 original size:104 final size:104
Alignment explanation
Indices: 399805--400003 Score: 245
Period size: 104 Copynumber: 1.9 Consensus size: 104
399795 CTATGCCACC
* **
399805 AGTATCGATACTAAACCCTTGAGTATAAATACTCAACTGAGTATCGATACCAAATTTTTCTTCAA
1 AGTATCGATACTAAACCCTTGAATATAAATACTCAACTGAGTATCGATACCAAATTTAGCTTCAA
* ***
399870 TGTTTTGAAAAATACCTTGGTATCGATACCCCTATGGGG
66 TGTTTTCAAAAATACCTCAATATCGATACCCCTATGGGG
* *** * * **
399909 AGTATCGATACTAGACCCTTGAATATCGGTACTCAAGTGAGTATTGATACCAAATTTAGCTTTGA
1 AGTATCGATACTAAACCCTTGAATATAAATACTCAACTGAGTATCGATACCAAATTTAGCTTCAA
* *
399974 TGTTTTCAAACATGCCTCAATATCGATACC
66 TGTTTTCAAAAATACCTCAATATCGATACC
400004 AACCCTCTGA
Statistics
Matches: 78, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
104 78 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (104 bp):
AGTATCGATACTAAACCCTTGAATATAAATACTCAACTGAGTATCGATACCAAATTTAGCTTCAA
TGTTTTCAAAAATACCTCAATATCGATACCCCTATGGGG
Found at i:400468 original size:12 final size:12
Alignment explanation
Indices: 400440--400471 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
400430 CCTCTAGCCT
*
400440 TTGAGCTTTCCC
1 TTGATCTTTCCC
400452 TTGATCTTTCCC
1 TTGATCTTTCCC
400464 TTGATCTT
1 TTGATCTT
400472 GCACTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.09, C:0.28, G:0.12, T:0.50
Consensus pattern (12 bp):
TTGATCTTTCCC
Found at i:403586 original size:29 final size:29
Alignment explanation
Indices: 403538--403593 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
403528 ATAAGTCATA
403538 TATATTAGCTCACTAATATCATACCATTT
1 TATATTAGCTCACTAATATCATACCATTT
* *
403567 TATACTTAGCTCA-TGATATCATTCCAT
1 TATA-TTAGCTCACTAATATCATACCAT
403594 ATCTTACAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.67
30 8 0.33
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.41
Consensus pattern (29 bp):
TATATTAGCTCACTAATATCATACCATTT
Found at i:404885 original size:19 final size:18
Alignment explanation
Indices: 404847--404891 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
404837 GCAAATATTC
*
404847 AAAGAAGAAAATAAATCA
1 AAAGAAGAAAATAAAGCA
*
404865 AAAGAAAGAAAATATAGCA
1 AAAG-AAGAAAATAAAGCA
404884 AAA-AAGAA
1 AAAGAAGAA
404892 GAAGTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 4 0.17
19 15 0.62
ACGTcount: A:0.73, C:0.04, G:0.13, T:0.09
Consensus pattern (18 bp):
AAAGAAGAAAATAAAGCA
Found at i:421300 original size:19 final size:19
Alignment explanation
Indices: 421276--421315 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
421266 TGAAAATGAC
421276 TTGATTTTGAAAGAA-AAAA
1 TTGATTTTGAAA-AACAAAA
421295 TTGATTTTGAAAAACAAAA
1 TTGATTTTGAAAAACAAAA
421314 TT
1 TT
421316 AAACTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.50, C:0.03, G:0.12, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAAACAAAA
Found at i:424722 original size:19 final size:19
Alignment explanation
Indices: 424684--424721 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
424674 TGAAAATGAC
*
424684 TTGATTTTGAAAGCAAAAA
1 TTGATTTTGAAAACAAAAA
424703 TTGATTTTGAAAAACAAAA
1 TTGATTTTG-AAAACAAAA
424722 TGAAACTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (19 bp):
TTGATTTTGAAAACAAAAA
Found at i:435346 original size:34 final size:34
Alignment explanation
Indices: 435303--435507 Score: 108
Period size: 34 Copynumber: 5.4 Consensus size: 34
435293 TCAATAATAC
435303 ACCCATATACATTATTCTTTTATGCTGAAAATGT
1 ACCCATATACATTATTCTTTTATGCTGAAAATGT
* *
435337 ACCCATATACATTTAAGCTATGGCATCCTTTCATGC-CAATAATGC
1 ACCCATATACA-TT-A--T-T--C-T--TTT-ATGCTGAA-AATGT
* *
435382 ACCCATATGCATTATTCTTTTATGCTGACAATGT
1 ACCCATATACATTATTCTTTTATGCTGAAAATGT
* *
435416 ACCCATATACATTTCATTTATGGCATCCTTTCATGC-CAATAATGC
1 ACCCATATACA-TT-A--T-T--C-T--TTT-ATGCTGAA-AATGT
* *
435461 ACCCATATGCATTATTCTTTTATGCTGACAATGT
1 ACCCATATACATTATTCTTTTATGCTGAAAATGT
435495 ACCCATATACATT
1 ACCCATATACATT
435508 TAAGCTATGG
Statistics
Matches: 130, Mismatches: 15, Indels: 52
0.66 0.08 0.26
Matches are distributed among these distances:
34 49 0.38
35 12 0.09
36 2 0.02
37 2 0.02
38 4 0.03
39 2 0.02
40 2 0.02
41 4 0.03
42 2 0.02
43 2 0.02
44 13 0.10
45 36 0.28
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (34 bp):
ACCCATATACATTATTCTTTTATGCTGAAAATGT
Found at i:435385 original size:79 final size:79
Alignment explanation
Indices: 435279--435560 Score: 483
Period size: 79 Copynumber: 3.6 Consensus size: 79
435269 ATTTCAGTGA
* * * *
435279 GGCATCCTTTCATGTCAATAATACACCCATATACATTATTCTTTTATGCTGAAAATGTACCCATA
1 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
435344 TACATTTAAGCTAT
66 TACATTTAAGCTAT
435358 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
1 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
* **
435423 TACATTTCATTTAT
66 TACATTTAAGCTAT
435437 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
1 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
435502 TACATTTAAGCTAT
66 TACATTTAAGCTAT
* *
435516 GGCATCCTTTCATGCCAATGATGCACTCATATGCATTATTCTTTT
1 GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTT
435561 TCATTCGTGT
Statistics
Matches: 191, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 191 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (79 bp):
GGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTATGCTGACAATGTACCCATA
