Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 2 of 295
Found at i:475126 original size:30 final size:31
Alignment explanation
Indices: 475092--475150 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
475082 GGATTAGATA
*
475092 AATTTTAATT-TTAAA-TTTAATTATAAAAAC
1 AATTTT-ATTATTAAATTTTAATAATAAAAAC
*
475122 AATTTTTTTATTAAATTTTAATAATAAAA
1 AATTTTATTATTAAATTTTAATAATAAAA
475151 TAAGTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 2 0.08
30 11 0.44
31 12 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (31 bp):
AATTTTATTATTAAATTTTAATAATAAAAAC
Found at i:477533 original size:2 final size:2
Alignment explanation
Indices: 477526--477556 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
477516 TGATGAACTT
*
477526 TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
477557 GTATGTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:481266 original size:9 final size:8
Alignment explanation
Indices: 481249--481275 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
481239 GCTACTTTAA
481249 TTATTTTT
1 TTATTTTT
481257 TTATTTTT
1 TTATTTTT
481265 TTATTTTT
1 TTATTTTT
481273 TTA
1 TTA
481276 AATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTATTTTT
Found at i:484837 original size:41 final size:41
Alignment explanation
Indices: 484778--484855 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
484768 AATGGGTTAC
*
484778 TTCAATTTTTTACCTTTACCTTTCATTTTGGCTTTTAAAAT
1 TTCAAATTTTTACCTTTACCTTTCATTTTGGCTTTTAAAAT
*
484819 TTCAAATTTTTACTTTTACCTTTCATTTTGGCTTTTA
1 TTCAAATTTTTACCTTTACCTTTCATTTTGGCTTTTA
484856 GAATAAGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.21, C:0.17, G:0.05, T:0.58
Consensus pattern (41 bp):
TTCAAATTTTTACCTTTACCTTTCATTTTGGCTTTTAAAAT
Found at i:512376 original size:15 final size:16
Alignment explanation
Indices: 512344--512378 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
512334 CAACATTTTC
512344 TTTAATATATTTAAAAT
1 TTTAATATATTT-AAAT
512361 TTTAATATATTT-AAT
1 TTTAATATATTTAAAT
512376 TTT
1 TTT
512379 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATATATTTAAAT
Found at i:512378 original size:36 final size:38
Alignment explanation
Indices: 512338--512409 Score: 96
Period size: 36 Copynumber: 1.9 Consensus size: 38
512328 TATACTCAAC
512338 ATTTTCTTT-AATATATTT-AAAATTTT-AATATATTTA
1 ATTTTCTTTAAAT-TATTTAAAAATTTTAAATATATTTA
* *
512374 ATTTTTTTTAAATTTTTTAAAAATTTTAAATATATT
1 ATTTTCTTTAAATTATTTAAAAATTTTAAATATATT
512410 AAAAAATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.39
37 11 0.35
38 8 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (38 bp):
ATTTTCTTTAAATTATTTAAAAATTTTAAATATATTTA
Found at i:512400 original size:18 final size:18
Alignment explanation
Indices: 512379--512414 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
512369 ATTTAATTTT
* *
512379 TTTTAAATTTTTTAAAAA
1 TTTTAAATATATTAAAAA
512397 TTTTAAATATATTAAAAA
1 TTTTAAATATATTAAAAA
512415 ATAATTTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAAATATATTAAAAA
Found at i:512628 original size:22 final size:21
Alignment explanation
Indices: 512603--512671 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 21
512593 TTTCTTTACC
512603 TATTAAAAATATATATTAATTA
1 TATTAAAAAT-TATATTAATTA
512625 TATTAAAAATT-TA--AA-TA
1 TATTAAAAATTATATTAATTA
*
512642 TATTAAAAATTTAAAATTAATTA
1 TATTAAAAA-TT-ATATTAATTA
512665 TACTTAA
1 TA-TTAA
512672 CATTTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
17 11 0.28
18 4 0.10
20 3 0.08
21 1 0.03
22 12 0.31
23 4 0.10
24 4 0.10
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
TATTAAAAATTATATTAATTA
Found at i:512638 original size:17 final size:17
Alignment explanation
Indices: 512618--512656 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
512608 AAAATATATA
*
512618 TTAATTATATTAAAAAT
1 TTAAATATATTAAAAAT
512635 TTAAATATATTAAAAAT
1 TTAAATATATTAAAAAT
512652 TTAAA
1 TTAAA
512657 ATTAATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATATATTAAAAAT
Found at i:512691 original size:20 final size:21
Alignment explanation
Indices: 512658--512697 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
512648 AAATTTAAAA
*
512658 TTAATTATACTTAACATTTTT
1 TTAATTATACTTAAAATTTTT
*
512679 TTAA-TATATTTAAAATTTT
1 TTAATTATACTTAAAATTTT
512698 AGAAAAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATTATACTTAAAATTTTT
Found at i:513521 original size:29 final size:29
Alignment explanation
Indices: 513479--513538 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
513469 CCTTGCTCAT
513479 GTACTAATCCACTATAACAACACCTAAAA
1 GTACTAATCCACTATAACAACACCTAAAA
513508 GTACTAATCCACTATAACAACACCTAAAA
1 GTACTAATCCACTATAACAACACCTAAAA
513537 GT
1 GT
513539 TGTGATGTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.47, C:0.27, G:0.05, T:0.22
Consensus pattern (29 bp):
GTACTAATCCACTATAACAACACCTAAAA
Found at i:517525 original size:210 final size:210
Alignment explanation
Indices: 517279--518090 Score: 1161
Period size: 210 Copynumber: 3.9 Consensus size: 210
517269 CAAGCACTTC
** *
517279 AAGAGATGGGCACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAT
1 AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
* * *
517344 TTTGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGGACAATCGCTTAACTTT
66 TTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGGACAATCACTTAACTTC
* * * * *
517409 AATTCTTTAAGA-AAAGTGAAGATAAACAACCCGACTCCTATCTTGCTTAATTTTCGACACGAGG
131 AATTCTTCAAGATAAA-TGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTCGACACGAGG
517473 AAATGTGAAGCTTTTG
195 AAATGTGAAGCTTTTG
517489 AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
1 AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
* * * *
517554 TTCGAAGTGAGGAAAATCTTTCCAAATCTGGAGTGGAGCTTAAATTAGGACAATCACTTAACTTC
66 TTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGGACAATCACTTAACTTC
517619 AATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTCGACACGAGGA
131 AATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTCGACACGAGGA
* *
517684 AATGCGAAGCTTTTT
196 AATGTGAAGCTTTTG
517699 AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
1 AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
*
517764 TTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAGCTTAAATTAGGACAATCACTTAACTTC
66 TTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGGACAATCACTTAACTTC
*
517829 AATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTGGACACGAGGA
131 AATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTCGACACGAGGA
517894 AATGTGAAGCTTTTG
196 AATGTGAAGCTTTTG
* * * * *
517909 AAGAGATGAACATCT-TCCTCTTATTGGAACAATTTCAAG-TTCTCTGCAGCTTGATATATC-AA
1 AAGAGATGAACA-CTGCCCTCCTATCGGAACAATTTCCAGATTCTC-GCAGATTGATATATCTAA
* * * * * *
517971 GATTTCGAAGAAATGAAAATCCATCCATAA-CCGGAATGGAACTTAAATTAGCACAAATTC-C-T
64 -AATTCGAAGAGAGGAAAATCCTTCCA-AATCTGGAATGGAACTTAAATTAGGAC-AA-TCACTT
* * * ** ** * *
518033 AGCTTTAATTTTTGGAGGCAAGTGGAGGTAGACAACCCGTCTCCTATCTTCCTTAATT
125 AACTTCAATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATT
518091 CCTTACACTT
Statistics
Matches: 551, Mismatches: 44, Indels: 14
0.90 0.07 0.02
Matches are distributed among these distances:
209 7 0.01
210 532 0.97
211 10 0.02
212 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.29
Consensus pattern (210 bp):
AAGAGATGAACACTGCCCTCCTATCGGAACAATTTCCAGATTCTCGCAGATTGATATATCTAAAA
TTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATTAGGACAATCACTTAACTTC
AATTCTTCAAGATAAATGGAGGTAGACAACCCGTCTCCTATCTTGCTTAATTTTCGACACGAGGA
AATGTGAAGCTTTTG
Found at i:528169 original size:210 final size:208
Alignment explanation
Indices: 527406--528171 Score: 891
Period size: 210 Copynumber: 3.7 Consensus size: 208
527396 TCTGTTATTC
* * * *
527406 GAACAATTTCCAGATTGTT-GCAGTTTGATATATTTAAAATAT-GAAGAGAGGAAAAT-CGTCCT
1 GAACAGTTTCCAG-TTCTTGGCAG-TTGATATATCTAAAAT-TCGAAGAGAGGAAAATCCTTCC-
* * ** * ** * * * ** * * * *
527468 AAATCTGGAATGGAATTTAAGTTACCACAATGGGATAGCTTTAACTCTTTGAGGCAAGGGGCGGT
62 AAATCTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGACTAGTGGAGGT
* * * * * * *
527533 AGACAACCCGTCTCCTATCTTGCTTAATTTAGGACACCAGGAAATGAGAAGCTTCTCAATAGATA
127 AGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAATGTGAAGCTTTTCAAGAGATG
527598 AACATCTT-C-CTATCG
192 AACATCTTCCTCTATCG
* * * * *
527613 GAACAGTTTCCAGTTCGTGGCAGTATGATATATCTAAAATTTGGAGAAAGAAAAATCCTTCCAAA
1 GAACAGTTTCCAGTTCTTGGCAGT-TGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAA
* ** * *
527678 TCTGGAATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGA
65 TCTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGACTAGTGGAGGTAGA
* *
527743 CAACACA-TCTCCTATCTTGCTTAATTTTTGACATGAGGAAATGTGAAGCTTTTCAAGAGATGAA
130 CAAC-CAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
*
527807 CAT-TGTCCTCCTATTG
194 CATCT-TCCT-CTATCG
* * *
527823 GAACAATTTCCAGATTGTT-GCAGATAGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAA
1 GAACAGTTTCCAG-TTCTTGGCAG-TTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAA
* * * * *
527887 ATCTGGAATGAAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTTAAGACAAATGGAGGTAG
64 ATCTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGACTAGTGGAGGTAG
*
527952 ACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAA
129 ACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAA
528017 CATCTTCCTCTAATCG
194 CATCTTCCTCT-ATCG
*
528033 GAACAGTTTCCAGTTCTTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAGTCCTTCCAAA
1 GAACAGTTTCCAGTTCTTGGCAGT-TGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAA
* * *
528098 TTTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGATTAGTGGAGGTAAA
65 TCTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGACTAGTGGAGGTAGA
528163 CAACCAGTC
130 CAACCAGTC
528172 AATTTCCAGT
Statistics
Matches: 477, Mismatches: 66, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
206 6 0.01
207 152 0.32
208 6 0.01
209 9 0.02
210 299 0.63
211 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (208 bp):
GAACAGTTTCCAGTTCTTGGCAGTTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAAT
CTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGACTAGTGGAGGTAGAC
AACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAATGTGAAGCTTTTCAAGAGATGAACA
TCTTCCTCTATCG
Found at i:528217 original size:135 final size:135
Alignment explanation
Indices: 528039--528306 Score: 446
Period size: 135 Copynumber: 2.0 Consensus size: 135
528029 ATCGGAACAG
* * * * *
528039 TTTCCAGTTCTTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAGTCCTTCCAAATTTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
* **
528104 ATGGAACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGATTAGTGGAGGTAAACAACCA
66 ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGAGGTAAACAACCA
528169 GTCAA
131 GTCAA
528174 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
* *
528239 ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGCGGTAGACAACCA
66 ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGAGGTAAACAACCA
528304 GTC
131 GTC
528307 TTCTATCTTG
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
135 123 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (135 bp):
TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGAGGTAAACAACCA
GTCAA
Found at i:528459 original size:345 final size:345
Alignment explanation
Indices: 527849--528516 Score: 1068
Period size: 345 Copynumber: 1.9 Consensus size: 345
527839 GTTGCAGATA
* *
527849 GATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGGAAA
1 GATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGAATGAAACTTAAATTAGGAAA
* * *
527914 ATTGCTTAACTTCAATTCTTTAAGACAAATGGAGGTAGACAACCAGTCTCCTATCTTGCTTAATT
66 ATTGCTTAACTTCAATTCTTCAAGACAAATGGAGGTAGACAACCAGTCTCCTATCTTGATGAATT
*
527979 TTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTCCTCTAATCGGAACAGTTTCC
131 TTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATAAACATCTTCCTCTAATCGGAACAGTTTCC
* * * *
528044 AGTTCTTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAGTCCTTCCAAATTTGGAATGGA
196 AGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGAA
* *** * *
528109 ACTTAAATTAGGACAATTGCTTAACTTCAATTCTTCAAGATTAGTGGAGGTAAACAACCAGTCAA
261 ACTTAAATTAGCACAACCACTTAACTTCAATTCTTCAAGACTAGTGGACGTAAACAACCAGTCAA
528174 TTTCCAGTTCGTGGCAGTCT
326 TTTCCAGTTCGTGGCAGTCT
*
528194 GATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGAATGGAACTTAAATTAGGAAA
1 GATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGAATGAAACTTAAATTAGGAAA
* * *
528259 ATTGCTTAACTTCAATTCTTCAAGACAAGTGGCGGTAGACAACCAGTCTTCTATCTTGATGATAT
66 ATTGCTTAACTTCAATTCTTCAAGACAAATGGAGGTAGACAACCAGTCTCCTATCTTGATGA-AT
* * *
528324 TTT-GACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACATCTTCCTCTTATCGGAACAGTTTC
130 TTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATAAACATCTTCCTCTAATCGGAACAGTTTC
* *
528388 CAGTTCGTGGCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGAATGA
195 CAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGA
* * *
528453 AACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGACGTAGACAACCAGTC
260 AACTTAAATTAGCACAACCACTTAACTTCAATTCTTCAAGACTAGTGGACGTAAACAACCAGTC
528517 TCCTATCTTG
Statistics
Matches: 294, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
345 289 0.98
346 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (345 bp):
GATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGAATGAAACTTAAATTAGGAAA
ATTGCTTAACTTCAATTCTTCAAGACAAATGGAGGTAGACAACCAGTCTCCTATCTTGATGAATT
TTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATAAACATCTTCCTCTAATCGGAACAGTTTCC
AGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGAA
ACTTAAATTAGCACAACCACTTAACTTCAATTCTTCAAGACTAGTGGACGTAAACAACCAGTCAA
TTTCCAGTTCGTGGCAGTCT
Found at i:528548 original size:210 final size:210
Alignment explanation
Indices: 528174--529582 Score: 2273
Period size: 210 Copynumber: 6.7 Consensus size: 210
528164 AACCAGTCAA
* * *
528174 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * ** * * * *
528239 ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGCGGTAGACAACCA
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
* * * * * *
528304 GTCTTCTATCTTGATGATATTTT-GACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACATCTT
131 GTCTCCTATCTTGCTTA-ATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTT
528368 CCTCTTATCGGAACAG
195 CCTCTTATCGGAACAG
*
528384 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTTGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
528449 ATGAAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGGACGTAGACAACCA
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
528514 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
**
528579 CTCTTATCGGAATGG
196 CTCTTATCGGAACAG
*
528594 TTTCCAGTTCGCGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * *
528659 ATGGAACTTAAATCAGCACAATCATTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
528724 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
528789 CTCTTATCGGAACAG
196 CTCTTATCGGAACAG
*
528804 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGGGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * *
528869 ATGGCACTTAAATAAGCACAATCATTTAGCTTTAATTCTTCAAGACTAGTGCAGGTAGACAACCA
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
528934 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
*
528999 CTCTTATCGAAACAG
196 CTCTTATCGGAACAG
*
529014 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGGGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * *
529079 ATGGCACTTAAATAAGCACAATCATTTAGCTTTAATTCTTCAAGACTAGTGCAGGTAGACAACCA
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
529144 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTT
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATC-TT
*
529209 CC-CTTATCGGAATAG
195 CCTCTTATCGGAACAG
* *
529224 TTTCCAGTTTGTAGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* *
529289 ATGGAACTTAAATTAGCACAAGCACTTAGCTTTAATTCTTCAAGATTAGTGGAGGTAGACAACCA
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
* * * *
529354 GTCTCCTATCTTGCATAATTTTGGACACGAGTAAACTTGAAGCTTTTCAAGAGATGAACATCTTT
131 GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
*
529419 CTCTTATCGGAATAG
196 CTCTTATCGGAACAG
* * *
529434 TTTCCAGTTCCTCGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATTCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
* * * *
529499 ATGGAACTTAATTTAGCACAACCACTTAGCTTTAATTCTTCAAGACTAGTGAAGGTAGACAACCC
66 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
* *
529564 CTCTCCAATCTTGCTTAAT
131 GTCTCCTATCTTGCTTAAT
529583 CTATTGCACT
Statistics
Matches: 1129, Mismatches: 67, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
209 8 0.01
210 1117 0.99
211 4 0.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (210 bp):
TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGA
ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACCA
GTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAAGAGATGAACATCTTC
CTCTTATCGGAACAG
Found at i:528612 original size:555 final size:555
Alignment explanation
Indices: 527619--528722 Score: 1633
Period size: 555 Copynumber: 2.0 Consensus size: 555
527609 ATCGGAACAG
* * * *
527619 TTTCCAGTTCGTGGCAGTATGATATATCTAAAATTTGGAGAAAGAAAAATCCTTCCAAATCTGGA
1 TTTCCAGTTCGTGGCAGTATGATATATCTAAAATTCGAAGAAAGAAAAATCCTTCAAAATCTAGA
* * * *
527684 ATGGAACTTAAATTAGCACAATCACTTAGCTTTAATTCTTCAAGACTAGTGGAGGTAGACAACAC
66 ATGGAACTTAAATTAGCAAAATCACTTAACTTCAATTCTTCAAGACAAGTGGAGGTAGACAACAC
* * * *
527749 ATCTCCTATCTTGCTTAATTTTTGACATGAGGAAATGTGAAGCTTTTCAAGAGATGAACATTGTC
131 ATCTCCTATCTTGATGAATTTTTGACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACATTGTC
* *
527814 CTCCTATTGGAACAATTTCCAGATTGTTGCAGATAGATATATCTAAAATTCGAAGAGAGGAAAAT
196 CTCCTATCGGAACAATTTCCAGATTGTGGCAGATAGATATATCTAAAATTCGAAGAGAGGAAAAT
* *** *
527879 CCTTCCAAATCTGGAATGAAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTTAAGACAAAT
261 CCTTCCAAATCTGGAATGAAACTTAAATTAGCAAAACCACTTAACTTCAATTCTTCAAGACAAAT
*
527944 GGAGGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAA
326 GGACGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAA
**
528009 GAGATGAACATCTTCCTCTAATCGGAACAGTTTCCAGTTCTTGGCAGTCTGATATATCTAAAATT
391 GAGATGAACATCTTCCTCTAATCGGAACAGTTTCCAGTTCGCGGCAGTCTGATATATCTAAAATT
* * * * **
528074 CGAAGAGAGGAAAGTCCTTCCAAATTTGGAATGGAACTTAAATTAGGACAATTGCTTAACTTCAA
456 CGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATCAGCACAATCACTTAACTTCAA
*
528139 TTCTTCAAGATTAGTGGAGGTAAACAACCAGTCAA
521 TTCTTCAAGACTAGTGGAGGTAAACAACCAGTCAA
* * *
528174 TTTCCAGTTCGTGGCAGTCTGATATATCTAAAATTCGAAGAGAGGAAAATCCTTCAAAATCTAGA
1 TTTCCAGTTCGTGGCAGTATGATATATCTAAAATTCGAAGAAAGAAAAATCCTTCAAAATCTAGA
* ** *
528239 ATGGAACTTAAATTAGGAAAATTGCTTAACTTCAATTCTTCAAGACAAGTGGCGGTAGACAAC-C
