Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 166 of 316
Found at i:52796825 original size:178 final size:178
Alignment explanation
Indices: 52796510--52797448 Score: 1088
Period size: 178 Copynumber: 5.3 Consensus size: 178
52796500 AGACGGCAAA
* ** *
52796510 TCTTATCTTCCC-GAGGTAGCAAGGGAGCAGGCCAAAGATTGTAGTCTTATCTTCTTGAAGTAGC
1 TCTTATC-TCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * *
52796574 AAGGAAGCAAACTAAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
** * *
52796639 GTGAATCTTATCTT-CTCGAGGTAGCAGGGGAGTAGATTTTAGCCACTAG
130 ACGAATCTTATCTTCCT-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * *
52796688 TCTTATCTCCCTAAGGTAGCACGAGG-GCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGA
1 TCTTATCTCCCTAAGGTAGCAAG-GGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * *
52796752 AAGGAAGTAGACTGAAGATTGTAGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGACG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
* **
52796817 ACGAATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACCAG
130 ACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* *
52796866 CCTTATCTCCCTGAA-GTAGCAAGGGAGCAGGC-CAGAGATTGTAGTCTTATCTTCTTGAGGTAG
1 TCTTATCTCCCT-AAGGTAGCAAGGGAGCAGGCTGA-AGATTGTAGTCTTATCTTCTTGAGGTAG
* * *
52796929 CAAGGAAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGAC
64 CAAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGAC
* *
52796994 AACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAG
129 GACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * * *
52797044 CCTTATCTCCCTAAGGAAGCACGAGG-GCAGGCTTAAGATTGTAGTCTTATCTTCCTGAGGTAGC
1 TCTTATCTCCCTAAGGTAGCAAG-GGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * *
52797108 AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTGAGATAGCAGTGGAGCAAATCGAATATG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
*
52797173 GCGAATCTTATCTTCCTGAGGTAGCA-GGGAGCAAGATTTTAGCCACCA-
130 ACGAATCTTATCTTCCTGAGGTAGCAGGGGAGC-AGATTTTAGCCACCAG
* **
52797221 TCCTTATCTCACTAAGGTAGCAAGGGAGCAGATTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
1 T-CTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * * *
52797286 AAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCAGTGGGGCATATC-AAAAG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCAT-GAGGTAGCAATGGAGCAGATCGAAGA-
* * * * * * * *
52797349 CGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCACTAG
128 CGACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * * * *
52797400 TCTTATATTCCTAAAGTAGCAAGGAAGTAGGTTGAAGATTGTAGATCTT
1 TCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG-TCTT
52797449 GTCTCTTTAA
Statistics
Matches: 657, Mismatches: 87, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
177 21 0.03
178 617 0.94
179 19 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (178 bp):
TCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCA
AGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGA
CGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
Found at i:52796974 original size:45 final size:43
Alignment explanation
Indices: 52796508--52797331 Score: 334
Period size: 44 Copynumber: 18.5 Consensus size: 43
52796498 GAAGACGGCA
* ****
52796508 AATCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCCAAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * * *
52796552 AGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * *
52796596 AAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGGT
1 -AATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * ** ****
52796641 GAATCTTATCTTCTCGAGGTAGCAGGGGAGTAGATTTTAGCCACT
1 -AATCTTATCTCCT-GAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * **
52796686 AGTCTTATCTCCCTAAGGTAGCACGAGG-GCAGGCTGAAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAG-GGAGCAGATTGAAGATTGT
* * * * * *
52796730 AGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * *
52796774 AGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGA-CGACG
1 A-ATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAGATTG--T
* ** * ** *****
52796820 AATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACC
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
** * ***
52796864 AGCCTTATCTCCCTGAAGTAGCAAGGGAGCAG-GCCAGAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAGGGAGCAGATTGA-AGATTGT
* * *
52796908 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * **
52796952 AAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAACG-
1 -AATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAG--ATTGT
* ** ****
52796998 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
** * * * *
52797042 AGCCTTATCTCCCTAAGGAAGCACGAGG-GCAGGCTT-AAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAG-GGAGCA-GATTGAAGATTGT
* * * *
52797086 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * *
52797130 AGATCTTATCTCCCTGAGATAGC-AGTGGAGCAAATCGAATATGGCG
1 A-ATCTTATCT-CCTGAGGTAGCAAG-GGAGCAGATTGAAGATTG-T
** ****
52797176 AATCTTATCTTCCTGAGGTAGC-AGGGAGCAAGATTTTAG-CCAC
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGC-AGATTGAAGATTGT
* *
52797219 CATCCTTATCTCACTAAGGTAGCAAGGGAGCAGATTGAAGATTGT
1 AAT-CTTATCTC-CTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * *
52797264 AGTCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* *
52797308 AGATCTTGTCTCCTCGAGATAGCA
1 A-ATCTTATCTCCT-GAGGTAGCA
52797332 GTGGGGCATA
Statistics
Matches: 568, Mismatches: 170, Indels: 83
0.69 0.21 0.10
Matches are distributed among these distances:
43 10 0.02
44 285 0.50
45 263 0.46
46 8 0.01
47 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
Found at i:52797180 original size:356 final size:356
Alignment explanation
Indices: 52796511--52797405 Score: 1219
Period size: 356 Copynumber: 2.5 Consensus size: 356
52796501 GACGGCAAAT
* * *
52796511 CTTATCTTCCC-GAGGTAGCAAGGGAGCAGGCCAAAGATTGTAGTCTTATCTTCTTGAAGTAGCA
1 CTTATC-TCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCA
* * * *
52796575 AGGAAGCAAACTAAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGG
65 AGGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGG
* *
52796640 TGAATCTTATCTT-CTCGAGGTAGCAGGGGAGTAGATTTTAGCCACTAGTCTTATCTCCCTAAGG
130 CGAATCTTATCTTCCT-GAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGG
* *
52796704 TAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAG
194 AAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAG
* * * *
52796769 ATTGTAGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGACGACGAATCTTATCTTTCT
259 ATTGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCT
*
52796834 GATATAGCAGGGGAGC-AGATTTTAGCCACCAGC
324 GAGATAGCA-GGGAGCAAGATTTTAGCCACCAGC
52796867 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
1 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
* * **
52796932 GGAAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAAC
66 GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGGC
*
52796997 GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAA
131 GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGGAA
* * *
52797062 GCACGAGGGCAGGCTTAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
196 GCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAGAT
* * * * * * *
52797127 TGAAGATCTTATCTCCCTGAGATAGCAGTGGAGCAAATCGAATATGGCGAATCTTATCTTCCTGA
261 TGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
* *
52797192 GGTAGCAGGGAGCAAGATTTTAGCCACCATC
326 GATAGCAGGGAGCAAGATTTTAGCCACCAGC
* ***
52797223 CTTATCTCACT-AAGGTAGCAAGGGAGCA-GATTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
1 CTTATCTCCCTGAA-GTAGCAAGGGAGCAGGCCAG-AGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * * *
52797286 AAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCAGTGGGGCATATCAAAAG-
64 AAGGAAGCAAACTGAAGATTGTAAATCTTATCTCCAT-GAGGTAGCAATGGAGCAGAT-AGAAGA
* * * * * *
52797349 CGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCACTAGTCTTAT
127 CGGCGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTAT
52797406 ATTCCTAAAG
Statistics
Matches: 476, Mismatches: 56, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
355 15 0.03
356 455 0.96
357 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (356 bp):
CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGGC
GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGGAA
GCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAGAT
TGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
GATAGCAGGGAGCAAGATTTTAGCCACCAGC
Found at i:52797519 original size:534 final size:534
Alignment explanation