TACATTTAAGCTAT
Found at i:435388 original size:45 final size:42
Alignment explanation
Indices: 435332--435552 Score: 123
Period size: 45 Copynumber: 5.4 Consensus size: 42
435322 TTATGCTGAA
*
435332 AATGTACCCATATACATTTAAGCTATGGCATCCTTTCATGCCAAT
1 AATGCACCCATATACATTT-A--TATGGCATCCTTTCATGCCAAT
* ** *
435377 AATGCACCCATATGCA-TTAT-T--C-T--TTT-ATGCTGAC
1 AATGCACCCATATACATTTATATGGCATCCTTTCATGCCAAT
*
435411 AATGTACCCATATACATTTCATTTATGGCATCCTTTCATGCCAAT
1 AATGCACCCATATACATTT-A--TATGGCATCCTTTCATGCCAAT
* ** *
435456 AATGCACCCATATGCA-TTAT-T--C-T--TTT-ATGCTGAC
1 AATGCACCCATATACATTTATATGGCATCCTTTCATGCCAAT
*
435490 AATGTACCCATATACATTTAAGCTATGGCATCCTTTCATGCCAAT
1 AATGCACCCATATACATTT-A--TATGGCATCCTTTCATGCCAAT
* * *
435535 GATGCACTCATATGCATT
1 AATGCACCCATATACATT
435553 ATTCTTTTTC
Statistics
Matches: 130, Mismatches: 24, Indels: 44
0.66 0.12 0.22
Matches are distributed among these distances:
34 38 0.29
35 10 0.08
36 2 0.02
37 2 0.02
38 4 0.03
39 2 0.02
40 2 0.02
41 4 0.03
42 2 0.02
43 2 0.02
44 10 0.08
45 52 0.40
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (42 bp):
AATGCACCCATATACATTTATATGGCATCCTTTCATGCCAAT
Found at i:436130 original size:19 final size:19
Alignment explanation
Indices: 436058--436132 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 19
436048 TCGATGTTTC
*
436058 ATGGTATCGATA-CCCTTT
1 ATGGTATCGATACCCCATT
*
436076 ACGTAGTATCGATACTACCCTATT
1 A--TGGTATCGATAC--CCC-ATT
*
436100 ATGGTA-CTGATACCCCCTT
1 ATGGTATC-GATACCCCATT
436119 ATGGTATCGATACC
1 ATGGTATCGATACC
436133 GAAATTAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 15
0.70 0.06 0.23
Matches are distributed among these distances:
18 1 0.02
19 14 0.31
20 14 0.31
21 1 0.02
22 9 0.20
23 3 0.07
24 3 0.07
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.33
Consensus pattern (19 bp):
ATGGTATCGATACCCCATT
Found at i:436218 original size:14 final size:14
Alignment explanation
Indices: 436199--436225 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
436189 CCTCAACGGT
436199 ATCGATACTGATTC
1 ATCGATACTGATTC
436213 ATCGATACTGATT
1 ATCGATACTGATT
436226 GAATCAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.37
Consensus pattern (14 bp):
ATCGATACTGATTC
Found at i:442491 original size:79 final size:79
Alignment explanation
Indices: 442363--442572 Score: 341
Period size: 79 Copynumber: 2.7 Consensus size: 79
442353 GATAATGCAC
* *
442363 CCATATACATTTCAGCGA-GGCATCCTTTCATGCCAATAATGTACCCATATGCATTATTCTTTTA
1 CCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA
442427 CGCTGAAAATGTAA
66 CGCTGAAAATGTAA
* *
442441 CCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACTCATATGCATTATTCTTTTA
1 CCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA
* * *
442506 TGCTGACAATGTAC
66 CGCTGAAAATGTAA
*
442520 CCATATACATTTCAGTTATGGCATCCTTTCATGCCAATAATGCACCCATATGC
1 CCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGC
442573 TGACAATGTA
Statistics
Matches: 121, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
78 16 0.13
79 105 0.87
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (79 bp):
CCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCACCCATATGCATTATTCTTTTA
CGCTGAAAATGTAA
Found at i:442583 original size:64 final size:64
Alignment explanation
Indices: 442504--442635 Score: 255
Period size: 64 Copynumber: 2.1 Consensus size: 64
442494 ATTATTCTTT
*
442504 TATGCTGACAATGTACCCATATACATTTCAGTTATGGCATCCTTTCATGCCAATAATGCACCCA
1 TATGCTGACAATGTACCCATATACATTTCAGATATGGCATCCTTTCATGCCAATAATGCACCCA
442568 TATGCTGACAATGTACCCATATACATTTCAGATATGGCATCCTTTCATGCCAATAATGCACCCA
1 TATGCTGACAATGTACCCATATACATTTCAGATATGGCATCCTTTCATGCCAATAATGCACCCA
442632 TATG
1 TATG
442636 TATTATTCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (64 bp):
TATGCTGACAATGTACCCATATACATTTCAGATATGGCATCCTTTCATGCCAATAATGCACCCA
Found at i:442688 original size:143 final size:143
Alignment explanation
Indices: 442428--442715 Score: 488
Period size: 143 Copynumber: 2.0 Consensus size: 143
442418 ATTCTTTTAC
*
442428 GCTGAAAATGTAACCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACTCATATG
1 GCTGAAAATGTAACCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATG
* *
442493 CATTATTCTTTTATGCTGACAATGTACCCATATACATTTCAGTTATGGCATCCTTTCATGCCAAT
66 CATTATTCTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGACATCCTTTCATGCCAAT
442558 AATGCACCCATAT
131 AATGCACCCATAT
* *
442571 GCTGACAATGTACCCATATACATTTCAGA-TATGGCATCCTTTCATGCCAATAATGCACCCATAT
1 GCTGAAAATGTAACCATATACATTTCA-ACTATGGCATCCTTTCATGCCAATAATGCACCCATAT
* * *
442635 GTATTATTCTTTTATGCTGATAATGTACCCATATACATTTTAGCTATGACATCCTTTCATGCCAA
65 GCATTATTCTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGACATCCTTTCATGCCAA
442700 TAATGCACCCATAT
130 TAATGCACCCATAT
442714 GC
1 GC
442716 ATTATTCTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
143 135 0.99
144 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.34
Consensus pattern (143 bp):
GCTGAAAATGTAACCATATACATTTCAACTATGGCATCCTTTCATGCCAATAATGCACCCATATG
CATTATTCTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGACATCCTTTCATGCCAAT
AATGCACCCATAT
Found at i:442699 original size:79 final size:79
Alignment explanation
Indices: 442568--442726 Score: 273
Period size: 79 Copynumber: 2.0 Consensus size: 79
442558 AATGCACCCA