66 ATGGAACTTAAATTAGCAAAATCACTTAACTTCAATTCTTCAAGACAAGTGGAGGTAGACAACAC
*
528303 AGTCTTCTATCTTGATG-ATATTTTGACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACATCT
131 A-TCTCCTATCTTGATGAAT-TTTTGACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACAT-T
* * * * *
528367 -TCCTCTTATCGGAACAGTTTCCAG-TTCGTGGCAG-TCTGATATATCTAAAATTTGGAGAGAGG
193 GTCCTCCTATCGGAACAATTTCCAGATT-GTGGCAGAT-AGATATATCTAAAATTCGAAGAGAGG
* * *
528429 AAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGCACAACCACTTAGCTTTAATTCTTCAAGA
256 AAAATCCTTCCAAATCTGGAATGAAACTTAAATTAGCAAAACCACTTAACTTCAATTCTTCAAGA
* *
528494 CTAGTGGACGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTT
321 CAAATGGACGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTT
* **
528559 TTCAAGAGATGAACATCTTCCTCTTATCGGAATGGTTTCCAGTTCGCGGCAGTCTGATATATCTA
386 TTCAAGAGATGAACATCTTCCTCTAATCGGAACAGTTTCCAGTTCGCGGCAGTCTGATATATCTA
* * *
528624 AAATTCGGAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATCAGCACAATCATTTAGC
451 AAATTCGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATCAGCACAATCACTTAAC
* *
528689 TTTAATTCTTCAAGACTAGTGGAGGTAGACAACC
516 TTCAATTCTTCAAGACTAGTGGAGGTAAACAACC
528723 CGTCTCCTAT
Statistics
Matches: 489, Mismatches: 55, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
554 7 0.01
555 481 0.98
556 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (555 bp):
TTTCCAGTTCGTGGCAGTATGATATATCTAAAATTCGAAGAAAGAAAAATCCTTCAAAATCTAGA
ATGGAACTTAAATTAGCAAAATCACTTAACTTCAATTCTTCAAGACAAGTGGAGGTAGACAACAC
ATCTCCTATCTTGATGAATTTTTGACAGGAGGAAATGTGAAGCTTTTCAAGAGATAAACATTGTC
CTCCTATCGGAACAATTTCCAGATTGTGGCAGATAGATATATCTAAAATTCGAAGAGAGGAAAAT
CCTTCCAAATCTGGAATGAAACTTAAATTAGCAAAACCACTTAACTTCAATTCTTCAAGACAAAT
GGACGTAGACAACCAGTCTCCTATCTTGCTTAATTTTGGACACGAGGAAACGTGAAGCTTTTCAA
GAGATGAACATCTTCCTCTAATCGGAACAGTTTCCAGTTCGCGGCAGTCTGATATATCTAAAATT
CGAAGAGAGGAAAATCCTTCCAAATCTGGAATGGAACTTAAATCAGCACAATCACTTAACTTCAA
TTCTTCAAGACTAGTGGAGGTAAACAACCAGTCAA
Found at i:538358 original size:31 final size:31
Alignment explanation
Indices: 538320--538380 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
538310 TAGACTATGA
* *
538320 AACTATTTGAAAGTCTTCATTTAAGTCATTT
1 AACTATTTAAAAGTCTTCAATTAAGTCATTT
* *
538351 AACTATTTAAAAGTTTTTAATTAAGTCATT
1 AACTATTTAAAAGTCTTCAATTAAGTCATT
538381 AAGTTATCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (31 bp):
AACTATTTAAAAGTCTTCAATTAAGTCATTT
Found at i:544336 original size:25 final size:27
Alignment explanation
Indices: 544285--544340 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
544275 TGTATTAAAA
* *
544285 TTTGAAAATAATAAAATTTAATGAATT
1 TTTGAAAATAATAAAATTCAATCAATT
544312 CTTTGAAAATAAT-AAA-TCAA-CAATT
1 -TTTGAAAATAATAAAATTCAATCAATT
544337 TTTG
1 TTTG
544341 TTTTGTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 4 0.15
25 4 0.15
26 3 0.12
27 3 0.12
28 12 0.46
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.39
Consensus pattern (27 bp):
TTTGAAAATAATAAAATTCAATCAATT
Found at i:552792 original size:40 final size:40
Alignment explanation
Indices: 552737--552814 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
552727 AATGCAAGAT
*
552737 AGTAATTTAGTAACACATTTGTATTTTCATGTTGTGTTTG
1 AGTAATTTAGTAACACATTTGTATATTCATGTTGTGTTTG
552777 AGTAATTTAGTAACACATTTGTATATTCATGTTGTGTT
1 AGTAATTTAGTAACACATTTGTATATTCATGTTGTGTT
552815 CGTGCTATAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.49
Consensus pattern (40 bp):
AGTAATTTAGTAACACATTTGTATATTCATGTTGTGTTTG
Found at i:555778 original size:22 final size:23
Alignment explanation
Indices: 555747--555795 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
555737 TTTTTTTTAA
555747 ATTTATTTTTAATAATATT-T-ATT
1 ATTTATTTTT-ATAA-ATTATGATT
555770 ATTTA-TTTTATAAATTATGATT
1 ATTTATTTTTATAAATTATGATT
555792 ATTT
1 ATTT
555796 CTAAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.12
21 5 0.21
22 11 0.46
23 5 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
ATTTATTTTTATAAATTATGATT
Found at i:559730 original size:27 final size:28
Alignment explanation
Indices: 559698--559752 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
559688 AATAAGATTA
559698 TTATATTATT-TATA-TAGTTAAATAATC
1 TTATATT-TTGTATACTAGTTAAATAATC
*
559725 TTATATTTTGTCTACTAGTTAAATAATC
1 TTATATTTTGTATACTAGTTAAATAATC
559753 AGTCTATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 10 0.40
28 13 0.52
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (28 bp):
TTATATTTTGTATACTAGTTAAATAATC
Found at i:561197 original size:152 final size:151
Alignment explanation
Indices: 560917--561215 Score: 492
Period size: 152 Copynumber: 2.0 Consensus size: 151
560907 CTCATTTGCT
* * *
560917 GATATGTAATTTGATCTATAGTATCGATTTTGACAAATTTAACTATAAATAGAGAGTCCGCATCG
1 GATATGTAATTTAATCTATAGTATCGATTTTAACAAATTTAACTATAAATAGAGAGTCCGCACCG
* * *
560982 ATTTTGACATTTAGCCTTAAATTTTTGTATATCTAGCCGCTTCTACGAAAGCAAAGATCTTTCTC
66 ATTTTGACATTTAACCCTAAATTTTTGTATATCTAGCCGCTTCTACGAAAGCAAAGACCTTTCTC
561047 TTCCTTCCTTCTACTCTAGCC
131 TTCCTTCCTTCTACTCTAGCC
*
561068 GATATTGTAATTTAATCTATAGTGTCGATTTTAACAAATTTAACTATAAATAGAGAGTCCGCACC
1 GATA-TGTAATTTAATCTATAGTATCGATTTTAACAAATTTAACTATAAATAGAGAGTCCGCACC
*
561133 GTTTTTGACATTTAACCCTAAATTTTTGTATATCTAGCCGCTTCTACGAAAGCAAATG-CCTTTC
65 GATTTTGACATTTAACCCTAAATTTTTGTATATCTAGCCGCTTCTACGAAAGCAAA-GACCTTTC
*
561197 TCTTCCTTCGTTCTACTCT
129 TCTTCCTTCCTTCTACTCT
561216 CACCGCCACC
Statistics
Matches: 137, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
151 4 0.03
152 132 0.96
153 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (151 bp):
GATATGTAATTTAATCTATAGTATCGATTTTAACAAATTTAACTATAAATAGAGAGTCCGCACCG
ATTTTGACATTTAACCCTAAATTTTTGTATATCTAGCCGCTTCTACGAAAGCAAAGACCTTTCTC
TTCCTTCCTTCTACTCTAGCC
Found at i:575540 original size:21 final size:21
Alignment explanation
Indices: 575516--575580 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
575506 AAATCTAACT
575516 GAAGCACAAAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
** *
575537 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACG
*
575555 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACG
575576 GAAGC
1 GAAGC
575581 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACG
Found at i:575556 original size:39 final size:39
Alignment explanation
Indices: 575510--575598 Score: 169
Period size: 39 Copynumber: 2.3 Consensus size: 39
575500 AACCCGAAAT
575510 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
*
575549 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
575588 CTAACTGAAGC
1 CTAACTGAAGC
575599 TCATCAGAGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 49 1.00
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACGGAAGCCCGAAGG
Found at i:578485 original size:59 final size:59
Alignment explanation
Indices: 578421--578565 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 59
578411 CATGATAAAA
* * *
578421 AAAAAAGATTAGGTGCCAAATT-AGAAAAAAGAGTCAAGTTCGGGTACTAAATTAAATCC
1 AAAAAAGA-TAAGTACCAAATTAAGAAAAAAGAGTCAAGTTCGGATACTAAATTAAATCC
* * * **
578480 AAAAAATATAAGTACCAATTTAAGAAAAAAGAGTCAAGTTTGGATACTAAATTGGA--C
1 AAAAAAGATAAGTACCAAATTAAGAAAAAAGAGTCAAGTTCGGATACTAAATTAAATCC
*
578537 AAAAAA-AT-AGATATCAAATTAAGAAAAAA
1 AAAAAAGATAAG-TACCAAATTAAGAAAAAA
578566 TATGAAGTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
55 2 0.03
56 18 0.24
57 7 0.09
58 10 0.14
59 37 0.50
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (59 bp):
AAAAAAGATAAGTACCAAATTAAGAAAAAAGAGTCAAGTTCGGATACTAAATTAAATCC
Found at i:583156 original size:15 final size:15
Alignment explanation
Indices: 583136--583166 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
583126 TGATTTTCCT
583136 TTTAACATCATATAA
1 TTTAACATCATATAA
*
583151 TTTAACATTATATAA
1 TTTAACATCATATAA
583166 T
1 T
583167 AGCTTCAAGT
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:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (15 bp):
TTTAACATCATATAA
Found at i:591770 original size:15 final size:16
Alignment explanation
Indices: 591750--591780 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
591740 ATAATCTTTG
591750 CTTTGTCTTTT-TTTC
1 CTTTGTCTTTTGTTTC
591765 CTTTGTCTTTTGTTTC
1 CTTTGTCTTTTGTTTC
591781 AGTTTTGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.19, G:0.10, T:0.71
Consensus pattern (16 bp):
CTTTGTCTTTTGTTTC
Found at i:593829 original size:12 final size:12
Alignment explanation
Indices: 593812--593837 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
593802 ACTTTATACG
593812 AGATTGATAATA
1 AGATTGATAATA
593824 AGATTGATAATA
1 AGATTGATAATA
593836 AG
1 AG
593838 TGTCTTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (12 bp):
AGATTGATAATA
Found at i:607538 original size:23 final size:22
Alignment explanation
Indices: 607503--607546 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
607493 AAAACTAAGT
*
607503 TGACTGATGGAATAACCAGATG
1 TGACTGACGGAATAACCAGATG
607525 TGACTTGACGGAATAACCAGAT
1 TGAC-TGACGGAATAACCAGAT
607547 ATAGACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (22 bp):
TGACTGACGGAATAACCAGATG
Found at i:610991 original size:4 final size:4
Alignment explanation
Indices: 610982--611007 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
610972 CACTCAATAC
610982 ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT AC
611008 CATTAAGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
ACAT
Found at i:611047 original size:120 final size:116
Alignment explanation