Indices: 52796544--52797541 Score: 1201
Period size: 534 Copynumber: 1.9 Consensus size: 534
52796534 GAGCAGGCCA
*
52796544 AAGATTGTAGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
1 AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
* * * * *
52796609 ATGAGGTAGCAATGGAGCAGATTGAACATGGTGAATCTTATCTTCTCGAGGTAGCAGGGGAGTAG
66 ATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTCGAGGTAGCAGGGGAGAAG
* * * *
52796674 ATTTTAGCCACTAGTCTTATCTCCCTAAGGTAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATC
131 ATTTTAGCCACCAGTCTTATCTCACTAAGGTAGCAAGAGGGCAGACTGAAGATTGTAGTCTTATC
* * *
52796739 TTCCTGAGATAGAAAGGAAGTAGACTGAAGATTGTAGATCTTATCTCCATGAGGCAACAATGGAG
196 TTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCATGAGACAACAATGGAG
* * * * *
52796804 CAGATCGAAGACGACGAATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACCAGCCT
261 CAGATCAAAGACGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCACCAGCCT
* * * * *
52796869 TATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGG
326 TATATCCCTAAAGTAGCAAGGAAGCAGGCCAGAGATTGTAGTCTTATCTTCTTAAAGTAGCAAGG
** *
52796934 AAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGA-TAGAAGACAACG
391 AAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACTA-AAGACAACG
52796998 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAG
455 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAG
52797063 CACGAGGGCAGGCTT
520 CACGAGGGCAGGCTT
* * *
52797078 AAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG-AAGATCTTATCTC
1 AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAA-ATCTTATCTC
* * *
52797142 CCTGAGATAGCAGTGGAGCAAATCGAATATGGCGAATCTTATCTTC-CTGAGGTAGCA-GGGAGC
65 CATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTC-GAGGTAGCAGGGGAG-
*
52797205 AAGATTTTAGCCACCA-TCCTTATCTCACTAAGGTAGCAAG-GGAGCAGATTGAAGATTGTAGTC
128 AAGATTTTAGCCACCAGT-CTTATCTCACTAAGGTAGCAAGAGG-GCAGACTGAAGATTGTAGTC
* * * * * * *
52797268 TTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCA
191 TTATCTTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCAT-GAGACAACA
* * * * * * * * *
52797332 GTGGGGCATATCAAA-AGCGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCA
255 ATGGAGCAGATCAAAGA-CGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCA
* * * * ** *
52797396 CTAGTCTTATATTCCTAAAGTAGCAAGGAAGTAGG-TTGAAGATTGTAGATCTTGTC-TCTTTAA
319 CCAGCCTTATATCCCTAAAGTAGCAAGGAAGCAGGCCAG-AGATTGTAG-TCTTATCTTC-TTAA
* * * * * * * * *
52797459 AGTTGTAATGGAA-TAGGTTGAAG-TTACAAGTCTTATCTCCCTGAAGTGGTAGTGGAGCAGACT
381 AGTAGCAA-GGAAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACT
* *
52797522 AAAGATAGCGAATCTTATCT
445 AAAGACAACGAATCTTATCT
52797542 CTAAAGTTGC
Statistics
Matches: 385, Mismatches: 67, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
533 14 0.04
534 343 0.89
535 24 0.06
536 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (534 bp):
AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
ATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTCGAGGTAGCAGGGGAGAAG
ATTTTAGCCACCAGTCTTATCTCACTAAGGTAGCAAGAGGGCAGACTGAAGATTGTAGTCTTATC
TTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCATGAGACAACAATGGAG
CAGATCAAAGACGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCACCAGCCT
TATATCCCTAAAGTAGCAAGGAAGCAGGCCAGAGATTGTAGTCTTATCTTCTTAAAGTAGCAAGG
AAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACTAAAGACAACGA
ATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAGC
ACGAGGGCAGGCTT
Found at i:52802951 original size:19 final size:19
Alignment explanation
Indices: 52802927--52802972 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
52802917 AATCTAACAA
52802927 AAAAGCTTAGAAATCTTGG
1 AAAAGCTTAGAAATCTTGG
*
52802946 AAAAGCTTAGAAATCTTTG
1 AAAAGCTTAGAAATCTTGG
52802965 AAAAGCTT
1 AAAAGCTT
52802973 CAAGAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (19 bp):
AAAAGCTTAGAAATCTTGG
Found at i:52805384 original size:15 final size:17
Alignment explanation
Indices: 52805359--52805394 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
52805349 ATGTGAAGAA
52805359 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
52805375 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
52805391 TATT
1 TATT
52805395 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:52805390 original size:13 final size:14
Alignment explanation
Indices: 52805359--52805400 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
52805349 ATGTGAAGAA
52805359 TATTGTTTAAAATTAT
1 TATT-TTTAAAA-TAT
52805375 TATTTTTAAAAT-T
1 TATTTTTAAAATAT
*
52805388 TATTATTAAAATA
1 TATTTTTAAAATA
52805401 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:52805485 original size:38 final size:38
Alignment explanation
Indices: 52805409--52805486 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 38
52805399 TAAAATTGAA
*
52805409 ATATTAAATAATTTATTAAGATAATAAATTATATTAATT
1 ATATTAAATAATTTATTAAGAT-ATAAATTATAATAATT
52805448 ATATT-AATAATTTATTATATGAT-TAAA-TATAAATAATT
1 ATATTAAATAATTTATTA-A-GATATAAATTAT-AATAATT
52805486 A
1 A
52805487 AATATGTATG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
37 3 0.09
38 23 0.66
39 6 0.17
40 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (38 bp):
ATATTAAATAATTTATTAAGATATAAATTATAATAATT
Found at i:52806107 original size:15 final size:14
Alignment explanation
Indices: 52806071--52806110 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
52806061 TAAAAGTTAA
* *
52806071 AAAAATAAGTGTTG
1 AAAATTAAGTATTG
52806085 AAAATTAAGTATTG
1 AAAATTAAGTATTG
52806099 AAAATTTAAGTA
1 AAAA-TTAAGTA
52806111 CTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAATTAAGTATTG
Found at i:52813442 original size:38 final size:38
Alignment explanation
Indices: 52813399--52813474 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52813389 TTCGTCCTTT
52813399 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52813437 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52813475 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:52814757 original size:40 final size:40
Alignment explanation
Indices: 52814663--52814807 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
52814653 TACTCGAATG
*
52814663 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
52814704 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
52814744 ATATCCGGGCTAAGTCCCGAAGGCATTTATTCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
52814784 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52814808 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:52821501 original size:38 final size:38
Alignment explanation
Indices: 52821458--52821533 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52821448 TTCATCCTTT
52821458 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52821496 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52821534 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:52823346 original size:40 final size:40
Alignment explanation
Indices: 52823301--52823685 Score: 619
Period size: 40 Copynumber: 9.6 Consensus size: 40
52823291 CAAGCTCAAT
* * * * *
52823301 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
52823341 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
52823381 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
52823421 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
52823461 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
52823501 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
52823541 TGCCTTCGGGTCTTCGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
52823581 TGCCTTCAGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
52823621 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
52823661 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
52823686 CATTCAAATG
Statistics
Matches: 320, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 317 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:52826852 original size:40 final size:40
Alignment explanation
Indices: 52826758--52826902 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
52826748 TACTCGAATG
*
52826758 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
52826799 ACATCCGGACTAAGGT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAA-GTCCCGAAGGCATTTGTGCTAGCGACT
* * *
52826839 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
52826879 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52826903 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 61 0.66
41 27 0.29
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:52829063 original size:26 final size:26