*
442568 TATGCTGACAATGTACCCATATACATTTCAGATATGGCATCCTTTCATGCCAATAATGCACCCAT
1 TATGCTGACAATGTACCCATATACATTTCAGATATGACATCCTTTCATGCCAATAATGCACCCAT
*
442633 ATGTATTATTCTTT
66 ATGCATTATTCTTT
* * *
442647 TATGCTGATAATGTACCCATATACATTTTAGCTATGACATCCTTTCATGCCAATAATGCACCCAT
1 TATGCTGACAATGTACCCATATACATTTCAGATATGACATCCTTTCATGCCAATAATGCACCCAT
442712 ATGCATTATTCTTT
66 ATGCATTATTCTTT
442726 T
1 T
442727 TCATTCGTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (79 bp):
TATGCTGACAATGTACCCATATACATTTCAGATATGACATCCTTTCATGCCAATAATGCACCCAT
ATGCATTATTCTTT
Found at i:446449 original size:20 final size:20
Alignment explanation
Indices: 446426--446463 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
446416 CGATACCCTT
*
446426 TCAATGATATCGATACTGCC
1 TCAATGATATCCATACTGCC
*
446446 TCAATGGTATCCATACTG
1 TCAATGATATCCATACTG
446464 ATTGAATCAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (20 bp):
TCAATGATATCCATACTGCC
Found at i:448994 original size:2 final size:2
Alignment explanation
Indices: 448989--449030 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
448979 GTATAAATAA
448989 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
449031 TATTACAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:449504 original size:31 final size:31
Alignment explanation
Indices: 449466--449524 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
449456 ATTAATAGAA
* *
449466 TTTTTTTA-TATTTTTTTTCTAGTTAGGTTAT
1 TTTTTTTATTAATATTTTT-TAGTTAGGTTAT
449497 TTTTTTTATTAATATTTTTTAGTTAGGT
1 TTTTTTTATTAATATTTTTTAGTTAGGT
449525 CAATTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.19, C:0.02, G:0.10, T:0.69
Consensus pattern (31 bp):
TTTTTTTATTAATATTTTTTAGTTAGGTTAT
Found at i:450002 original size:16 final size:16
Alignment explanation
Indices: 449943--450002 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
449933 GGTTACTTCA
**
449943 GAATAA-TTAAACGTT
1 GAATAATTTAAATATT
449958 GAATAATTTAAATATT
1 GAATAATTTAAATATT
* *
449974 AAATGATTTAAATATT
1 GAATAATTTAAATATT
*
449990 GAATAATTCAAAT
1 GAATAATTTAAAT
450003 GTTCTGTATG
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 6 0.16
16 31 0.84
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.38
Consensus pattern (16 bp):
GAATAATTTAAATATT
Found at i:450090 original size:27 final size:27
Alignment explanation
Indices: 450052--450140 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
450042 ATAATGACTC
450052 TGAATCATTCAAAATGTACTTTGATGT
1 TGAATCATTCAAAATGTACTTTGATGT
450079 TGAATCATTCAAAATGTACTTTGATGT
1 TGAATCATTCAAAATGTACTTTGATGT
* *
450106 TGAATCATTCAATA-CTA-TTT--TGT
1 TGAATCATTCAAAATGTACTTTGATGT
450129 TGAATCATTCAA
1 TGAATCATTCAA
450141 CATTCTTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
23 15 0.25
25 3 0.05
26 2 0.03
27 40 0.67
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (27 bp):
TGAATCATTCAAAATGTACTTTGATGT
Found at i:450149 original size:23 final size:26
Alignment explanation
Indices: 450052--450156 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
450042 ATAATGACTC
450052 TGAATCATTCAAAATGTACTTTGATGT
1 TGAATCATTCAAAATGTACTTT-ATGT
450079 TGAATCATTCAAAATGTACTTTGATGT
1 TGAATCATTCAAAATGTACTTT-ATGT
* *
450106 TGAATCATTCAATA-CTA-TTT-TGT
1 TGAATCATTCAAAATGTACTTTATGT
*
450129 TGAATCATTCAACAT-T-CTTT-TGT
1 TGAATCATTCAAAATGTACTTTATGT
450152 TGAAT
1 TGAAT
450157 TAATCAGCAC
Statistics
Matches: 73, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
23 28 0.38
25 3 0.04
26 2 0.03
27 40 0.55
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (26 bp):
TGAATCATTCAAAATGTACTTTATGT
Found at i:450183 original size:38 final size:38
Alignment explanation
Indices: 450129--450215 Score: 138
Period size: 38 Copynumber: 2.3 Consensus size: 38
450119 ACTATTTTGT
* *
450129 TGAATCATTCAACATTCTTTTGTTGAATTAATCAGCAC
1 TGAATCATTCAACATTCTTTTGCTGAATCAATCAGCAC
* *
450167 TGGATCATTCAACATTCTTTTGCTGAATCAGTCAGCAC
1 TGAATCATTCAACATTCTTTTGCTGAATCAATCAGCAC
450205 TGAATCATTCA
1 TGAATCATTCA
450216 GAGGTGAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.37
Consensus pattern (38 bp):
TGAATCATTCAACATTCTTTTGCTGAATCAATCAGCAC
Found at i:451856 original size:29 final size:27
Alignment explanation
Indices: 451784--451859 Score: 95
Period size: 25 Copynumber: 2.9 Consensus size: 27
451774 TATATTATAG
*
451784 ATATTAATTTTAATATTAA-TTTTTTA
1 ATATTAATTATAATATTAATTTTTTTA
*
451810 A-ATAAATTA-AATATTAATTTTTTTA
1 ATATTAATTATAATATTAATTTTTTTA
451835 ATATTATATTATAGATATTAATTTT
1 ATATTA-ATTATA-ATATTAATTTT
451860 AATATTAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 8 0.19
25 14 0.33
26 4 0.10
27 4 0.10
28 1 0.02
29 11 0.26
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
ATATTAATTATAATATTAATTTTTTTA
Found at i:451900 original size:40 final size:41
Alignment explanation
Indices: 451819--451906 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 41
451809 AAATAAATTA
*
451819 AATATTAATTTTTTTAATATTATATTATAGATATTAATTTT
1 AATATTAATTTTTTTAATATTAAATTATAGATATTAATTTT
451860 AATATTAATTTTTTTTAA-A-TAAATTA-A-ATATTAATTTTTT
1 AATATTAA-TTTTTTTAATATTAAATTATAGATATTAA--TTTT
451900 AATATTA
1 AATATTA
451907 TATTGTATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
38 7 0.16
39 1 0.02
40 17 0.40
41 9 0.21
42 9 0.21
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (41 bp):