Indices: 610826--611056 Score: 390
Period size: 120 Copynumber: 2.0 Consensus size: 116
610816 AAACGTCAAC
* *
610826 CATAAGACAATATAAACTCGGACTTACGAACACTCAATACACATACACACATACATGCATACCAT
1 CATAAGACAATATAAACTCAGACTTACGAACACTCAATACACATACACACATACATACATACCAT
* *
610891 TAAGTCTTCAGACAGGACCTCATCAGCTTGTTGAGCTCTTCTTTTTCTTAT
66 TAAGTCTTCAGACAAGACCTCATCAGCTTGTTGAGCTCTTATTTTTCTTAT
610942 CATAAGACAATATAAACTCAGACTTACGAACACTCAATACACATACATACATACATACATACATA
1 CATAAGACAATATAAACTCAGACTTACGAACACTCAATACACATAC--AC--ACATACATACATA
611007 CCATTAAGTCTTCAGACAAGACCTCATCAGCTTGTTGAGCTCTTATTTTT
62 CCATTAAGTCTTCAGACAAGACCTCATCAGCTTGTTGAGCTCTTATTTTT
611057 TGTTGATTTG
Statistics
Matches: 107, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
116 45 0.42
118 2 0.02
120 60 0.56
ACGTcount: A:0.36, C:0.25, G:0.10, T:0.29
Consensus pattern (116 bp):
CATAAGACAATATAAACTCAGACTTACGAACACTCAATACACATACACACATACATACATACCAT
TAAGTCTTCAGACAAGACCTCATCAGCTTGTTGAGCTCTTATTTTTCTTAT
Found at i:612759 original size:31 final size:29
Alignment explanation
Indices: 612716--612794 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 29
612706 AGACTGTCTT
*
612716 AGTGACTAAAATGAAAACAAATAGTAAGA-G
1 AGTGTCTAAAATGAAAACAAAT-GTAA-ATG
612746 AAGTGTCTAAAATGATAAA-AAATGTAAATTG
1 -AGTGTCTAAAATGA-AAACAAATGTAAA-TG
612777 AGTGTCTAAAATGAAAAC
1 AGTGTCTAAAATGAAAAC
612795 TTATAAGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
29 4 0.09
30 18 0.42
31 18 0.42
32 3 0.07
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (29 bp):
AGTGTCTAAAATGAAAACAAATGTAAATG
Found at i:627363 original size:51 final size:51
Alignment explanation
Indices: 627236--627423 Score: 187
Period size: 50 Copynumber: 3.8 Consensus size: 51
627226 ATTGTGAATA
* * * *
627236 CACGTGCGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-AT-ACTGTTAAGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCAA-T
* *
627286 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCAAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCAAT
* * * *
627337 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTA-TCAGATG--GTGAGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCA-AT
627387 CACGTGTGTA--ACTAAGTGCAGGCTACTATGCGT-CTCA
1 CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA
627424 GATATCTTCG
Statistics
Matches: 119, Mismatches: 13, Indels: 14
0.82 0.09 0.10
Matches are distributed among these distances:
48 25 0.21
49 2 0.02
50 46 0.39
51 38 0.32
52 5 0.04
53 3 0.03
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (51 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCAAT
Found at i:627371 original size:26 final size:26
Alignment explanation
Indices: 627289--627372 Score: 64
Period size: 26 Copynumber: 3.3 Consensus size: 26
627279 GTTAAGTCGC
627289 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* * * * * * **
627315 ATGCGTACTCAATGACTTCAATC-AC-
1 ATGTGTAGT-ACTAAGTGCAGGCTACT
*
627340 GTGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
627366 ATGTGTA
1 ATGTGTA
627373 TCAGATGGTG
Statistics
Matches: 37, Mismatches: 18, Indels: 6
0.61 0.30 0.10
Matches are distributed among these distances:
24 7 0.19
25 8 0.22
26 15 0.41
27 7 0.19
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:627425 original size:48 final size:49
Alignment explanation
Indices: 627290--627426 Score: 163
Period size: 51 Copynumber: 2.8 Consensus size: 49
627280 TTAAGTCGCA
*
627290 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCAATCACG
1 TGTGTAG-ACTAAGTGCAGGCTACTATGCGT-CTCAGATGA-GTCAATCACG
* * * *
627341 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATG-GTGAGGTCACG
1 TGTGTAG-ACTAAGTGCAGGCTACTATGCGTCTCAGATGAGTCA-ATCACG
627391 TGTGTA-ACTAAGTGCAGGCTACTATGCGTCTCAGAT
1 TGTGTAGACTAAGTGCAGGCTACTATGCGTCTCAGAT
627427 ATCTTCGGCT
Statistics
Matches: 77, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
48 28 0.36
49 2 0.03
50 14 0.18
51 33 0.43
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (49 bp):
TGTGTAGACTAAGTGCAGGCTACTATGCGTCTCAGATGAGTCAATCACG
Found at i:627445 original size:101 final size:100
Alignment explanation
Indices: 627243--627423 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 100
627233 ATACACGTGC
* * *
627243 GTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCATGTGTAGTACTAAGTGCA
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAG-ACTAAGTGCA
*
627308 GGCTACTATGCGTACTCAATGACTTCAATCACGTGT
65 GGCTACTATGCGTACTCAATGACTTCAATCAAGTGT
* * * *
627344 GTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TGGTGAGGTCACGTGTGTA-ACTAAGTGCA
1 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTGAAGTCACATGTGTAGACTAAGTGCA
627407 GGCTACTATGCGT-CTCA
65 GGCTACTATGCGTACTCA
627424 GATATCTTCG
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
98 4 0.06
99 23 0.32
100 1 0.01
101 44 0.61
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
GTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTGAAGTCACATGTGTAGACTAAGTGCAG
GCTACTATGCGTACTCAATGACTTCAATCAAGTGT
Found at i:627544 original size:27 final size:26
Alignment explanation
Indices: 627514--627565 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
627504 GGGAAAATCG
627514 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
627541 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
627566 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:634110 original size:14 final size:15
Alignment explanation
Indices: 634091--634119 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
634081 TTGTGTGTTC
634091 TTTA-TTTTTATTTT
1 TTTATTTTTTATTTT
634105 TTTATTTTTTATTTT
1 TTTATTTTTTATTTT
634120 ATTTTTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTATTTTTTATTTT
Found at i:638459 original size:17 final size:17
Alignment explanation
Indices: 638439--638471 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
638429 GTTGGACCAT
*
638439 TCCACACGGTCATGTGA
1 TCCACACGGCCATGTGA
638456 TCCACACGGCCATGTG
1 TCCACACGGCCATGTG
638472 GTAGGCTATG
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:0.21, C:0.33, G:0.24, T:0.21
Consensus pattern (17 bp):
TCCACACGGCCATGTGA
Found at i:640431 original size:19 final size:20
Alignment explanation
Indices: 640389--640440 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
640379 TTTCCGTTAG
*
640389 GTTTTTTTAGATTCATTTCAT
1 GTTTTTTTA-TTTCATTTCAT
*
640410 GTTTTTTTATTTCA-TTCGT
1 GTTTTTTTATTTCATTTCAT
*
640429 GTTTATTTATTT
1 GTTTTTTTATTT
640441 GTATTAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 15 0.54
20 4 0.14
21 9 0.32
ACGTcount: A:0.15, C:0.08, G:0.10, T:0.67
Consensus pattern (20 bp):
GTTTTTTTATTTCATTTCAT
Found at i:643272 original size:13 final size:13
Alignment explanation
Indices: 643256--643280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
643246 TGAAAAATAA
643256 AATTAACTAATGT
1 AATTAACTAATGT
643269 AATTAACTAATG
1 AATTAACTAATG
643281 AATGCCACAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (13 bp):
AATTAACTAATGT
Found at i:651642 original size:26 final size:26
Alignment explanation
Indices: 651613--651665 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
651603 TTTACAGTTT
651613 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
651639 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
651665 T
1 T
651666 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:652786 original size:24 final size:24
Alignment explanation
Indices: 652759--652810 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
652749 TTAGTAAGTC
*
652759 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
652783 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
652807 AAAT
1 AAAT
652811 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:654376 original size:27 final size:28
Alignment explanation
Indices: 654340--654415 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 28
654330 TAAATATAAC
654340 AAATTTAATTAATCAAT-ATGAGTTATT
1 AAATTTAATTAATCAATCATGAGTTATT
* *
654367 AAATTAAATTAATTATTTTATCATGAGTTATT
1 AAATTTAATTAATCA----ATCATGAGTTATT
*
654399 AAATTTAAGTAATCAAT
1 AAATTTAATTAATCAAT
654416 TTATAAGTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
31 2 0.05
32 22 0.56
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (28 bp):
AAATTTAATTAATCAATCATGAGTTATT
Found at i:654419 original size:32 final size:32
Alignment explanation
Indices: 654357--654419 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
654347 ATTAATCAAT
* * *
654357 ATGAGTTATTAAATTAAATTAATTATTTTATC
1 ATGAGTTATTAAATTAAAGTAATCAATTTATC
*
654389 ATGAGTTATTAAATTTAAGTAATCAATTTAT
1 ATGAGTTATTAAATTAAAGTAATCAATTTAT
654420 AAGTTTGTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.48
Consensus pattern (32 bp):
ATGAGTTATTAAATTAAAGTAATCAATTTATC
Found at i:657370 original size:23 final size:23
Alignment explanation
Indices: 657344--657437 Score: 125
Period size: 23 Copynumber: 4.1 Consensus size: 23
657334 AAGTTAGAAG
*
657344 AGTGAAGAGACTTGAATATAAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
657367 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
657390 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
657413 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
657436 AG
1 AG
657438 ATACACACAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:661980 original size:15 final size:15
Alignment explanation
Indices: 661960--662002 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