Alignment explanation
Indices: 52829026--52829109 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
52829016 TGATACAAAT
*
52829026 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
52829052 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52829078 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52829104 TGATAA
1 TGATAA
52829110 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:52830623 original size:26 final size:26
Alignment explanation
Indices: 52830594--52830646 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
52830584 TTTACAGTTT
52830594 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
52830620 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
52830646 T
1 T
52830647 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:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:52832775 original size:47 final size:47
Alignment explanation
Indices: 52832666--52832776 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
52832656 CCGGGATAAG
* *
52832666 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
52832713 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
52832760 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
52832777 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:52838915 original size:4 final size:4
Alignment explanation
Indices: 52838902--52838940 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
52838892 TCAAATTTCC
52838902 CTTT -TTT CTTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
52838941 ACGTTTGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:52839910 original size:43 final size:42
Alignment explanation
Indices: 52839832--52839937 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
52839822 TATGATTTAT
* * *
52839832 GTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGATATCGACATCGTATTTGATTAC
*
52839874 GTGTAAGACCCTGTCTGGGATAGT-GACATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGATA-TCGACATCG-TATTTGATTAC
* *
52839917 ATGTAAGACCAAGTCTGGGAT
1 GTGTAAGACCATGTCTGGGAT
52839938 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 26 0.47
43 29 0.53
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGATATCGACATCGTATTTGATTAC
Found at i:52857540 original size:46 final size:45
Alignment explanation
Indices: 52857473--52857647 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52857463 TGTAACCCGC
*
52857473 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
52857519 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * **
52857565 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
52857612 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
52857648 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:52857593 original size:93 final size:93
Alignment explanation
Indices: 52857481--52857651 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52857471 GCCCATAAGT
* * * *
52857481 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTGGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52857546 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
52857574 GAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52857639 CGAGTTCGGATGC
66 CGAGCTCGGATGC
52857652 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52857667 original size:46 final size:46
Alignment explanation
Indices: 52857478--52857667 Score: 137
Period size: 46 Copynumber: 4.1 Consensus size: 46
52857468 CCCGCCCATA
***
52857478 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TGGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-TCAACCATCC-T
52857523 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
52857573 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-G-GATGCTCAACCATCCT
*
52857617 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
52857663 AGTGA
1 AGTGA
52857668 CATGTCACTT
Statistics
Matches: 115, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 10 0.09
45 1 0.01
46 62 0.54
47 28 0.24
48 3 0.03
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:52860841 original size:27 final size:27
Alignment explanation
Indices: 52860801--52860984 Score: 203
Period size: 27 Copynumber: 6.8 Consensus size: 27
52860791 AGAAAGTTAA
** *
52860801 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
52860828 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
52860854 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
52860882 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
52860909 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
52860936 GGGTATTTTGGTAATTCTATCTTA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
52860963 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
52860985 TCGAGGGTAA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.03
27 126 0.95
28 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:52861017 original size:27 final size:27
Alignment explanation
Indices: 52860983--52861074 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
52860973 GTAATTTCAC
52860983 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
52861010 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
52861037 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
52861064 AATCGAGGGTA
1 AATCGAGGGTA
52861075 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:52861097 original size:54 final size:53
Alignment explanation
Indices: 52860963--52861099 Score: 143
Period size: 54 Copynumber: 2.5 Consensus size: 53
52860953 TATCTTATAG
* * * * * *
52860963 GGGTATTTTAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACTGA
1 GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
**
52861016 GGGTAAAATGGTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAA-TCGA
1 GGGTAATTTGGTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GA
*
52861070 GGGTACTTTGGTAATTTTACAAGTCGAGGG
1 GGGTAATTTGGTAATTTTACAA-TCGAGGG
52861100 CATTTCAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
52 2 0.03
53 16 0.24
54 49 0.72
55 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (53 bp):
GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
Found at i:52866975 original size:40 final size:40
Alignment explanation
Indices: 52866922--52867236 Score: 519
Period size: 40 Copynumber: 7.9 Consensus size: 40
52866912 TTGAGAGTTA
52866922 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52866962 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52867002 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
52867042 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
52867082 TATATCCGGGCTAAGT-CCGAAGAGCATTCGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
52867121 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
52867161 TATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
52867201 TATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
52867237 AATTATAAGG
Statistics
Matches: 261, Mismatches: 12, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
39 52 0.20
40 209 0.80
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:52867243 original size:119 final size:118
Alignment explanation
Indices: 52866921--52867243 Score: 488
Period size: 119 Copynumber: 2.7 Consensus size: 118
52866911 ATTGAGAGTT
*
52866921 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAA-ACCCGAAGA
52866986 GCATTCGTGCTAGTGA-TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
65 GCATTCGTGCT-G-GATTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
**
52867041 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAGTCCGAAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAACCCGAAGAG
* * *
52867106 CATTCGTACTGGTGTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
66 CATTCGTGCTGG-ATTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
52867160 TTATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAACCTCGAAG-
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAACC-CGAAGA
52867224 GCATTCGTGCTGGAATTATA
65 GCATTCGTGCTGG-ATTATA
52867244 AGGCACTATG
Statistics
Matches: 186, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
117 1 0.01
118 1 0.01
119 124 0.67
120 60 0.32
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (118 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTATATCCGGGCTAAACCCGAAGAG
CATTCGTGCTGGATTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:52867299 original size:29 final size:29
Alignment explanation
Indices: 52867244--52867317 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52867234 TGGAATTATA
* *
52867244 AGGCACTATGTGTGCCAGATTGGTAATTG