AATATTAATTTTTTTAATATTAAATTATAGATATTAATTTT
Found at i:451971 original size:64 final size:64
Alignment explanation
Indices: 451773--451991 Score: 357
Period size: 64 Copynumber: 3.4 Consensus size: 64
451763 ATATTTATTT
451773 TTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTTAATA
1 TTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAA-TTTTTTAATA
451838 TTATATTATAGATATTAATTTTAATATTAATTTTTTTTAAATAAATTAAATATTAATTTTTTAAT
1 TTATATTATAGATATTAATTTTAATATTAA--TTTTTTAAATAAATTAAATATTAATTTTTTAAT
451903 A
64 A
* * * * *
451904 TTATATTGTATATATTCATTTTAATATTAATTTTTCAAATAAATTAAATATTAATTTCTTAATA
1 TTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATA
451968 TTATATTATAGATATTTAATTTTA
1 TTATATTATAGATA-TTAATTTTA
451992 TATCATATAA
Statistics
Matches: 143, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
64 44 0.31
65 38 0.27
66 37 0.26
67 24 0.17
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (64 bp):
TTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATTTTTTAATA
Found at i:452071 original size:29 final size:29
Alignment explanation
Indices: 452038--452093 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
452028 ATATTTATTT
452038 TATTTATTTT-GATTTAAGTTTAAATATAA
1 TATTT-TTTTGGATTTAAGTTTAAATATAA
452067 TATTTTTTTGGATTTAAGTTTAAATAT
1 TATTTTTTTGGATTTAAGTTTAAATAT
452094 TTTCTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (29 bp):
TATTTTTTTGGATTTAAGTTTAAATATAA
Found at i:452580 original size:16 final size:16
Alignment explanation
Indices: 452559--452599 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
452549 TTAAAAAATT
452559 AGTTTATTTATATTTC
1 AGTTTATTTATATTTC
*
452575 AGTTTATTTATATTTT
1 AGTTTATTTATATTTC
452591 AGTTTATTT
1 AGTTTATTT
452600 TAGCAGTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (16 bp):
AGTTTATTTATATTTC
Found at i:455859 original size:17 final size:18
Alignment explanation
Indices: 455837--455882 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
455827 ATAAAATATG
455837 TATTTTTTAA-AATAAAA
1 TATTTTTTAATAATAAAA
455854 TA-TTTTTAATAATAAAA
1 TATTTTTTAATAATAAAA
*
455871 TA-TATTTAATAA
1 TATTTTTTAATAA
455883 GTTACTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 7 0.26
17 20 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTTTTTAATAATAAAA
Found at i:455877 original size:19 final size:18
Alignment explanation
Indices: 455826--455877 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 18
455816 TTTAGATGAG
455826 AATAAAATATGTATTTTTTAA
1 AATAAAATA--TA-TTTTTAA
455847 AAT-AAA-ATATTTTTAA
1 AATAAAATATATTTTTAA
455863 TAATAAAATATATTT
1 -AATAAAATATATTT
455878 AATAAGTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 7 0.25
17 5 0.18
18 3 0.11
19 7 0.25
20 3 0.11
21 3 0.11
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
AATAAAATATATTTTTAA
Found at i:456133 original size:5 final size:5
Alignment explanation
Indices: 456123--456154 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
456113 AAATAAATAT
*
456123 ATTAA ATTAA ATTAA AATAA ATTAA ATTAA AT
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA AT
456155 ATATTCCTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:456146 original size:20 final size:20
Alignment explanation
Indices: 456117--456154 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
456107 AGTTGAAAAT
*
456117 AAATATATTAAATTAAATTA
1 AAATAAATTAAATTAAATTA
456137 AAATAAATTAAATTAAAT
1 AAATAAATTAAATTAAAT
456155 ATATTCCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAAATTAAATTAAATTA
Found at i:459883 original size:15 final size:15
Alignment explanation
Indices: 459863--459901 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
459853 AATCTATTAT
459863 TTATTGGGATACTGA
1 TTATTGGGATACTGA
*
459878 TTATTGGGATATTGA
1 TTATTGGGATACTGA
459893 TTATTGGGA
1 TTATTGGGA
459902 CAATGTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.44
Consensus pattern (15 bp):
TTATTGGGATACTGA
Found at i:460555 original size:18 final size:18
Alignment explanation
Indices: 460532--460584 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
460522 ACTGAATATT
*
460532 TGTCCCGAAGGACTACTA
1 TGTCCCGAAGGACCACTA
*
460550 TGTCCCAAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
460568 TGTCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
460585 CCTTAAGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:466471 original size:31 final size:32
Alignment explanation
Indices: 466419--466506 Score: 115
Period size: 31 Copynumber: 2.8 Consensus size: 32
466409 GTGACTTTGG
* *
466419 GTAGGCACTCAGGCCCCAAGGTATTTCCTTGA
1 GTAGGCTCTAAGGCCCCAAGGTATTTCCTTGA
* *
466451 GTAGGCTCTAAGG-CCCAAGGTACTTCCTTGG
1 GTAGGCTCTAAGGCCCCAAGGTATTTCCTTGA
* *
466482 GTAGGCTCTTAGGCCCCAAGATATT
1 GTAGGCTCTAAGGCCCCAAGGTATT
466507 CATTTAGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 28 0.58
32 20 0.42
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (32 bp):
GTAGGCTCTAAGGCCCCAAGGTATTTCCTTGA
Found at i:468854 original size:20 final size:20
Alignment explanation
Indices: 468829--468895 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
468819 TTTTCCAAAT
*
468829 TCGCAACGCAAATAGGTAAA
1 TCGCAACGCAAATATGTAAA
468849 TCGCAACG-ATAATATGTAAA
1 TCGCAACGCA-AATATGTAAA
* *
468869 TCGCAACACGAATATGTAAA