661950 TGGATAAATG
661960 AAAAATTAAGTATTA
1 AAAAATTAAGTATTA
* * *
661975 AAAAATTAAATGTTG
1 AAAAATTAAGTATTA
661990 AAAAATT-AGTATT
1 AAAAATTAAGTATT
662003 GAATATTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (15 bp):
AAAAATTAAGTATTA
Found at i:665230 original size:24 final size:24
Alignment explanation
Indices: 665201--665253 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
665191 GAATTTTTAG
* *
665201 AATATTTAATATTTATTATTATAA
1 AATATTTAACATTTATTAGTATAA
*
665225 TATATTTAACATTTATTAGTATAA
1 AATATTTAACATTTATTAGTATAA
665249 AATAT
1 AATAT
665254 ATTTTTTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
AATATTTAACATTTATTAGTATAA
Found at i:670771 original size:7 final size:7
Alignment explanation
Indices: 670759--670792 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
670749 TATTGAGTAA
*
670759 ATTAATT
1 ATTAAAT
*
670766 ATTAATT
1 ATTAAAT
670773 ATTAAAT
1 ATTAAAT
670780 ATTAAAT
1 ATTAAAT
670787 ATTAAA
1 ATTAAA
670793 ATAATATAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
ATTAAAT
Found at i:673846 original size:29 final size:30
Alignment explanation
Indices: 673811--673874 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
673801 TGTAATAATG
* * *
673811 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATACACAATATAGTATTTAAAAAAAT
*
673840 ATATATATACAATATAGTATTTAAAAAAAT
1 ATATATACACAATATAGTATTTAAAAAAAT
673870 ATATA
1 ATATA
673875 CATAAGATGG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.53, C:0.05, G:0.06, T:0.36
Consensus pattern (30 bp):
ATATATACACAATATAGTATTTAAAAAAAT
Found at i:674090 original size:21 final size:21
Alignment explanation
Indices: 674053--674108 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
674043 ACATATATAT
* *
674053 ATATA-AATAATAGTATTAGCA
1 ATATACAAT-ATAATATTAGAA
674074 ATATACAATATAATATTAGAA
1 ATATACAATATAATATTAGAA
*
674095 ATATAC-GTATAATA
1 ATATACAATATAATA
674109 GTATAAGAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 7 0.23
21 21 0.68
22 3 0.10
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATACAATATAATATTAGAA
Found at i:676065 original size:30 final size:30
Alignment explanation
Indices: 676029--676088 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
676019 ATAGACAAAT
*
676029 ATGATGTAATACCCTACACCTAGCCTAAAC
1 ATGATGTAACACCCTACACCTAGCCTAAAC
*
676059 ATGATGTAACACCCTACACCTGGCCTAAAC
1 ATGATGTAACACCCTACACCTAGCCTAAAC
676089 GTTATGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.32, G:0.12, T:0.22
Consensus pattern (30 bp):
ATGATGTAACACCCTACACCTAGCCTAAAC
Found at i:681061 original size:16 final size:17
Alignment explanation
Indices: 681040--681074 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
681030 AAAAATTGTT
681040 TTACTTTTC-TATATTA
1 TTACTTTTCATATATTA
681056 TTACTTTTCATATATTA
1 TTACTTTTCATATATTA
681073 TT
1 TT
681075 TCATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (17 bp):
TTACTTTTCATATATTA
Found at i:681125 original size:12 final size:13
Alignment explanation
Indices: 681103--681136 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
681093 ATATATTTTC
681103 ATTATTTTATATT
1 ATTATTTTATATT
681116 ATTATTTATATATAT
1 ATTATTT-TATAT-T
681131 ATTATT
1 ATTATT
681137 ATCCTTAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 5 0.26
15 7 0.37
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTATTTTATATT
Found at i:681156 original size:21 final size:17
Alignment explanation
Indices: 681104--681138 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
681094 TATATTTTCA
*
681104 TTATTTTATATTATTAT
1 TTATATTATATTATTAT
681121 TTATATATATATTATTAT
1 TTATAT-TATATTATTAT
681139 CCTTAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATATTATATTATTAT
Found at i:681186 original size:36 final size:35
Alignment explanation
Indices: 681144--681225 Score: 91
Period size: 36 Copynumber: 2.4 Consensus size: 35
681134 ATTATCCTTA
681144 ACTATTATATTATA--TT-AATCAAT-TACTTATAT
1 ACTA-TATATTATATTTTAAATCAATATACTTATAT
* *
681176 ACTATATATTATGATTTTAAATCCATATACTTTTAT
1 ACTATATATTAT-ATTTTAAATCAATATACTTATAT
*
681212 ATTATATATTATAT
1 ACTATATATTATAT
681226 AATTATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
31 8 0.19
32 5 0.12
34 2 0.05
35 8 0.19
36 19 0.45
ACGTcount: A:0.39, C:0.09, G:0.01, T:0.51
Consensus pattern (35 bp):
ACTATATATTATATTTTAAATCAATATACTTATAT
Found at i:689198 original size:20 final size:20
Alignment explanation
Indices: 689148--689198 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
689138 AAATCCAAAT
*
689148 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
689168 TAAAATCCTGAAATTCAGGA
1 TAAAATACTGAAATTCAGGA
*
689188 TAAGATACTGA
1 TAAAATACTGA
689199 TATGGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.25
Consensus pattern (20 bp):
TAAAATACTGAAATTCAGGA
Found at i:697191 original size:26 final size:27
Alignment explanation
Indices: 697139--697192 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
697129 TTAACTAAAC
* *
697139 ATGAATTATTTGTAAAATTATTGATAT
1 ATGAAATATTTGTAAAATTATTAATAT
697166 ATGAAATATTT-TAAAATT-TTAAATAT
1 ATGAAATATTTGTAAAATTATT-AATAT
697192 A
1 A
697193 ACGATAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.08
26 12 0.50
27 10 0.42
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
ATGAAATATTTGTAAAATTATTAATAT
Found at i:697241 original size:31 final size:28
Alignment explanation
Indices: 697224--697283 Score: 52
Period size: 28 Copynumber: 2.2 Consensus size: 28
697214 ATTTAATATA
* *
697224 ATAATATATAAATTTTAAATTAATTTAA-
1 ATAATAAATATATTTTAAA-TAATTTAAT
** *
697252 ATTTTAAATATTTTTTAAATAA-TTAAT
1 ATAATAAATATATTTTAAATAATTTAAT
697279 ATAAT
1 ATAAT
697284 TAACAATTCT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
26 4 0.17
27 6 0.25
28 14 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATAATAAATATATTTTAAATAATTTAAT
Found at i:699346 original size:15 final size:15
Alignment explanation
Indices: 699326--699356 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
699316 TAGCAAAGAA
*
699326 GAACCCCTCACCTCT
1 GAACCCCCCACCTCT
699341 GAACCCCCCACCTCT
1 GAACCCCCCACCTCT
699356 G
1 G
699357 GAAATCAGAA
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:0.19, C:0.55, G:0.10, T:0.16
Consensus pattern (15 bp):
GAACCCCCCACCTCT
Found at i:700185 original size:25 final size:25
Alignment explanation
Indices: 700121--700185 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
700111 TACAATATCC
*
700121 AAACAATAATAAA-AAAATAGCAAT
1 AAACAATAATAAACATAATAGCAAT
*
700145 AAACAA-AA-AATGACATAATAGCAGT
1 AAACAATAATAA--ACATAATAGCAAT
700170 AAACAATAATAAACAT
1 AAACAATAATAAACAT
700186 CAGGAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.06
23 2 0.06
24 7 0.21
25 19 0.56
26 2 0.06
27 2 0.06
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (25 bp):
AAACAATAATAAACATAATAGCAAT
Found at i:715799 original size:51 final size:51
Alignment explanation
Indices: 715723--715836 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
715713 AGTGACAAGC
* *
715723 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
715774 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
715825 GACAAGTGATAA
1 GACAAGTGATAA
715837 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:723617 original size:51 final size:51
Alignment explanation
Indices: 723541--723654 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
723531 AGTGACAAGC
* *
723541 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
723592 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
723643 GACAAGTGATAA
1 GACAAGTGATAA
723655 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:731471 original size:15 final size:15
Alignment explanation
Indices: 731451--731511 Score: 86
Period size: 15 Copynumber: 4.1 Consensus size: 15
731441 TAGCAAAGAA
*
731451 GAACCCCTCACCTCT
1 GAACCCCCCACCTCT
*
731466 GAACCCCCCACCTTT
1 GAACCCCCCACCTCT
**
731481 GTGCCCCCCACCTCT
1 GAACCCCCCACCTCT
731496 GAACCCCCCACCTCT
1 GAACCCCCCACCTCT
731511 G
1 G
731512 GGAATCAGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.16, C:0.56, G:0.10, T:0.18
Consensus pattern (15 bp):
GAACCCCCCACCTCT
Found at i:731592 original size:25 final size:25
Alignment explanation
Indices: 731558--731609 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
731548 AATTATAAAA
731558 AATATATTGTAAAAATTTTCATTTT
1 AATATATTGTAAAAATTTTCATTTT
*
731583 AATATATTGTAAAATTTTTCATTTT
1 AATATATTGTAAAAATTTTCATTTT
731608 AA
1 AA
731610 AGTTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (25 bp):
AATATATTGTAAAAATTTTCATTTT
Found at i:732140 original size:17 final size:17
Alignment explanation
Indices: 732118--732168 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
732108 GATTATTTTT
732118 ATATAAAAAATTAAAAA
1 ATATAAAAAATTAAAAA
* *
732135 ATATAATAAA-TAAAAT
1 ATATAAAAAATTAAAAA
*
732151 AGACTAAAAATATTAAAA
1 ATA-TAAAAA-ATTAAAA
732169 TAAATGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.26
17 14 0.52
18 1 0.04
19 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (17 bp):
ATATAAAAAATTAAAAA
Found at i:736552 original size:21 final size:21
Alignment explanation
Indices: 736528--736567 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
736518 CACTAATCTG
736528 TTGTATTAATCATCAAATCCA
1 TTGTATTAATCATCAAATCCA
*
736549 TTGTATTAATCGTCAAATC
1 TTGTATTAATCATCAAATC
736568 GTTGCTAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.40