1 AGGCACTATGTGTGCGAGATTGGTAATCG
**
52867273 AGGCACTATGTGTGCGAG-TTCTTTAATCG
1 AGGCACTATGTGTGCGAGATT-GGTAATCG
52867302 A-GCACTATGTGTGCGA
1 AGGCACTATGTGTGCGA
52867318 AATCAGTCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (29 bp):
AGGCACTATGTGTGCGAGATTGGTAATCG
Found at i:52872835 original size:30 final size:31
Alignment explanation
Indices: 52872759--52872841 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
52872749 TCAGTCTCGA
52872759 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52872789 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52872820 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
52872842 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:52873113 original size:25 final size:26
Alignment explanation
Indices: 52873062--52873130 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
52873052 CTCTTTTAAT
52873062 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
52873087 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
52873112 AAGT-GGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52873131 AGCATTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.35
25 22 0.55
26 4 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:52873969 original size:27 final size:27
Alignment explanation
Indices: 52873939--52874003 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
52873929 GGGCATATTT
52873939 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
52873966 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
* *
52873993 ATCTTTTTACC
1 GTCATTTTACC
52874004 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:52874087 original size:27 final size:27
Alignment explanation
Indices: 52874057--52874164 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
52874047 GCAAATCTAC
52874057 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
52874084 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
52874110 AAAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
52874140 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
52874165 ACAAATTGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:52874284 original size:54 final size:54
Alignment explanation
Indices: 52874120--52874299 Score: 159
Period size: 54 Copynumber: 3.3 Consensus size: 54
52874110 AAAAAGTTAA
* *** * * * *
52874120 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
* * * *
52874173 AAGGTATTACGGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
* * **
52874228 GGGTATTTTGGTAATTTTACAAACTAAG-GGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTCACAAA-TAAGTGGTATTTTGGTAATTCTA-CAAACTAG
*
52874282 GGGTATTTCAGTAATTTC
1 GGGTATTTCGGTAATTTC
52874300 GCAATCGATG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
54 96 0.92
55 8 0.08
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
Found at i:52874289 original size:27 final size:27
Alignment explanation
Indices: 52874120--52874270 Score: 157
Period size: 27 Copynumber: 5.6 Consensus size: 27
52874110 AAAAAGTTAA
**
52874120 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
52874147 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** *
52874173 AAGGTATTACGGTAATTTCACAAA-TCAG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
*
52874201 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52874228 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
52874255 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
52874271 CTATCCTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 102 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:52874289 original size:81 final size:80
Alignment explanation
Indices: 52874120--52874270 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
52874110 AAAAAGTTAA
** *
52874120 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTACGG
1 GGGTATTT-TGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
52874185 TAATTTCACAAATCAG
65 TAATTTCACAAATCAG
* **
52874201 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTT
1 GGGTATTTT-GTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTGAA-GGTATTAC
52874264 GGTAATT
63 GGTAATT
52874271 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGGT
AATTTCACAAATCAG
Found at i:52874296 original size:81 final size:81
Alignment explanation
Indices: 52874120--52874298 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
52874110 AAAAAGTTAA
* ** *
52874120 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTACGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
52874185 TAATTTCACAAATCAG
66 TAATTTCACAAATCAG
* ** **
52874201 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTGAA-GGTATTAC
**
52874264 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAATCAG
52874282 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
52874299 CGCAATCGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 6 0.07
81 73 0.90
82 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
TAATTTCACAAATCAG
Found at i:52874364 original size:27 final size:27
Alignment explanation
Indices: 52874302--52874393 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
52874292 GTAATTTCGC
* *
52874302 AATCGATGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
52874329 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
52874356 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
52874383 AATCGAGGGTA
1 AATCGAGGGTA
52874394 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:52876027 original size:56 final size:56
Alignment explanation
Indices: 52875930--52876055 Score: 182
Period size: 55 Copynumber: 2.2 Consensus size: 56
52875920 CATGAGATTG
* * *
52875930 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
52875987 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
52876042 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52876056 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Found at i:52876042 original size:27 final size:28
Alignment explanation
Indices: 52875930--52876055 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
52875920 CATGAGATTG
* * * *
52875930 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
52875959 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52875987 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52876015 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52876042 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52876056 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.27
28 48 0.53
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52876066 original size:27 final size:27
Alignment explanation
Indices: 52875958--52876068 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
52875948 TAAATTGTAC
* * *
52875958 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52875986 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52876014 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52876041 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52876068 A
1 A
52876069 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52883616 original size:56 final size:57
Alignment explanation
Indices: 52883520--52883645 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 57
52883510 CATGAGATTG
* *
52883520 GCACTAAGTGTGC-AGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
52883577 GCACTAAGTGTGCGA-GTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
52883632 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52883646 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 17 0.27
58 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Found at i:52883632 original size:27 final size:28
Alignment explanation
Indices: 52883520--52883645 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
52883510 CATGAGATTG
* * *
52883520 GCACTAAGTGTGC-AGGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-GTTT-GATTATATA
*
52883549 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52883577 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52883605 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52883632 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52883646 GACTTAATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
27 24 0.27
28 48 0.53
29 17 0.19
30 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52883656 original size:27 final size:27
Alignment explanation
Indices: 52883548--52883658 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
52883538 TAAATTGTAC
* * *