1 TCGCAACGCAAATATGTAAA
*
468889 TTGCAAC
1 TCGCAAC
468896 ACAGAAGTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.98
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (20 bp):
TCGCAACGCAAATATGTAAA
Found at i:469253 original size:20 final size:20
Alignment explanation
Indices: 469228--469293 Score: 80
Period size: 20 Copynumber: 3.3 Consensus size: 20
469218 TTTGTGTTGT
469228 GATTTACATATTATCATTGC
1 GATTTACATATTATCATTGC
* * *
469248 GATTTACCTATTAACATTGT
1 GATTTACATATTATCATTGC
*
469268 GAATTACATATTATCGA-TGC
1 GATTTACATATTATC-ATTGC
469288 GATTTA
1 GATTTA
469294 ACTATTCGCA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 36 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
GATTTACATATTATCATTGC
Found at i:469306 original size:40 final size:40
Alignment explanation
Indices: 469224--469299 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
469214 AGAATTTGTG
* *
469224 TTGTGATTTACATATTATCATTGCGATTTACCTATTAACA
1 TTGTGAATTACATATTATCATTGCGATTTAACTATTAACA
469264 TTGTGAATTACATATTATCGA-TGCGATTTAACTATT
1 TTGTGAATTACATATTATC-ATTGCGATTTAACTATT
469300 CGCATTGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (40 bp):
TTGTGAATTACATATTATCATTGCGATTTAACTATTAACA
Found at i:469308 original size:20 final size:19
Alignment explanation
Indices: 469285--469343 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
469275 ATATTATCGA
469285 TGCGATTTAACTATTCGCAT
1 TGCGATTTAACT-TTCGCAT
* *
469305 TGCGAATTTGACTTTCGCGT
1 TGCG-ATTTAACTTTCGCAT
* *
469325 TGTGATTTTGACTTTCGCA
1 TGCGA-TTTAACTTTCGCA
469344 ACGCGATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 25 0.76
21 7 0.21
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (19 bp):
TGCGATTTAACTTTCGCAT
Found at i:469312 original size:40 final size:40
Alignment explanation
Indices: 469231--469312 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 40
469221 GTGTTGTGAT
* *
469231 TTACATATTATCATTGCGATTTACCTATTAACATTGTGAA
1 TTACATATTATCATTGCGATTTAACTATTAACATTGCGAA
**
469271 TTACATATTATCGA-TGCGATTTAACTATTCGCATTGCGAA
1 TTACATATTATC-ATTGCGATTTAACTATTAACATTGCGAA
469311 TT
1 TT
469313 TGACTTTCGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.97
41 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (40 bp):
TTACATATTATCATTGCGATTTAACTATTAACATTGCGAA
Found at i:469564 original size:166 final size:173
Alignment explanation
Indices: 469362--469678 Score: 432
Period size: 180 Copynumber: 1.8 Consensus size: 173
469352 CTCCAAAACC
469362 GCAACGCGAATTTCATTTTCACAACGCTAATTACCTATATCGGTAATT-GG-T-G-TT-A-T-GA
1 GCAACGCGAATTTCATTTTCACAACGCTAATTACCTATATCGGTAATTAGGTTCGATTCAGTAGA
469420 AATTCGAGTTACGAATTTGGAGAATTCGCGTTGCGATTTACATATTATCATTGCGATTTACCTAT
66 AATTCGAGTTACGAATTTGGAGAATTCGCGTTGCGATTTACATATTATCATTGCGATTTACCTAT
*
469485 TCGCGTTGTGAATTTGGAAAATCGCAATGCGAATTTTGTTTTT
131 TCGCGTTGTCAATTTGGAAAATCGCAATGCGAATTTTGTTTTT
* * * * *
469528 GCAACGTGTATTTCTTTTTCGCAACGCTAATTACCTATATCTGTAATTCAGGTTGCGAAATTCGA
1 GCAACGCGAATTTCATTTTCACAACGCTAATTACCTATATCGGTAATT-AGGTT-CG--ATTC-A
* * *
469593 GTTACGAAATTCGAGTTGCGAATTTGGAGAATTCGCGTTGTGATTTACATATTATCGTTGCGATT
61 G-TA-GAAATTCGAGTTACGAATTTGGAGAATTCGCGTTGCGATTTACATATTATCATTGCGATT
*
469658 TACCTATTCGTGTTGTCAATT
124 TACCTATTCGCGTTGTCAATT
469679 ACATATTATC
Statistics
Matches: 127, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
166 43 0.34
168 2 0.02
169 1 0.01
171 1 0.01
174 2 0.02
176 1 0.01
178 1 0.01
180 76 0.60
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (173 bp):
GCAACGCGAATTTCATTTTCACAACGCTAATTACCTATATCGGTAATTAGGTTCGATTCAGTAGA
AATTCGAGTTACGAATTTGGAGAATTCGCGTTGCGATTTACATATTATCATTGCGATTTACCTAT
TCGCGTTGTCAATTTGGAAAATCGCAATGCGAATTTTGTTTTT
Found at i:469600 original size:14 final size:14
Alignment explanation
Indices: 469583--469614 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
469573 ATTCAGGTTG
469583 CGAAATTCGAGTTA
1 CGAAATTCGAGTTA
*
469597 CGAAATTCGAGTTG
1 CGAAATTCGAGTTA
469611 CGAA
1 CGAA
469615 TTTGGAGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (14 bp):
CGAAATTCGAGTTA
Found at i:469673 original size:40 final size:40
Alignment explanation
Indices: 469623--469706 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
469613 AATTTGGAGA
* * *
469623 ATTCGCGTTGTGATTTACATATTATCGTTGCGATTTACCT
1 ATTCGCGTTGTCAATTACATATTATCGTTGCGATTTAACT
*
469663 ATTCGTGTTGTCAATTACATATTATCGTTGCGATTTAACT
1 ATTCGCGTTGTCAATTACATATTATCGTTGCGATTTAACT
469703 ATTC
1 ATTC
469707 ACATTGCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (40 bp):
ATTCGCGTTGTCAATTACATATTATCGTTGCGATTTAACT
Found at i:469705 original size:20 final size:20
Alignment explanation
Indices: 469628--469699 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
469618 GGAGAATTCG
*
469628 CGTTGTGATTTACATATTAT
1 CGTTGCGATTTACATATTAT
* *
469648 CGTTGCGATTTACCTATTCGT
1 CGTTGCGATTTACATATT-AT
*
469669 -GTTGTC-AATTACATATTAT
1 CGTTG-CGATTTACATATTAT
469688 CGTTGCGATTTA
1 CGTTGCGATTTA
469700 ACTATTCACA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTACATATTAT
Found at i:469737 original size:20 final size:20
Alignment explanation
Indices: 469712--469758 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
469702 TATTCACATT
*
469712 GCGAATTTGACTTTCGCAAC
1 GCGAATTTCACTTTCGCAAC
*
469732 GCGAATTTCATTTTCGCAAC