Consensus pattern (21 bp):
TTGTATTAATCATCAAATCCA
Found at i:738844 original size:17 final size:17
Alignment explanation
Indices: 738822--738854 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
738812 GCCCAATACC
738822 TAACCCTAAG-CCCAAAA
1 TAACCC-AAGACCCAAAA
738839 TAACCCAAGACCCAAA
1 TAACCCAAGACCCAAA
738855 TCAGAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.48, C:0.36, G:0.06, T:0.09
Consensus pattern (17 bp):
TAACCCAAGACCCAAAA
Found at i:739325 original size:17 final size:18
Alignment explanation
Indices: 739298--739332 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
739288 TTAAAACATA
*
739298 TAAAAAGTAAATAAAAAG
1 TAAAAAGTAAAGAAAAAG
739316 TAAAAA-TAAAGAAAAAG
1 TAAAAAGTAAAGAAAAAG
739333 AGGCAACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.14
Consensus pattern (18 bp):
TAAAAAGTAAAGAAAAAG
Found at i:739927 original size:3 final size:3
Alignment explanation
Indices: 739919--739963 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
739909 CTACTTTAAT
739919 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
739964 CTTCTAATGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:740444 original size:24 final size:26
Alignment explanation
Indices: 740399--740446 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
740389 TTAATACATG
740399 TTTTATATATGTATATATTATGTATA
1 TTTTATATATGTATATATTATGTATA
740425 TTTTA-ATAT-TATAT-TATATGTA
1 TTTTATATATGTATATAT-TATGTA
740447 CGTACTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 1 0.05
24 11 0.52
25 4 0.19
26 5 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
TTTTATATATGTATATATTATGTATA
Found at i:740524 original size:21 final size:20
Alignment explanation
Indices: 740490--740528 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
740480 TTTTGTACTA
*
740490 TATTATTTTATTAGTTTTGC
1 TATTATTGTATTAGTTTTGC
740510 TATTATTAGTATTAGTTTT
1 TATTATT-GTATTAGTTTT
740529 AGTTTCAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.03, G:0.10, T:0.64
Consensus pattern (20 bp):
TATTATTGTATTAGTTTTGC
Found at i:743239 original size:21 final size:21
Alignment explanation
Indices: 743215--743256 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
743205 TTTCAGCTAA
743215 AAACAGCTTGTTTAGCACAGC
1 AAACAGCTTGTTTAGCACAGC
743236 AAACAGCTTGTTTAGCACAGC
1 AAACAGCTTGTTTAGCACAGC
743257 TTTATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (21 bp):
AAACAGCTTGTTTAGCACAGC
Found at i:744584 original size:21 final size:21
Alignment explanation
Indices: 744554--744599 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
744544 GATGGGCACT
*
744554 AATCCGTTGTATTAATCATCA
1 AATCCATTGTATTAATCATCA
*
744575 AATCCATTGTATTAATCGTCA
1 AATCCATTGTATTAATCATCA
744596 AATC
1 AATC
744600 GTCGCTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.37
Consensus pattern (21 bp):
AATCCATTGTATTAATCATCA
Found at i:751150 original size:3 final size:3
Alignment explanation
Indices: 751144--751181 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
751134 TCCCTCTTCT
751144 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
751182 GTGGATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:755469 original size:29 final size:28
Alignment explanation
Indices: 755436--755490 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
755426 AAATTACATT
* * *
755436 AATAGTTATTTAACTATAAAAAGTTATAA
1 AATAGTCATTTAA-TAAAAAAAATTATAA
755465 AATAGTCATTTAATAAAAAAAATTAT
1 AATAGTCATTTAATAAAAAAAATTAT
755491 CGTCAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.36
Consensus pattern (28 bp):
AATAGTCATTTAATAAAAAAAATTATAA
Found at i:756628 original size:3 final size:3
Alignment explanation
Indices: 756620--756665 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
756610 AAAGTGTTTG
756620 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
756666 GGGTACATGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:758764 original size:17 final size:17
Alignment explanation
Indices: 758742--758776 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
758732 TATTTTTAAA
758742 ATTTAAATCCAAAATAT
1 ATTTAAATCCAAAATAT
*
758759 ATTTAAATTCAAAATAT
1 ATTTAAATCCAAAATAT
758776 A
1 A
758777 CCTACATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTAAATCCAAAATAT
Found at i:760679 original size:6 final size:6
Alignment explanation
Indices: 760668--760699 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
760658 TAATGATCCT
*
760668 CCATAG CCATAG CCATGG CCATAG CCATAG CC
1 CCATAG CCATAG CCATAG CCATAG CCATAG CC
760700 TGCTGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (6 bp):
CCATAG
Found at i:761073 original size:22 final size:21
Alignment explanation
Indices: 761027--761067 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
761017 ATAATTATTT
761027 TAAATTTTTATTATATAAAAA
1 TAAATTTTTATTATATAAAAA
*
761048 TAAATATTTTA-TATTTAAAA
1 TAAAT-TTTTATTATATAAAA
761068 TGTAAAGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAATTTTTATTATATAAAAA
Found at i:764914 original size:47 final size:47
Alignment explanation
Indices: 764805--764915 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
764795 CCGGGATAAG
* *
764805 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
764852 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
764899 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
764916 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:765226 original size:14 final size:15
Alignment explanation
Indices: 765198--765226 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
765188 CGTTTGCTAC
765198 TAAAAATCATACAAT
1 TAAAAATCATACAAT
765213 TAAAAATCAT-CAAT
1 TAAAAATCATACAAT
765227 ATACTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (15 bp):
TAAAAATCATACAAT
Found at i:765689 original size:4 final size:4
Alignment explanation
Indices: 765680--765704 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
765670 CCCTTTTCTA
765680 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
765705 CATGTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:769864 original size:22 final size:20
Alignment explanation
Indices: 769826--769865 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
769816 TGGTTTTTGG
*
769826 TTTATTTTGTCTTTAGTACT
1 TTTATTTTGTCCTTAGTACT
769846 TTTATGTTTGCTCCTTAGTA
1 TTTAT-TTTG-TCCTTAGTA
769866 GTTACCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.15, C:0.12, G:0.12, T:0.60
Consensus pattern (20 bp):
TTTATTTTGTCCTTAGTACT
Found at i:783376 original size:23 final size:23
Alignment explanation
Indices: 783325--783376 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
783315 AGTCGATTAA
*
783325 ATAAATTGATACAATTTATTTGT
1 ATAAATTGATACAATTAATTTGT
* *
783348 ACAAATTTATA-AATTAATTTCGT
1 ATAAATTGATACAATTAATTT-GT
783371 ATAAAT
1 ATAAAT
783377 GATTTTTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 8 0.33
23 16 0.67
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (23 bp):
ATAAATTGATACAATTAATTTGT
Found at i:785607 original size:46 final size:48
Alignment explanation
Indices: 785536--785655 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
785526 GACAGGACAG
* * *
785536 GACAGAAATGAGCCATGTAAATCCATA-T-CAGATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
* *
785582 GACAGGAATGAGCCATGTAAGTCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
* **
785630 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
785656 GTCGAAGACA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
46 25 0.39
47 1 0.02
48 38 0.59
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATTACAGATATATGGCATTGGA
Found at i:814886 original size:44 final size:44
Alignment explanation
Indices: 814836--814974 Score: 124
Period size: 44 Copynumber: 3.2 Consensus size: 44
814826 GACAAAGGAT
814836 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * * *
814880 CTTGCCTCTT-TCGGTTGTGATA--G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TTCT-GCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* *
814924 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
814968 CTTGCCT
1 CTTGCCT
814975 CTTTCGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 4 0.06
43 16 0.23
44 27 0.39
45 18 0.26
46 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (44 bp):
CTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:814917 original size:43 final size:43
Alignment explanation
Indices: 814868--815005 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
814858 GAAGCAGATC
814868 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
* * * * * ** ** * * *
814911 GAAGACAAAAGATCTTGCCTTCCTAC-ATTGACAGCGAAGCAGATC
1 GAAGACACAA-ACCTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTT
814956 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
814999 GAAGACA
1 GAAGACA
815006 AAAGATCTTG
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 25 0.37
44 24 0.36
45 18 0.27
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
Found at i:814971 original size:88 final size:88
Alignment explanation
Indices: 814822--815157 Score: 439
Period size: 88 Copynumber: 3.9 Consensus size: 88
814812 GACAGATCAA
* * * *
814822 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
814887 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
814910 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
**
814975 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTGATAGAGCTGGT
*
814998 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCC
* * * *
815061 TCCATCGATTG-CAGTGGAGCTAGT
65 TCCATCGGTTGTGA-TAGAGCTGGT
* ** * * *
815085 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
815148 CCATCGGTTG
66 CCATCGGTTG
815158 CATTGGAGCA
Statistics
Matches: 225, Mismatches: 19, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
86 60 0.27
87 31 0.14
88 134 0.60
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
CCATCGGTTGTGATAGAGCTGGT
Found at i:815016 original size:44 final size:44
Alignment explanation
Indices: 814880--815018 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
814870 AGACACAAAC
814880 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
* * * ** ** * * * * *
814924 CTTGCCTTCCTAC-ATTGACAGCGAAGCAGATCGAAGACACAA-AC
1 CTTGCC-TCTTTCGGTTGTGATAG-AGCTGGTTGAAGACAAAAGAT
814968 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
815012 CTTGCCT
1 CTTGCCT
815019 TCCTACATTA
Statistics
Matches: 67, Mismatches: 24, Indels: 8
0.68 0.24 0.08
Matches are distributed among these distances:
43 18 0.27
44 31 0.46
45 18 0.27
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (44 bp):
CTTGCCTCTTTCGGTTGTGATAGAGCTGGTTGAAGACAAAAGAT
Found at i:815184 original size:86 final size:88
Alignment explanation
Indices: 814822--815220 Score: 393
Period size: 88 Copynumber: 4.6 Consensus size: 88
814812 GACAGATCAA
* * * *
814822 TGAAGACAAAGGATCTTGCCTTTCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
** * *
814887 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTCATAGAGCAGGT
* * *
814910 TGAAGACAAAAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
** * *
814975 CTTTCGGTTGTGATAGAGCTGGT
66 CCATCGGTTGTCATAGAGCAGGT
* * *
814998 TGAAGACAAAAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAA-ACA-AAGCCTTGCA
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC-AAAGACACAAACCTTGCC
* *
815061 TCCATCGATTG-CAGTGGAGCTA-GT
65 TCCATCGGTTGTCA-TAGAGC-AGGT
* ** *
815085 TAAAGA-AGTAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACA-AAGCCTTGCCT
1 TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
* *
815148 CCATCGGTTG-CATTGGAGCAGAT
66 CCATCGGTTGTCA-TAGAGCAGGT
* * ** * * *
815171 TGAAG-CCAGAGATCTTATCTCCCTGAGATT-ACAGCGGAGCAGATCAAAGA
1 TGAAGACAAAAGATCTTGCCTTCCTG-CATTAACAGCGAAGCAGATCAAAGA
815221 TAGTAATCCT
Statistics
Matches: 274, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
85 4 0.01
86 104 0.38
87 31 0.11
88 133 0.49
89 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (88 bp):
TGAAGACAAAAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAGACACAAACCTTGCCT
CCATCGGTTGTCATAGAGCAGGT
Found at i:815399 original size:23 final size:21
Alignment explanation
Indices: 815366--815410 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 21
815356 TGTCCCTGAG
*
815366 GTTACAGCGGAGCTGATCGAA
1 GTTACAGCGGAGCAGATCGAA
815387 GTTATCAGTCGGAGCAGATCGAA
1 GTTA-CAG-CGGAGCAGATCGAA
815410 G
1 G
815411 ATATAATCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 3 0.14
23 14 0.67
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (21 bp):
GTTACAGCGGAGCAGATCGAA
Found at i:815551 original size:195 final size:192
Alignment explanation
Indices: 815205--815584 Score: 543
Period size: 195 Copynumber: 2.0 Consensus size: 192
815195 GAGATTACAG
815205 CGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTT
1 CGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTT
815270 ATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAAC
66 ATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAAC
* *
815335 AGACCGAAGAATTGCAGATCTTGT-CCCTGAGGTTACAGCGGAGCTGATCGAAGTTATCAGT
131 AGACCGAAGAATTGCAGATCTTATCCCCTGAGGTTACAGCGGAGCAGATCGAAGTTATCAGT
* *
815396 CGGAGCAGATCGAAGATA-TAATCCTATCT-CTCTGA-AGTTACAGTGGAGCGGATTAAAATAAA
1 CGGAGCAGATCAAAGATAGTAATCCTATCTCCT-TGAGA-TTACAATGGAGCGGA-T----TAAA
* * * * *
815458 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCTCTGAGGTTACA
59 GGATCTTATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACA
** * *
815523 GTGGAGTAGACCGAAGAATTGCAGATCTTATCCCCCTGAGGTTACAGTGGAGCAGATTGAAG
124 GTGGAACAGACCGAAGAATTGCAGATCTTAT-CCCCTGAGGTTACAGCGGAGCAGATCGAAG
815585 CCAGAGGTCT
Statistics
Matches: 167, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
189 3 0.02
190 28 0.17
191 18 0.11
195 92 0.55
197 26 0.16
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (192 bp):
CGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATTAAAGGATCTT
ATCTCTCTAAAGTTACAGTAGAGAAGATCACATCAGGTCTTATCTCCCTGAGATTACAGTGGAAC
AGACCGAAGAATTGCAGATCTTATCCCCTGAGGTTACAGCGGAGCAGATCGAAGTTATCAGT
Found at i:815552 original size:46 final size:41
Alignment explanation
Indices: 815459--815574 Score: 124
Period size: 41 Copynumber: 2.7 Consensus size: 41
815449 TAAAATAAAG
* * * *
815459 GATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
1 GATCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAATCA
*
815500 GGTCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAAGAATTGCA
1 GATCTTATCTCTCTGAGGTTACAGTGGAGTAGACC---GAA-T-CA
* *
815546 GATCTTATCCCCCTGAGGTTACAGTGGAG
1 GATCTTATCTCTCTGAGGTTACAGTGGAG
815575 CAGATTGAAG
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
41 31 0.50
44 2 0.03
45 1 0.02
46 28 0.45
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (41 bp):
GATCTTATCTCTCTGAGGTTACAGTGGAGTAGACCGAATCA
Found at i:815634 original size:21 final size:21
Alignment explanation
Indices: 815610--815653 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
815600 CCCTAAGATT
815610 ACAGCGGAGCA-AGTCGAAGAC
1 ACAGCGGAGCAGA-TCGAAGAC
*
815631 ACAGCGGAGCGGATCGAAGAC
1 ACAGCGGAGCAGATCGAAGAC
815652 AC
1 AC
815654 TATCCTATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.25, G:0.34, T:0.05
Consensus pattern (21 bp):
ACAGCGGAGCAGATCGAAGAC
Found at i:820001 original size:31 final size:29
Alignment explanation
Indices: 819932--820005 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
819922 ACAAAATAAT
**
819932 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATGGCA
*
819961 AACATAAGTGACTAAAATGTAACATGAGGCA
1 AACATAAGTGACTAAAACGTAACAT--GGCA
*
819992 AACAAAAGTGACTA
1 AACATAAGTGACTA
820006 TTTTTGTAGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATGGCA
Found at i:826412 original size:7 final size:7
Alignment explanation
Indices: 826400--826429 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
826390 CTAATAACTT
826400 AAAATTA
1 AAAATTA
826407 AAAATTA
1 AAAATTA
826414 AAAATT-
1 AAAATTA
826420 AAAATTA
1 AAAATTA
826427 AAA
1 AAA
826430 TACAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:826416 original size:13 final size:14
Alignment explanation
Indices: 826400--826429 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
826390 CTAATAACTT
826400 AAAATTAAAAATTA
1 AAAATTAAAAATTA
826414 AAAATT-AAAATTA
1 AAAATTAAAAATTA
826427 AAA
1 AAA
826430 TACAAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTAAAAATTA
Found at i:841660 original size:20 final size:18
Alignment explanation
Indices: 841606--841656 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
841596 AGCCCAAAAA
*
841606 TATTGAATTTTAATTTTC
1 TATTTAATTTTAATTTTC
* *
841624 TATTTACTGTTTTATTTTC
1 TATTTAAT-TTTAATTTTC
841643 TGATTTAATTTTAA
1 T-ATTTAATTTTAA
841657 ATTTATTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 6 0.23
19 14 0.54
20 6 0.23
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (18 bp):
TATTTAATTTTAATTTTC
Found at i:842086 original size:2 final size:2
Alignment explanation
Indices: 842079--842129 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
842069 TGCAATATGA
842079 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
842121 AC AC AC AC A
1 AC AC AC AC A
842130 GATGTATGTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:844121 original size:23 final size:25
Alignment explanation
Indices: 844090--844137 Score: 82
Period size: 24 Copynumber: 2.0 Consensus size: 25
844080 TTCTGTTATT
844090 AACAGAGA-TTCCCGATCTTTGCCA
1 AACAGAGATTTCCCGATCTTTGCCA
844114 AACA-AGATTTCCCGATCTTTGCCA
1 AACAGAGATTTCCCGATCTTTGCCA
844138 CATCAAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
AACAGAGATTTCCCGATCTTTGCCA
Found at i:848718 original size:6 final size:6
Alignment explanation
Indices: 848707--848732 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
848697 AGGTGACATG
848707 CATATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CA
848733 GGTATTAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (6 bp):
CATATA
Found at i:857877 original size:29 final size:29
Alignment explanation
Indices: 857841--857907 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
857831 ATTAAAAACA
857841 AAATTTGAAATCGCACTCTAAATGAAAAT
1 AAATTTGAAATCGCACTCTAAATGAAAAT
* * *
857870 AATTTTGAAATTGTACTCTAAATGAAAAT
1 AAATTTGAAATCGCACTCTAAATGAAAAT
857899 AAATTTGAA
1 AAATTTGAA
857908 GGTCTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.48, C:0.09, G:0.10, T:0.33
Consensus pattern (29 bp):
AAATTTGAAATCGCACTCTAAATGAAAAT
Found at i:860018 original size:41 final size:41
Alignment explanation
Indices: 859961--860045 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
859951 TGTTCATACA
859961 TTTCCCAATCTATCTATCTATCACTAATTAATTAATATTTG
1 TTTCCCAATCTATCTATCTATCACTAATTAATTAATATTTG
860002 TTTCCCAATCTATCTATCTATCACTAATTAATTAATATTTG
1 TTTCCCAATCTATCTATCTATCACTAATTAATTAATATTTG
860043 TTT
1 TTT