52883548 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52883576 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52883604 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52883631 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52883658 A
1 A
52883659 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52892194 original size:35 final size:35
Alignment explanation
Indices: 52892078--52892195 Score: 137
Period size: 35 Copynumber: 3.4 Consensus size: 35
52892068 AAGGTATTGT
* * *
52892078 TCCGTAGAGCCAATAGACCATTTCCATGATGCCGT
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * *
52892113 TTCGTAGAGCCAGCAGATCATTTCTATGATGCCGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
* * **
52892148 TCTGTAAAGCCAGTAGATCATTTCCATGATGTTGC
1 TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
*
52892183 TCCATAGAGCCAG
1 TCCGTAGAGCCAG
52892196 CAGACTATTT
Statistics
Matches: 67, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (35 bp):
TCCGTAGAGCCAGTAGATCATTTCCATGATGCCGC
Found at i:52899420 original size:79 final size:81
Alignment explanation
Indices: 52899319--52899503 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
52899309 GCTACTCGTT
* * *
52899319 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
52899382 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
52899399 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
52899463 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
52899479 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52899504 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:52899503 original size:40 final size:40
Alignment explanation
Indices: 52899319--52899503 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
52899309 GCTACTCGTT
* *
52899319 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
52899359 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
52899399 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
52899438 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
52899479 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52899504 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 78 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52924256 original size:12 final size:13
Alignment explanation
Indices: 52924239--52924267 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
52924229 TAAACAGAAA
52924239 CATAT-AATAAAT
1 CATATAAATAAAT
52924251 CATATAAATAAAT
1 CATATAAATAAAT
52924264 CATA
1 CATA
52924268 ACTAGTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (13 bp):
CATATAAATAAAT
Found at i:52930040 original size:46 final size:47
Alignment explanation
Indices: 52929908--52930117 Score: 161
Period size: 46 Copynumber: 4.5 Consensus size: 47
52929898 TGAGAGTCAT
* * *
52929908 TGTAAGGCCATGTCTGGGACATGGCATTGGCATTA--AGATG-AGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-ACATCGGC--TACGAGATGTA-AGCTAG
* * * * *
52929956 TGTAAGA-CATGTTTGGGACATGCATTAGCCT-CGTGATGTAAGCTAG
1 TGTAAGACCATGTCTGGGACATACA-TCGGCTACGAGATGTAAGCTAG
52930002 TGTAAGA-CATGTCTGGGACATACATCGGCTACGAGATGT--G-TCAG
1 TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTAAGCT-AG
* * *
52930046 TGTAAGACCATGTCTGGGACATGACATCAGC-ACGGATATGTGAGAGCTAA
1 TGTAAGACCATGTCTGGGACAT-ACATCGGCTAC-GAGATGT-A-AGCTAG
52930096 TGTAAGACCATGTCTGGGACAT
1 TGTAAGACCATGTCTGGGACAT
52930118 GGTGTCGGCC
Statistics
Matches: 135, Mismatches: 13, Indels: 26
0.78 0.07 0.15
Matches are distributed among these distances:
43 1 0.01
44 10 0.07
45 21 0.16
46 55 0.41
47 17 0.13
48 6 0.04
50 24 0.18
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATACATCGGCTACGAGATGTAAGCTAG
Found at i:52930222 original size:96 final size:98
Alignment explanation
Indices: 52930041--52930222 Score: 237
Period size: 96 Copynumber: 1.9 Consensus size: 98
52930031 TACGAGATGT
*
52930041 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGATATGTGAGAGCTAATGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGA-ATGTGAGAGCCAATGTAAGACCA
* **
52930106 TGTCTGGGACATGGTGTCGGCCTCGATTTCGATA
65 TGTCTAGGACATGGCATCGGCCTCGATTTCGATA
* * * *
52930140 GTCAGTGTAAGACCATGTCTGGGACATGGCAT-TG-ACTTG-ATG-GATGAGCCAGTGTAAGACC
1 GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCAC-GGAATGTGA-GAGCCAATGTAAGACC
52930201 ATGTCTAGGACATGGCATCGGC
64 ATGTCTAGGACATGGCATCGGC
52930223 ATTATACCCT
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
95 2 0.03
96 36 0.49
97 2 0.03
98 2 0.03
99 31 0.42
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (98 bp):
GTCAGTGTAAGACCATGTCTGGGACATGACATCAGCACGGAATGTGAGAGCCAATGTAAGACCAT
GTCTAGGACATGGCATCGGCCTCGATTTCGATA
Found at i:52938606 original size:38 final size:38
Alignment explanation
Indices: 52938555--52938646 Score: 139
Period size: 38 Copynumber: 2.4 Consensus size: 38
52938545 ATTTCCTTTT
* *
52938555 GAAAATCCATTTACAACCTAGTGGTTTGCTACCAAGAG
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
* * *
52938593 GAAAATACATTTACAACTTAATGGTTTGCTACTAAGAA
1 GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
52938631 GAAAATCCATTTACAA
1 GAAAATCCATTTACAA
52938647 TGACTTAACA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.28
Consensus pattern (38 bp):
GAAAATCCATTTACAACCTAATGGTTTGCTACCAAGAA
Found at i:52940197 original size:49 final size:48
Alignment explanation
Indices: 52940142--52940269 Score: 183
Period size: 46 Copynumber: 2.7 Consensus size: 48
52940132 TTGAATTTTA
*
52940142 AAAACTCTTTTAAATAATAATTTCAATTCTATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATTT-AATTCTATTTAATTAT-TATTTATCT
52940191 AAAACTCTTTTAAATAATAATATT-ATT-T-TTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAAT-TTAATTCTATTTAATTATTATTTATCT
*
52940237 AAAACTCTTTTAAATAATAATTAAATTCTATTT
1 AAAACTCTTTTAAATAATAATTTAATTCTATTT
52940270 CCTTATTTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
45 2 0.03
46 39 0.54
47 2 0.03
48 6 0.08
49 21 0.29
50 2 0.03
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.52
Consensus pattern (48 bp):
AAAACTCTTTTAAATAATAATTTAATTCTATTTAATTATTATTTATCT
Found at i:52941629 original size:20 final size:23
Alignment explanation
Indices: 52941604--52941648 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
52941594 AGTTCGTATG
52941604 GTTAAAATT-T-AATGTT-ATAT
1 GTTAAAATTATGAATGTTAATAT
*
52941624 GTTAAATTTATGAATGTTAATAT
1 GTTAAAATTATGAATGTTAATAT
52941647 GT
1 GT
52941649 AGTTGTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 1 0.05
22 6 0.29
23 6 0.29
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
GTTAAAATTATGAATGTTAATAT
Found at i:52941977 original size:101 final size:101
Alignment explanation
Indices: 52941767--52941957 Score: 276
Period size: 101 Copynumber: 1.9 Consensus size: 101
52941757 TGATGGATAT
* * * * * *
52941767 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
52941832 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* *
52941868 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
52941933 TAAGACCATAACT-AGGTTACGGCAC
66 AAAGACCATAACTGAGG-TACGGCAC
52941958 TATGGCTGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
100 3 0.04
101 76 0.96
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (101 bp):
GACCATGGTTGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:52941986 original size:101 final size:101
Alignment explanation
Indices: 52941767--52941986 Score: 266
Period size: 101 Copynumber: 2.2 Consensus size: 101
52941757 TGATGGATAT
* * * * * * *
52941767 GACCATTGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGTTATGGCATTTTAATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
*
52941832 AAAGACCATAACTGAGGTATGGCACCTTGAACGTAA
66 AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
* * *
52941868 GACCATGGTTGGACCATGACAGTATTTATATGAAAGACTATAGCTAGGTTATGGCATTCTGATGA
1 GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
* *
52941933 TAAGACCATAACT-AGGTTACGGCA-CTATG-GCTGTAA
66 AAAGACCATAACTGAGG-TACGGCACCT-TGAAC-GTAA
*
52941969 GACCATGGTAGGGCCATG
1 GACCATGGTAGGACCATG
52941987 GCAATGCATG
Statistics
Matches: 103, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
100 6 0.06
101 97 0.94
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (101 bp):
GACCATGGTAGGACCATGACAGTATTTATATGAAAGACCATAGCTAGGTTATGGCATTCTAATGA
AAAGACCATAACTGAGGTACGGCACCTTGAACGTAA
Found at i:52956543 original size:78 final size:79
Alignment explanation
Indices: 52956427--52956575 Score: 196
Period size: 78 Copynumber: 1.9 Consensus size: 79
52956417 TTCCTCGAAG
* * *
52956427 TTAAAAAAAAAATTAACCTTATTTTTTTTACATCCAATTGGTTACTTAAACTTTCAAAATGTATA
1 TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCA-A
52956492 AAAAAAGTCCTTAAA