1 GCGAATTTCACTTTCGCAAC
*
469752 GCTAATT
1 GCGAATT
469759 ACCTATATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (20 bp):
GCGAATTTCACTTTCGCAAC
Found at i:469820 original size:22 final size:21
Alignment explanation
Indices: 469792--469847 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
469782 CGAAATTTGA
*
469792 GTTGCGAATTTGGAGTATTCGC
1 GTTGCGAATTTGGA-TATTAGC
** *
469814 GTTGCG-ATTTACATATTATC
1 GTTGCGAATTTGGATATTAGC
469834 GTTGCGAATTTGGA
1 GTTGCGAATTTGGA
469848 AAATCGCAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (21 bp):
GTTGCGAATTTGGATATTAGC
Found at i:469876 original size:20 final size:20
Alignment explanation
Indices: 469851--469904 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
469841 ATTTGGAAAA
469851 TCGCAACGCGAATTTTGTTT
1 TCGCAACGCGAATTTTGTTT
*
469871 TCGCAACGCGTATTTTGTTT
1 TCGCAACGCGAATTTTGTTT
* *
469891 TAGCAACGCTAATT
1 TCGCAACGCGAATT
469905 ACCTATATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (20 bp):
TCGCAACGCGAATTTTGTTT
Found at i:470495 original size:20 final size:20
Alignment explanation
Indices: 470472--470561 Score: 69
Period size: 20 Copynumber: 4.5 Consensus size: 20
470462 ACATATTATT
470472 GTTGCGATTT-ACTTATTCGC
1 GTTGCGATTTAAC-TATTCGC
* **
470492 GTTGCGAATTATA-TATTATC
1 GTTGCGATTTA-ACTATTCGC
*
470512 GTTGCAATTTAACTATTCGC
1 GTTGCGATTTAACTATTCGC
* * *
470532 GTTACAAATTTGACT-TTCGC
1 GTTGC-GATTTAACTATTCGC
470552 GTTGCGATTT
1 GTTGCGATTT
470562 TGGAACCTGT
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
19 5 0.09
20 41 0.75
21 8 0.15
22 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (20 bp):
GTTGCGATTTAACTATTCGC
Found at i:473163 original size:16 final size:16
Alignment explanation
Indices: 473142--473172 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
473132 GTGGCATGAT
*
473142 ATTGTTTTATTTTGAA
1 ATTGTTTCATTTTGAA
473158 ATTGTTTCATTTTGA
1 ATTGTTTCATTTTGA
473173 GGATGCTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.03, G:0.13, T:0.61
Consensus pattern (16 bp):
ATTGTTTCATTTTGAA
Found at i:475432 original size:32 final size:31
Alignment explanation
Indices: 475395--475520 Score: 144
Period size: 32 Copynumber: 4.0 Consensus size: 31
475385 CTAAGGTGAC
* * *
475395 CTTGGGTAAGCTCTGAGGCCCCAAGGCATTT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
*
475426 CATTGGGTAGGCTTTAAGGCCCCAAGGTACTTT
1 C-TTGGGTAGGCTCTAAGGCCCCAAGGTA-TTT
* * *
475459 CTTGGGTAGGCTCTTAGGCCCTAAGGTACTT
1 CTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
* *
475490 CTTTGGGTAGGCTCTCAGGCCCCAAGATATT
1 C-TTGGGTAGGCTCTAAGGCCCCAAGGTATT
475521 CCCTTAGGTT
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
31 4 0.05
32 72 0.90
33 4 0.05
ACGTcount: A:0.19, C:0.24, G:0.28, T:0.29
Consensus pattern (31 bp):
CTTGGGTAGGCTCTAAGGCCCCAAGGTATTT
Found at i:475496 original size:64 final size:64
Alignment explanation
Indices: 475395--475515 Score: 170
Period size: 64 Copynumber: 1.9 Consensus size: 64
475385 CTAAGGTGAC
* *
475395 CTTGGGTAAGCTCTGAGGCCCCAAGGCATTTCATTGGGTAGGCTTTAAGGCCCCAAGGTACTTT
1 CTTGGGTAAGCTCTGAGGCCCCAAGGCACTTCATTGGGTAGGCTCTAAGGCCCCAAGGTACTTT
* * * * * *
475459 CTTGGGTAGGCTCTTAGGCCCTAAGGTACTTCTTTGGGTAGGCTCTCAGGCCCCAAG
1 CTTGGGTAAGCTCTGAGGCCCCAAGGCACTTCATTGGGTAGGCTCTAAGGCCCCAAG
475516 ATATTCCCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 49 1.00
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (64 bp):
CTTGGGTAAGCTCTGAGGCCCCAAGGCACTTCATTGGGTAGGCTCTAAGGCCCCAAGGTACTTT
Found at i:476551 original size:2 final size:2
Alignment explanation
Indices: 476544--476625 Score: 164
Period size: 2 Copynumber: 41.0 Consensus size: 2
476534 CTAAAAGAGA
476544 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
476586 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
476626 TGAATGCATG
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 80 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:477066 original size:19 final size:19
Alignment explanation
Indices: 477042--477088 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
477032 AAAAAAATTA
477042 AGGGTACTCTCTCATACTT
1 AGGGTACTCTCTCATACTT
**
477061 AGGGTACTCTCTTGTACTT
1 AGGGTACTCTCTCATACTT
477080 AGGGTACTC
1 AGGGTACTC
477089 CTTATAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.36
Consensus pattern (19 bp):
AGGGTACTCTCTCATACTT
Found at i:479783 original size:93 final size:93
Alignment explanation
Indices: 479636--479823 Score: 367
Period size: 93 Copynumber: 2.0 Consensus size: 93
479626 AAGTTGATGG
479636 GCAGACGAGCTTCCAGGATACACACCGGAAGTATCCATGAAAACTGGTTGCGTTTGCTTCCAGGA
1 GCAGACGAGCTTCCAGGATACACACCGGAAGTATCCATGAAAACTGGTTGCGTTTGCTTCCAGGA
479701 TCTTTAGTACCTTCCTACAAGGTCCCAT
66 TCTTTAGTACCTTCCTACAAGGTCCCAT
479729 GCAGACGAGCTTCCAGGATACACACCGGAAGTATCCATGAAAACTGGTTGCGTTTGCTTCCAGGA
1 GCAGACGAGCTTCCAGGATACACACCGGAAGTATCCATGAAAACTGGTTGCGTTTGCTTCCAGGA
*
479794 TCTTTAGTACCTTCCTACAAGGTTCCAT
66 TCTTTAGTACCTTCCTACAAGGTCCCAT
479822 GC
1 GC
479824 TTTTACTTCC
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (93 bp):
GCAGACGAGCTTCCAGGATACACACCGGAAGTATCCATGAAAACTGGTTGCGTTTGCTTCCAGGA
TCTTTAGTACCTTCCTACAAGGTCCCAT
Found at i:480526 original size:18 final size:19
Alignment explanation
Indices: 480484--480527 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