860046 TACTTTTGGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.02, T:0.48
Consensus pattern (41 bp):
TTTCCCAATCTATCTATCTATCACTAATTAATTAATATTTG
Found at i:863234 original size:28 final size:27
Alignment explanation
Indices: 863190--863463 Score: 138
Period size: 28 Copynumber: 9.8 Consensus size: 27
863180 CTGCACAATC
* *
863190 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCCAT-CCG
*
863218 GATGTTTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
** * *
863246 GATACTTCGTACACTAAGTGCCATTTCG
1 GATGTTTCGCACACTAAGTGCCA-TCCG
*
863274 GATGTTTCGCACACTAAGTGTCATCATC-
1 GATGTTTCGCACACTAAGTGCCATC--CG
* ** * * *
863302 AATACTTCGTATACTAAGTGCCATTTCG
1 GATGTTTCGCACACTAAGTGCCA-TCCG
* *
863330 GATGTCTCGCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
* ** * * * *
863358 AATACTTCGGACGCTAAGTGCCATTTCA
1 GATGTTTCGCACACTAAGTGCCA-TCCG
* * * *
863386 AATGTCTCGCACACTAAGTGCCATTTCA
1 GATGTTTCGCACACTAAGTGCCA-TCCG
* * *
863414 GATGTCTCGCACACTAAGTGTCATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
* **
863442 AATACTTCGCACACTAAGTGCC
1 GATGTTTCGCACACTAAGTGCC
863464 GTTCGTTTGG
Statistics
Matches: 186, Mismatches: 50, Indels: 20
0.73 0.20 0.08
Matches are distributed among these distances:
27 10 0.05
28 170 0.91
29 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCCATCCG
Found at i:863276 original size:56 final size:56
Alignment explanation
Indices: 863216--863409 Score: 298
Period size: 56 Copynumber: 3.5 Consensus size: 56
863206 AGTGCTATAC
* *
863216 CGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGTACACTAAGTGCCATTT
1 CGGATGTCTCGCACACTAAGTGCCATCCTCAATACTTCGTACACTAAGTGCCATTT
* * * *
863272 CGGATGTTTCGCACACTAAGTGTCATCATCAATACTTCGTATACTAAGTGCCATTT
1 CGGATGTCTCGCACACTAAGTGCCATCCTCAATACTTCGTACACTAAGTGCCATTT
* *
863328 CGGATGTCTCGCACACTAAGTGCCATCCTCAATACTTCGGACGCTAAGTGCCATTT
1 CGGATGTCTCGCACACTAAGTGCCATCCTCAATACTTCGTACACTAAGTGCCATTT
**
863384 CAAATGTCTCGCACACTAAGTGCCAT
1 CGGATGTCTCGCACACTAAGTGCCAT
863410 TTCAGATGTC
Statistics
Matches: 126, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 126 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (56 bp):
CGGATGTCTCGCACACTAAGTGCCATCCTCAATACTTCGTACACTAAGTGCCATTT
Found at i:863344 original size:84 final size:84
Alignment explanation
Indices: 863279--863463 Score: 257
Period size: 84 Copynumber: 2.2 Consensus size: 84
863269 TTTCGGATGT
* * * *
863279 TTCGCACACTAAGTGTCATCATC-AATACT-TCGTATACTAAGTGCCATTTCGGATGTCTCGCAC
1 TTCGCACACTAAGTGCCAT-ATCAAAT-CTCTCGCACACTAAGTGCCATTTCAGATGTCTCGCAC
863342 ACTAAGTGCCATCCTCAATAC
64 ACTAAGTGCCATCCTCAATAC
* * * *
863363 TTCGGACGCTAAGTGCCATTTCAAATGTCTCGCACACTAAGTGCCATTTCAGATGTCTCGCACAC
1 TTCGCACACTAAGTGCCATATCAAATCTCTCGCACACTAAGTGCCATTTCAGATGTCTCGCACAC
*
863428 TAAGTGTCATCCTCAATAC
66 TAAGTGCCATCCTCAATAC
863447 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
863464 GTTCGTTTGG
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
83 3 0.03
84 85 0.97
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (84 bp):
TTCGCACACTAAGTGCCATATCAAATCTCTCGCACACTAAGTGCCATTTCAGATGTCTCGCACAC
TAAGTGCCATCCTCAATAC
Found at i:866382 original size:29 final size:31
Alignment explanation
Indices: 866350--866418 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 31
866340 AACTGATCTT
866350 TTATTTAAAA-AAATTAAAA-ATATATAAA-G-
1 TTATTTAAAACAAA-TAAAAGA-ATATAAATGA
*
866379 TTATTTAAAACACATAAAAGAATATAAATGA
1 TTATTTAAAACAAATAAAAGAATATAAATGA
866410 TTATTTAAA
1 TTATTTAAA
866419 TATGAAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
29 22 0.63
30 4 0.11
31 9 0.26
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (31 bp):
TTATTTAAAACAAATAAAAGAATATAAATGA
Found at i:866901 original size:20 final size:19
Alignment explanation
Indices: 866830--866898 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 19
866820 AACCGACAAG
*
866830 ATTTTAAATTAAATAATTTT
1 ATTTTAAATTAAATAA-TAT
*
866850 ATTTTAAATTTAATTATAGTAT
1 ATTTTAAA-TTAA--ATAATAT
* *
866872 ATATTAATATTAAATGATAT
1 ATTTTAA-ATTAAATAATAT
866892 ATTTTAA
1 ATTTTAA
866899 TATCTTATAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 19 0.49
21 4 0.10
22 12 0.31
23 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
ATTTTAAATTAAATAATAT
Found at i:875558 original size:18 final size:18
Alignment explanation
Indices: 875535--875627 Score: 159
Period size: 18 Copynumber: 5.2 Consensus size: 18
875525 CCCAACTACT
*
875535 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
875553 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
875571 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
875589 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
875607 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
875625 GTA
1 GTA
875628 AACGGTCGTA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:875587 original size:36 final size:36
Alignment explanation
Indices: 875535--875627 Score: 177
Period size: 36 Copynumber: 2.6 Consensus size: 36
875525 CCCAACTACT
*
875535 GTATACGTGAACAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
875571 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
875607 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
875628 AACGGTCGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 56 1.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:877783 original size:14 final size:15
Alignment explanation
Indices: 877766--877802 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
877756 AAAATATTTT
877766 TATTTTAAT-ATTAA
1 TATTTTAATAATTAA
*
877780 TATTTTTATAATTAA
1 TATTTTAATAATTAA
877795 -ATTTTAAT
1 TATTTTAAT
877803 TCTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATTTTAATAATTAA
Found at i:882357 original size:20 final size:20
Alignment explanation
Indices: 882332--882372 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
882322 TTACATAGCC
882332 ACCAATAATAGTAGTCAATG
1 ACCAATAATAGTAGTCAATG
882352 ACCAATAATAGTAGTCAATG
1 ACCAATAATAGTAGTCAATG
882372 A
1 A
882373 AAGGATCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
ACCAATAATAGTAGTCAATG
Found at i:883914 original size:34 final size:31
Alignment explanation
Indices: 883870--883931 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 31
883860 AACATTATTT
*
883870 AAATATATATTTTTATTTCATAACATCAACTGTA
1 AAATAAATA-TTTTATTTC-TAAC-TCAACTGTA
883904 AAATAAATATTTTATTTCTAACTCAACT
1 AAATAAATATTTTATTTCTAACTCAACT
883932 AAAATTTGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 6 0.22
32 4 0.15
33 9 0.33
34 8 0.30
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.44
Consensus pattern (31 bp):
AAATAAATATTTTATTTCTAACTCAACTGTA
Found at i:893070 original size:17 final size:17
Alignment explanation
Indices: 893048--893081 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
893038 ATCCACTAAT
*
893048 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
893065 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
893082 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:897709 original size:17 final size:17
Alignment explanation
Indices: 897687--897720 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
897677 ATCCACTAAT
*
897687 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
897704 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
897721 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:901064 original size:30 final size:32
Alignment explanation
Indices: 901030--901090 Score: 92
Period size: 30 Copynumber: 2.0 Consensus size: 32
901020 GTTATTCTAA
901030 TACTATTATT-TATTT-T-TTTATTTATATTTC
1 TACTATTATTATATTTCTATTTA-TTATATTTC
901060 TACTATTATTATATTTCTATTTATTATATTT
1 TACTATTATTATATTTCTATTTATTATATTT
901091 TTATTTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 10 0.36
31 5 0.18
32 9 0.32
33 4 0.14
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (32 bp):
TACTATTATTATATTTCTATTTATTATATTTC
Found at i:901069 original size:44 final size:44
Alignment explanation
Indices: 900990--901105 Score: 110
Period size: 44 Copynumber: 2.7 Consensus size: 44
900980 TTATTGCTAT
* * ** * *
900990 TATTA-TTATGTTTCTATTTATATTTATTTTGTTATTCTAATAC
1 TATTATTTATATTTTTATTTATATTTATACTATTATTATAATAC
* * * *
901033 TATTATTTATTTTTTTATTTATATTTCTACTATTATTATATTTC
1 TATTATTTATATTTTTATTTATATTTATACTATTATTATAATAC
*
901077 TATT-TATTATATTTTTATTTCTATTTATA
1 TATTAT-TTATATTTTTATTTATATTTATA
901106 TACTAATATT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
43 6 0.10
44 53 0.90
ACGTcount: A:0.26, C:0.06, G:0.02, T:0.66
Consensus pattern (44 bp):
TATTATTTATATTTTTATTTATATTTATACTATTATTATAATAC
Found at i:901073 original size:17 final size:15
Alignment explanation
Indices: 900992--901096 Score: 69
Period size: 15 Copynumber: 7.1 Consensus size: 15
900982 ATTGCTATTA
*
900992 TTATTATGTTTCTAT
1 TTATTATATTTCTAT
* *
901007 TTATATTTATTT-T-G
1 TTAT-TATATTTCTAT
* * *
901021 TTATTCTAATACTA-
1 TTATTATATTTCTAT
901035 TTATT-TATTT-T-T
1 TTATTATATTTCTAT
901047 TTATTTATATTTCTACT
1 TTA-TTATATTTCTA-T
901064 ATTATTATATTTCTAT
1 -TTATTATATTTCTAT
*
901080 TTATTATATTTTTAT
1 TTATTATATTTCTAT
901095 TT
1 TT
901097 CTATTTATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 20
0.71 0.09 0.20
Matches are distributed among these distances:
12 4 0.06
13 9 0.13
14 15 0.21
15 22 0.31
16 6 0.08
17 12 0.17
18 3 0.04
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.68
Consensus pattern (15 bp):
TTATTATATTTCTAT
Done.