65 AAAAAAGTCCTTAAA
* * * *
52956507 TTAAAAAAAATAATTAAGCTT-TTTTTTTCAC-T-CAATTGGGTATTTGAACTTTTAAAATGCAA
1 TTAAAAAAAA-AATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAA
52956569 AAAAAAG
65 AAAAAAG
52956576 CAATTAAGCC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
77 8 0.13
78 24 0.39
79 1 0.02
80 19 0.31
81 9 0.15
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (79 bp):
TTAAAAAAAAAATTAACCTTATTTTTTTCACATCCAATTGGGTACTTAAACTTTCAAAATGCAAA
AAAAAGTCCTTAAA
Found at i:52956929 original size:9 final size:9
Alignment explanation
Indices: 52956843--52956941 Score: 51
Period size: 10 Copynumber: 10.6 Consensus size: 9
52956833 TATGTGACAA
52956843 AAAAATTAT
1 AAAAATTAT
52956852 AAAAA--AT
1 AAAAATTAT
52956859 AAAAATTAGT
1 AAAAATTA-T
*
52956869 AAAAGTTAT
1 AAAAATTAT
* *
52956878 AAGAATCATT
1 AAAAATTA-T
**
52956888 AAATTTTAAT
1 AAAAATT-AT
52956898 AAAAA-TATT
1 AAAAATTA-T
*
52956907 TAAAATTGATT
1 AAAAATT-A-T
52956918 AAAAATTAT
1 AAAAATTAT
*
52956927 AAAAAATTCT
1 -AAAAATTAT
52956937 AAAAA
1 AAAAA
52956942 GATTTATTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 18
0.69 0.13 0.18
Matches are distributed among these distances:
7 7 0.10
8 1 0.01
9 24 0.35
10 26 0.38
11 10 0.15
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:52957197 original size:28 final size:28
Alignment explanation
Indices: 52957135--52957215 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
52957125 GTACGATAAT
**
52957135 CTTTATAATTTTTTTTATGAATTTTATATTT
1 CTTTATAA--TTTTTTAT-AATTTTATATGA
52957166 CTTTAT-ATTTTTTATAATTTTATTATGA
1 CTTTATAATTTTTTATAATTTTA-TATGA
**
52957194 CTTTATAAAATTTTATAATTTT
1 CTTTATAATTTTTTATAATTTT
52957216 TTTTTACAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.16
28 17 0.39
29 13 0.30
30 1 0.02
31 6 0.14
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (28 bp):
CTTTATAATTTTTTATAATTTTATATGA
Found at i:52957266 original size:19 final size:19
Alignment explanation
Indices: 52957195--52957297 Score: 79
Period size: 19 Copynumber: 5.3 Consensus size: 19
52957185 TTATTATGAC
52957195 TTTATAAAATTTTATAATTTT
1 TTTATAAAATTTTATAA--TT
*
52957216 TTTTTACAAATTTTATAA-T
1 TTTATA-AAATTTTATAATT
52957235 TTTA-AATATATTTTAT-ATT
1 TTTATAA-A-ATTTTATAATT
*
52957254 TTTATTAAAATTTAATAATT
1 TTTA-TAAAATTTTATAATT
* *
52957274 TTTGT-AATTTTTATTAATT
1 TTTATAAAATTTTA-TAATT
52957293 TTTAT
1 TTTAT
52957298 TTTTATCATT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 32 0.48
20 7 0.10
21 7 0.10
22 11 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTATAAAATTTTATAATT
Found at i:52957285 original size:10 final size:10
Alignment explanation
Indices: 52957251--52957298 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
52957241 TATATTTTAT
52957251 ATTTTTATTA
1 ATTTTTATTA
** *
52957261 AAATTTAATA
1 ATTTTTATTA
*
52957271 ATTTTT-GTA
1 ATTTTTATTA
52957280 ATTTTTATTA
1 ATTTTTATTA
52957290 ATTTTTATT
1 ATTTTTATT
52957299 TTTATCATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:52957296 original size:29 final size:28
Alignment explanation
Indices: 52957226--52957296 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
52957216 TTTTTACAAA
*
52957226 TTTTA-TAATTTTAAATATATTTTATAT
1 TTTTATTAATTTTTAATATATTTTATAT
** *
52957253 TTTTATTAAAATTTAATA-ATTTTTGTAAT
1 TTTTATTAATTTTTAATATA-TTTTAT-AT
52957282 TTTTATTAATTTTTA
1 TTTTATTAATTTTTA
52957297 TTTTTATCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.17
28 14 0.40
29 15 0.43
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (28 bp):
TTTTATTAATTTTTAATATATTTTATAT
Found at i:52957491 original size:26 final size:25
Alignment explanation
Indices: 52957462--52957512 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
52957452 TTGAGTAAAA
**
52957462 AAAAAAGACTTAATTATTTTTTTATG
1 AAAAAAGA-TTAAGAATTTTTTTATG
*
52957488 AAAAAAGATTGAGAATTTTTTTATG
1 AAAAAAGATTAAGAATTTTTTTATG
52957513 CATTTTAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (25 bp):
AAAAAAGATTAAGAATTTTTTTATG
Found at i:52961940 original size:28 final size:28
Alignment explanation
Indices: 52961870--52961964 Score: 91
Period size: 28 Copynumber: 3.4 Consensus size: 28
52961860 GGCAAGTTAA
52961870 GTTTGCTAGTTTGTTTAGCAAACTGAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
** * * *
52961898 GTTCACCAGTTTGTTTAGCGAACTGGGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
* * * * *
52961926 GTTTGCTAGTCTGTTTGGCTAATTAAGG
1 GTTTGCTAGTTTGTTTAGCAAACTGAGG
*
52961954 GTTTGCCAGTT
1 GTTTGCTAGTT
52961965 GAGTTGTGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (28 bp):
GTTTGCTAGTTTGTTTAGCAAACTGAGG
Found at i:52969952 original size:19 final size:19
Alignment explanation
Indices: 52969928--52969966 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
52969918 ATTTTGAGTT
52969928 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
52969947 AGACGAATTGAGTTATTCG
1 AGACGAATTGAGTTATTCG
52969966 A
1 A
52969967 ATTTTTCGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (19 bp):
AGACGAATTGAGTTATTCG
Found at i:52970431 original size:17 final size:17
Alignment explanation
Indices: 52970411--52970471 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
52970401 ATCTATATCT
*
52970411 ATTATTTATATTATTAA
1 ATTATTTATATTATTGA
* *
52970428 ATTAATTTTTACATT-TTGT
1 ATT-A--TTTATATTATTGA
*
52970447 ACTATTTATATTATTGA
1 ATTATTTATATTATTGA
52970464 ATTATTTA
1 ATTATTTA
52970472 ATCATATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
16 7 0.21
17 13 0.39
18 2 0.06
19 4 0.12
20 7 0.21
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:52974474 original size:19 final size:19
Alignment explanation
Indices: 52974450--52974498 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
52974440 GATTAAGATC
52974450 TGGTTTTCACTAAAAT-GAA
1 TGGTTTTC-CTAAAATAGAA
*
52974469 TGGTTTTCCTAGAATAGAA
1 TGGTTTTCCTAAAATAGAA
52974488 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
52974499 GTTTTCGTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (19 bp):
TGGTTTTCCTAAAATAGAA
Found at i:52980770 original size:17 final size:18
Alignment explanation
Indices: 52980739--52980783 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
52980729 CTTAGCCAAT
*
52980739 TGGGCCATGT-GGGCCATA
1 TGGG-CATGTAGGCCCATA
52980757 TGGGCATGTAGGCCCATA
1 TGGGCATGTAGGCCCATA
*
52980775 CGGGCATGT
1 TGGGCATGT
52980784 GAAATTCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (18 bp):
TGGGCATGTAGGCCCATA
Found at i:52981757 original size:18 final size:18
Alignment explanation
Indices: 52981716--52981764 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
52981706 GATTAAGATC
*
52981716 TGGTTTTCCCTAAAACGAA
1 TGGTTTT-CCTAAAAAGAA
52981735 TGGTTTTCCTAAAATAGAA
1 TGGTTTTCCTAAAA-AGAA
52981754 -GGTTTT-CTAAA
1 TGGTTTTCCTAAA
52981765 GCTTTCGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 5 0.18
18 13 0.46
19 10 0.36
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (18 bp):
TGGTTTTCCTAAAAAGAA
Found at i:52998881 original size:40 final size:40
Alignment explanation
Indices: 52998830--52999106 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
52998820 ATAACCGCAA
* * * *
52998830 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
52998870 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
52998910 GCATAATTGCCTTCGGGTCTTAGCCCGAATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
52998950 GCAGAAATGCCTTCGGGTTTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52998990 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52999030 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
52999070 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
52999107 ATGCTCATGC
Statistics
Matches: 220, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:53011357 original size:26 final size:26
Alignment explanation
Indices: 53011328--53011435 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
53011318 TGGTACAAAT
*
53011328 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
53011354 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
53011380 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
53011406 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
53011432 TGAT
1 TGAT
53011436 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:53013102 original size:54 final size:54
Alignment explanation
Indices: 53013020--53013163 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
53013010 TGGAGGAAGC
53013020 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
53013074 GTCCTGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