480474 ATATTTAACT
* *
480484 TTATTTATAATTTTTTACA
1 TTATTTATAATTTTTAAAA
480503 TCTATTTATAA-TTTTAAAA
1 T-TATTTATAATTTTTAAAA
480522 TTATTT
1 TTATTT
480528 TATATGACAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 8 0.36
20 9 0.41
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATTTATAATTTTTAAAA
Found at i:482395 original size:5 final size:5
Alignment explanation
Indices: 482385--482419 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
482375 GCATCTAATA
*
482385 TTTTC TTTTC TTTTC TTCTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
482420 ACACCATTGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTC
Found at i:486624 original size:2 final size:2
Alignment explanation
Indices: 486617--486643 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
486607 TACAAATAAT
486617 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 T
486644 TTATTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:487055 original size:15 final size:17
Alignment explanation
Indices: 487025--487056 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
487015 TAAGTATGTG
487025 TTATTGTTAGTTTTATT
1 TTATTGTTAGTTTTATT
487042 TTATT-TTA-TTTTATT
1 TTATTGTTAGTTTTATT
487057 CATGCTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
TTATTGTTAGTTTTATT
Found at i:491419 original size:14 final size:15
Alignment explanation
Indices: 491393--491430 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
491383 CCTCTGCACG
*
491393 TTCTTCTTATCATCC
1 TTCTTCTTTTCATCC
*
491408 TTC-TCTTTTCATTC
1 TTCTTCTTTTCATCC
491422 TTCTTCTTT
1 TTCTTCTTT
491431 CCTTTTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.08, C:0.29, G:0.00, T:0.63
Consensus pattern (15 bp):
TTCTTCTTTTCATCC
Found at i:492580 original size:3 final size:3
Alignment explanation
Indices: 492572--492909 Score: 488
Period size: 3 Copynumber: 113.7 Consensus size: 3
492562 GAAGCTTTCA
492572 AAG AAG AAG AA- AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
492619 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
492667 -AG AAG AAG AAG AAAG AAA AAG AAG AAG AAG AAG AAG AA- AAG AAG
1 AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * *
492711 AAG AAG AAG AAG AAG AAG AA- AAG GAG AAG AAG GAG AAG AAG GAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * *
492758 AAG GAG AAG AAG GAG AAG AAG GAG AAG AAG GAG AAG AAG GAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
*
492806 GAG AAG AAG AGAG AAG AAG -AG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* * * * *
492851 AAG AAG AAG GAG GAG GAG GAG GAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
492899 AAG AAG AAG AA
1 AAG AAG AAG AA
492910 ACAACATGTG
Statistics
Matches: 306, Mismatches: 22, Indels: 14
0.89 0.06 0.04
Matches are distributed among these distances:
2 10 0.03
3 290 0.95
4 6 0.02
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:492953 original size:18 final size:18
Alignment explanation
Indices: 492930--492978 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
492920 CAGAGGAGAC
492930 GGAAGAAGAAGAATAGAA-
1 GGAAGAAGAAGAA-AGAAT
*
492948 GGAAGAAAAAGAAAGAAT
1 GGAAGAAGAAGAAAGAAT
* *
492966 GGATGAAGGAGAA
1 GGAAGAAGAAGAA
492979 GAAGTGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (18 bp):
GGAAGAAGAAGAAAGAAT
Found at i:497083 original size:90 final size:89
Alignment explanation
Indices: 496931--497103 Score: 310
Period size: 90 Copynumber: 1.9 Consensus size: 89
496921 ACCCACCCTT
496931 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
* *
496996 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
497020 TTATATCCAAGTTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATATATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATATATTT
497085 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
497104 TTCGGGATTA
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
89 30 0.38
90 50 0.62
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:503776 original size:90 final size:89
Alignment explanation
Indices: 503624--503796 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
503614 ACACACCCTT
*
503624 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
503689 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
*
503713 TTATATCCAAGTTACCATAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCATAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
503778 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
503797 TTCGGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCATAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:504887 original size:54 final size:54
Alignment explanation
Indices: 504804--505248 Score: 528
Period size: 54 Copynumber: 8.3 Consensus size: 54
504794 CTCTAACATG
** **
504804 ATCAACATATGATGAATTCCGTGCTTTGCACACTTAGTGCTAAAACGATTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
* *
504858 ATCAACATATGATGAATTCCGTGAATTGCACCCTTAGTGTCGAAAC-AGTTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGA-TTATTC
* * * *
504912 ATCAACATATGATGAATTCC--G---CGCACACTTAGTGTCGAAATGGTTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
* * *
504961 ATCAACATATGATGAATTCCAT-ACTTTGCACACTTAGTGCCGAATCGATTATTC
1 ATCAACATATGATGAATTCCGTGA-ATTGCACACTTAGTGCCGAAACGATTATTC
* * * *
505015 ATCAATATATGATGAATTCCGTGAATTGCACACTTAGTGCTGAATCGGTTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
* * * * * *
505069 ATCAACATATGATGAATTTCGT-ACTTTGCACACTTATTTCCGAAATGGTTATTC
1 ATCAACATATGATGAATTCCGTGA-ATTGCACACTTAGTGCCGAAACGATTATTC
* * *
505123 ATTAACATATGATGAATTCCGTGAATTGCACACTTAGTTCCGAAACAATTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
* * *
505177 ATCAACATATGATGACTTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTC
1 ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
* *
505231 ATTAACGTATGATGAATT
1 ATCAACATATGATGAATT
505249 TCATACTTTG
Statistics
Matches: 336, Mismatches: 44, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
49 43 0.13
52 1 0.00
53 2 0.01
54 288 0.86
55 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (54 bp):
ATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCCGAAACGATTATTC
Found at i:505085 original size:26 final size:26
Alignment explanation
Indices: 505002--505085 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
504992 ACTTAGTGCC
* *
505002 GAATCGATTATTCATCAATATATGAT
1 GAATCGGTTATTCATCAACATATGAT
* * * *
505028 GAATTCCGTGAATTGCA-C-ACTTAGTGCT
1 GAA-TCGGT-TATT-CATCAACATA-TGAT
505056 GAATCGGTTATTCATCAACATATGAT
1 GAATCGGTTATTCATCAACATATGAT
505082 GAAT
1 GAAT
505086 TTCGTACTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 12
0.66 0.16 0.19
Matches are distributed among these distances:
25 2 0.05
26 14 0.33
27 14 0.33
28 10 0.24
29 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (26 bp):
GAATCGGTTATTCATCAACATATGAT
Found at i:505176 original size:162 final size:162
Alignment explanation
Indices: 504804--505271 Score: 646
Period size: 162 Copynumber: 2.9 Consensus size: 162
504794 CTCTAACATG
* **
504804 ATCAACATATGATGAATTCCGTGCTTTGCACACTTAGTGCTAAAACGATTATTCATCAACATATG
1 ATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * *
504869 ATGAATTCCGTGAATTGCACCCTTAGTG-TCGAAACAGTTATTCATCAACATATGATGAATTCCG
66 ATGAATTCCGTGAATTGCACACTTAGTGCT-GAAACGGTTATTCATCAACATATGATGAATTTCG
*
504933 --C---GCACACTTAGTGT-CGAAATGGTTATTC
130 TACTTTGCACACTTA-TTTCCGAAATGGTTATTC
* * *
504961 ATCAACATATGATGAATTCCAT-ACTTTGCACACTTAGTGCCGAATCGATTATTCATCAATATAT
1 ATCAACATATGATGAATTCCGTGA-TTTGCACACTTAGTGCCGAAACGATTATTCATCAACATAT
*
505025 GATGAATTCCGTGAATTGCACACTTAGTGCTGAATCGGTTATTCATCAACATATGATGAATTTCG
65 GATGAATTCCGTGAATTGCACACTTAGTGCTGAAACGGTTATTCATCAACATATGATGAATTTCG
505090 TACTTTGCACACTTATTTCCGAAATGGTTATTC
130 TACTTTGCACACTTATTTCCGAAATGGTTATTC
* * * *
505123 ATTAACATATGATGAATTCCGTGAATTGCACACTTAGTTCCGAAACAATTATTCATCAACATATG
1 ATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
* * * * * *
505188 ATGACTTTCGTGAATTGCACACTTAGTGCCGAAACGGTTATTCATTAACGTATGATGAATTTCAT
66 ATGAATTCCGTGAATTGCACACTTAGTGCTGAAACGGTTATTCATCAACATATGATGAATTTCGT
* *
505253 ACTTTGCACCCTTAGTTCC
131 ACTTTGCACACTTATTTCC
505272 TATTTGGTAA
Statistics
Matches: 275, Mismatches: 27, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
157 116 0.42
158 1 0.00
159 1 0.00
161 2 0.01
162 154 0.56
163 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (162 bp):
ATCAACATATGATGAATTCCGTGATTTGCACACTTAGTGCCGAAACGATTATTCATCAACATATG
ATGAATTCCGTGAATTGCACACTTAGTGCTGAAACGGTTATTCATCAACATATGATGAATTTCGT
ACTTTGCACACTTATTTCCGAAATGGTTATTC
Found at i:506790 original size:54 final size:54
Alignment explanation
Indices: 506562--506790 Score: 280
Period size: 54 Copynumber: 4.2 Consensus size: 54
506552 CCGTGGGTTA
* * * * * * ***
506562 CACACATAGAGCCGAAATGGTTATTCATCAACATATGATGAATT-TCGTGCTTTG
1 CACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCT-GTGAAATG
* *
506616 CACACTTAGCGCCAAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
* **
506670 CACACTTGGTGCTGAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
1 CACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
* * * *
506724 TAAACTTGGTGCCAAAATGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
1 CACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
506778 CACACTTAGTGCC
1 CACACTTAGTGCC
506791 TAACTGGTAA
Statistics
Matches: 151, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
54 151 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (54 bp):
CACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTCTGTGAAATG
Found at i:507185 original size:19 final size:22
Alignment explanation
Indices: 507132--507185 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
507122 TACCCATACC
507132 ATGGTATCGATACTACAGTTCT
1 ATGGTATCGATACTACAGTTCT
* * *
507154 ATAGTACCGATACTA-TG-T-T
1 ATGGTATCGATACTACAGTTCT
507173 ATGGTATCGATAC
1 ATGGTATCGATAC
507186 CAGTTTTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 12 0.44
20 1 0.04
21 1 0.04
22 13 0.48
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (22 bp):
ATGGTATCGATACTACAGTTCT
Found at i:512690 original size:22 final size:22
Alignment explanation
Indices: 512649--512701 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
512639 GGTCCCTTAA
512649 TATCGATAC--CCATACCATGG
1 TATCGATACTACCATACCATGG
* *
512669 TATCGATACTACCATTCTATGG
1 TATCGATACTACCATACCATGG
*
512691 TACCGATACTA
1 TATCGATACTA
512702 TGTTATGGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
22 19 0.68
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (22 bp):
TATCGATACTACCATACCATGG
Done.