53013128 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
53013164 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 6 0.07
54 79 0.93
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:53013174 original size:27 final size:27
Alignment explanation
Indices: 53013023--53013181 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
53013013 AGGAAGCGTC
*
53013023 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
53013050 CTGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
53013077 CTGGTGGTTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
53013104 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
53013131 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
53013158 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
53013182 GTAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:53013175 original size:81 final size:80
Alignment explanation
Indices: 53013023--53013181 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
53013013 AGGAAGCGTC
* *
53013023 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGTTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
53013088 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * *
53013104 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTG-CT
*
53013167 T-CGTCACAATATCTG
63 TACGCCACAATATCTG
53013182 GTAGCCTCGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 16 0.23
81 51 0.74
82 2 0.03
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGCTTAC
GCCACAATATCTGAT
Found at i:53014895 original size:106 final size:105
Alignment explanation
Indices: 53014701--53014900 Score: 364
Period size: 106 Copynumber: 1.9 Consensus size: 105
53014691 CTAATAGGAC
53014701 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
1 TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
*
53014766 TCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
66 CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
*
53014806 TACCCGTCTAGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGGAACA
1 TACCCGTCT-GGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACA
*
53014871 CCCGTCCGGGCTAGATTCCTTTTCATACTT
65 CCCGTCCGAGCTAGATTCCTTTTCATACTT
53014901 AAGATCATGG
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
105 9 0.10
106 82 0.90
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (105 bp):
TACCCGTCTGGCTAAATCCTCAATGCACATATATTCTTCGGGAGGCTTGATCATTCAAGAAACAC
CCGTCCGAGCTAGATTCCTTTTCATACTTGATATCACGAT
Found at i:53020195 original size:23 final size:22
Alignment explanation
Indices: 53020162--53020257 Score: 93
Period size: 23 Copynumber: 4.2 Consensus size: 22
53020152 AGTTACCGAC
*
53020162 TCTGTGAAAGCCTTTATGGCTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
* *
53020185 TCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTGTGG-TGT
*
53020208 TCTGTGAAAGCCTTTGTAGTAGT
1 TCTGTGAAAGCCTTTGTGGT-GT
* * *
53020231 TCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTGTGG-TGT
53020254 TCTG
1 TCTG
53020258 ATATATGAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
22 1 0.02
23 59 0.97
24 1 0.02
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (22 bp):
TCTGTGAAAGCCTTTGTGGTGT
Found at i:53020233 original size:46 final size:46
Alignment explanation
Indices: 53020162--53020257 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 46
53020152 AGTTACCGAC
* * * *
53020162 TCTGTGAAAGCCTTTATGGCTGTTCTGTGGAAGCCTTTTTGGATGT
1 TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
* *
53020208 TCTGTGAAAGCCTTTGTAG-TAGTTCTGAGGAAGCCCTTGTGGTTGT
1 TCTGTGAAAGCCTTTATAGCT-GTTCTGAGGAAGCCCTTGTGGATGT
53020254 TCTG
1 TCTG
53020258 ATATATGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.02
46 42 0.98
ACGTcount: A:0.16, C:0.16, G:0.29, T:0.40
Consensus pattern (46 bp):
TCTGTGAAAGCCTTTATAGCTGTTCTGAGGAAGCCCTTGTGGATGT
Found at i:53022545 original size:50 final size:50
Alignment explanation
Indices: 53022490--53022604 Score: 194
Period size: 50 Copynumber: 2.3 Consensus size: 50
53022480 AGTGAAACTA
*
53022490 GCTACTGCACCTTGCCAGCAGAACTAGCCCTCCACCCTGATCCTTCGCGC
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
* * *
53022540 GCTACTGCACCTTGCCAGTAGAACTAGCCCGCCACCCTGATCCTTTGCGT
1 GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
53022590 GCTACTGCACCTTGC
1 GCTACTGCACCTTGC
53022605 TCCTTTACCC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.17, C:0.41, G:0.19, T:0.23
Consensus pattern (50 bp):
GCTACTGCACCTTGCCAGCAGAACTAGCCCGCCACCCTGATCCTTCGCGC
Found at i:53032578 original size:17 final size:18
Alignment explanation
Indices: 53032556--53032590 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
53032546 GGTTCATCCG
53032556 TGTGGCCCACAC-GCCTA
1 TGTGGCCCACACGGCCTA
*
53032573 TGTGGCCTACACGGCCTA
1 TGTGGCCCACACGGCCTA
53032591 ATAGGTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (18 bp):
TGTGGCCCACACGGCCTA
Found at i:53043680 original size:43 final size:43
Alignment explanation
Indices: 53043554--53043658 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
53043544 GTCTTACATT
53043554 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
* * *
53043597 TAATCACATATCGATGCCCCTGTCCCAGACAGGGTCTTACTGG
1 TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
53043640 TAATCACATATCGATGCCA
1 TAATCACATATCGATGCCA
53043659 ACGTATTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.26
Consensus pattern (43 bp):
TAATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCG
Found at i:53044298 original size:15 final size:15
Alignment explanation
Indices: 53044275--53044305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53044265 TGAAAAATTC
53044275 CAATACAAAACATAT
1 CAATACAAAACATAT
*
53044290 CAATCCAAAACATAT
1 CAATACAAAACATAT
53044305 C
1 C
53044306 TTTCATAATT
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:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:53044818 original size:14 final size:14
Alignment explanation
Indices: 53044801--53044827 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53044791 AAATCACGAA
53044801 AATTTCACACATAT
1 AATTTCACACATAT
53044815 AATTTCACACATA
1 AATTTCACACATA
53044828 ATAAAAATAA
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:53052120 original size:14 final size:14
Alignment explanation
Indices: 53052103--53052129 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53052093 AAATCACGAA
53052103 AATTTCACACATAT
1 AATTTCACACATAT
53052117 AATTTCACACATA
1 AATTTCACACATA
53052130 ATAAAAATAG
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:0.44, C:0.22, G:0.00, T:0.33
Consensus pattern (14 bp):
AATTTCACACATAT
Found at i:53052719 original size:19 final size:19
Alignment explanation
Indices: 53052695--53052731 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
53052685 GTTACATGCA
53052695 CACATGATTCCACTAATCT
1 CACATGATTCCACTAATCT
*
53052714 CACATGGTTCCACTAATC
1 CACATGATTCCACTAATC
53052732 AAACACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.32, G:0.08, T:0.30
Consensus pattern (19 bp):
CACATGATTCCACTAATCT
Found at i:53060368 original size:26 final size:26
Alignment explanation
Indices: 53060332--53060387 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
53060322 TCATGGAGTG
53060332 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
53060358 TCAACCAGTCCATACCCAAAATGACA
1 TCAACCAGTCCATACCCAAAATGACA
53060384 TCAA
1 TCAA
53060388 ACTCATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.43, C:0.34, G:0.07, T:0.16
Consensus pattern (26 bp):
TCAACCAGTCCATACCCAAAATGACA
Found at i:53062869 original size:74 final size:74
Alignment explanation
Indices: 53062748--53062898 Score: 275
Period size: 74 Copynumber: 2.0 Consensus size: 74
53062738 GGCTGTGTGT
* *
53062748 CACACACAGCCTAGACACAATCCCGTGTGTCTACCTGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
53062813 CTTTTTTGC
66 CTTTTTTGC
*
53062822 CACACACAGCCTAGACACAAGCTCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
1 CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
53062887 CTTTTTTGC
66 CTTTTTTGC
53062896 CAC
1 CAC
53062899 TCTGAAACAC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (74 bp):
CACACACAGCCTAGACACAAGCCCGTGTGTCTACCCGTGTGGACAATATAAGGCTCTCTACCAAG
CTTTTTTGC
Found at i:53067298 original size:15 final size:15
Alignment explanation
Indices: 53067280--53067309 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
53067270 ATTTTCATTT
53067280 TTAAAATTTAATTAC
1 TTAAAATTTAATTAC
*
53067295 TTAAAATTTGATTAC
1 TTAAAATTTAATTAC
53067310 AAATGAAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAATTTAATTAC
Found at i:53069068 original size:20 final size:22
Alignment explanation
Indices: 53069043--53069086 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
53069033 TCGCATAAAC
53069043 AACATGT-A-GGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
53069063 AACATGTAAGGGGTTCGCATGT
1 AACATGTAAGGGGTTCGCATGT
53069085 AA
1 AA
53069087 TAATCATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 7 0.32
21 1 0.05
22 14 0.64
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.27
Consensus pattern (22 bp):
AACATGTAAGGGGTTCGCATGT
Found at i:53070755 original size:17 final size:17
Alignment explanation
Indices: 53070733--53070766 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
53070723 GCAAGCTTAA
53070733 ATAAATATAAAAAAATT
1 ATAAATATAAAAAAATT
* *
53070750 ATAAATTTATAAAAATT
1 ATAAATATAAAAAAATT
53070767 TATTTCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAAATATAAAAAAATT
Found at i:53071758 original size:29 final size:29
Alignment explanation
Indices: 53071725--53071781 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
53071715 TAAACGCCCC
53071725 ACTAAACCGA-CCACTAACTCCATCACCCT
1 ACTAAACC-ATCCACTAACTCCATCACCCT
*
53071754 ACTAAACCATCCACTACCTCCATCACCC
1 ACTAAACCATCCACTAACTCCATCACCC
53071782 CCACGCCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (29 bp):
ACTAAACCATCCACTAACTCCATCACCCT
Found at i:53071797 original size:37 final size:37
Alignment explanation
Indices: 53071750--53071822 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
53071740 AACTCCATCA
*
53071750 CCCTACTAAACCATCCACTACCTCCATCACCCCCACG
1 CCCTACTAAACCATCCACTACCTCCATCAACCCCACG
* *
53071787 CCCTACTAAACCGTCCATTACCTCCATCAACCCCAC
1 CCCTACTAAACCATCCACTACCTCCATCAACCCCAC
53071823 TACCTCCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.27, C:0.52, G:0.03, T:0.18
Consensus pattern (37 bp):
CCCTACTAAACCATCCACTACCTCCATCAACCCCACG
Found at i:53071828 original size:18 final size:18
Alignment explanation
Indices: 53071764--53071833 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
53071754 ACTAAACCAT
*
53071764 CCACTACCTCCATCACCC
1 CCACTACCTCCATCAACC
** * *
53071782 CCACGCCCTAC-TAAACC
1 CCACTACCTCCATCAACC
*
53071799 GTCCATTACCTCCATCAACC
1 --CCACTACCTCCATCAACC
53071819 CCACTACCTCCATCA
1 CCACTACCTCCATCA
53071834 CCCTACTTGT
Statistics
Matches: 38, Mismatches: 11, Indels: 6
0.69 0.20 0.11
Matches are distributed among these distances:
17 4 0.11
18 22 0.58
19 7 0.18
20 5 0.13
ACGTcount: A:0.26, C:0.53, G:0.03, T:0.19
Consensus pattern (18 bp):
CCACTACCTCCATCAACC
Found at i:53072289 original size:61 final size:60
Alignment explanation
Indices: 53072165--53072289 Score: 130
Period size: 61 Copynumber: 2.0 Consensus size: 60
53072155 TATTTTACTG
* * * *
53072165 TTAAATTAATTAATTTGAGCTTTATTCTCATTATTTTTATATTTGTTTTTTTTATTTTCTA
1 TTAAATTAATTAATTTGAGC-TTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
* *
53072226 TTAATTTAATTAATTTGAG-TTATGTTTCA-TATTATTATATTATCTATTTATTATATATT-TA
1 TTAAATTAATTAATTTGAGCTTAT-TCTCATTATTATTATATT-TCT-TTT-TTATATATTCTA
53072287 TTA
1 TTA
53072290 TGTAAATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
59 15 0.28
60 6 0.11
61 26 0.48
62 7 0.13
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (60 bp):
TTAAATTAATTAATTTGAGCTTATTCTCATTATTATTATATTTCTTTTTTATATATTCTA
Found at i:53072619 original size:18 final size:16
Alignment explanation
Indices: 53072575--53072621 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
53072565 TAGCACAATG
53072575 TTTATTACATTATTGTA
1 TTTATTA-ATTATTGTA
*
53072592 TTTATT-ATTATTGTTGT
1 TTTATTAATTATTG-T-A
53072609 TTTATTAATTATT
1 TTTATTAATTATT
53072622 TCTATTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 1 0.04
17 12 0.46
18 6 0.23
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTATTAATTATTGTA
Found at i:53072629 original size:13 final size:12
Alignment explanation
Indices: 53072608--53072657 Score: 57
Period size: 13 Copynumber: 4.1 Consensus size: 12
53072598 ATTATTGTTG
53072608 TTTTATTAATTA
1 TTTTATTAATTA
53072620 TTTCTATTAATTA
1 TTT-TATTAATTA
*
53072633 CTATTATT-ATTA
1 -TTTTATTAATTA
*
53072645 TTTTATTATTTA
1 TTTTATTAATTA
53072657 T
1 T
53072658 ATATGGTTAG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 6 0.19
12 11 0.34
13 13 0.41
14 2 0.06
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (12 bp):
TTTTATTAATTA
Found at i:53072993 original size:126 final size:126
Alignment explanation
Indices: 53072758--53072999 Score: 430
Period size: 126 Copynumber: 1.9 Consensus size: 126
53072748 CATTGATCTT
* * **
53072758 CTCTCAAAATTTTTCAAAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
53072823 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
53072884 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
1 CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
* *
53072949 ACGTATTGGGTTTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCT
66 ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCT
53073000 TAAGGCTAAA
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 110 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (126 bp):
CTCTAAAAAATTTTCAAAATAAAGGCAATGTTCAATATTTAAAGAATTCGAAGAATCGTGCCCTA
ACGTACTGGGTTTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTAACCAGTTCA
Found at i:53084608 original size:45 final size:45
Alignment explanation
Indices: 53084287--53084810 Score: 195
Period size: 45 Copynumber: 11.6 Consensus size: 45
53084277 TATCATCAGC
* * *
53084287 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53084332 CTTATCTTCACTAAGCAGGAGTGAAGCA-GATCAAATTTTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * ** ** *** * *
53084378 CTTATCTTCACTGAGTAGGAGTGAAGCAGATTTCAGCCACCAG-C
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53084422 CTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * *
53084467 CTTTTCTTCACTGAGCAGGAGTGAAGCA-GATCAAATTGTGGC-GAGT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAA-TATAGCAGA-T
* * * * *
53084513 CTTATCTCCA-TGTATC-GGCAATGGAGCAGATTCT-AATCAT--CAG-C
1 CTTATCTTCACTG-AGCAGG-AGTGGAGCAG--GCTAAAT-ATAGCAGAT
* *
53084557 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * **
53084602 CTTATCTTCGCTGAGCAGGAGCGGAGCA-GATCGAATTTTGGTGAAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAG-AT
* * ** *
53084648 CTTATC-TCCCTGTA-CTAACGA-TGGAGCAGATTCCAATCAT--CAGA-
1 CTTATCTTCACTG-AGC--AGGAGTGGAGCAGGCT-AAAT-ATAGCAGAT
* * *
53084692 CTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
* * * * * * *
53084737 CTTATCTCCGCTGAACAAGAGTGGAGCAGG-TCAGATACAGCGGAT
1 CTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AAATATAGCAGAT
* *
53084782 CTTATCTTCGCTGAGCAGGAGCGGAGCAG
1 CTTATCTTCACTGAGCAGGAGTGGAGCAG
53084811 ATCAAATTTT
Statistics
Matches: 346, Mismatches: 97, Indels: 72
0.67 0.19 0.14
Matches are distributed among these distances:
42 6 0.02
43 9 0.03
44 78 0.23
45 170 0.49
46 69 0.20
47 12 0.03
48 1 0.00
49 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (45 bp):
CTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAATATAGCAGAT
Found at i:53084750 original size:135 final size:133
Alignment explanation
Indices: 53084278--53084743 Score: 567
Period size: 135 Copynumber: 3.5 Consensus size: 133
53084268 AAAGATAGAT
* *
53084278 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAACATACCCGATCTTATCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * *
53084343 TAAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTTCACTG-AGTAGGAGTGAAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATC-TCCCTGTA-TACGA-TGGAGCAG
*
53084407 ATTTCA
128 ATTCCA
** * * * * * *
53084413 GCCACCAGCCTTATCTTCACGGAGCAGGAGTGGAGTAGGCTAAACATACCCGATCTTTTCTTCAC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* *
53084478 TGAGCAGGAGTGAAGCAGATCAAATTGTGGCGAGTCTTATCTCCATGTAT-CGGCAATGGAGCAG
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATAC-G--ATGGAGCAG
*
53084542 ATTCTA
128 ATTCCA
* * * *
53084548 ATCATCAGCCTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATAGCAGATCTTATCTTCGC
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
* * * * *
53084613 TGAGCAGGAGCGGAGCAGATCGAATTTTGGTGAATCTTATCTCCCTGTACTAACGATGGAGCAGA
66 TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTA-T-ACGATGGAGCAGA
53084678 TTCCA
129 TTCCA
* * * *
53084683 ATCATCAGACTTATCTTCACTGAGTAGGAGTGAAGCAGGCTAAATATATCAGATCTTATCT
1 ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCT
53084744 CCGCTGAACA
Statistics
Matches: 288, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
134 6 0.02
135 278 0.97
136 2 0.01
137 1 0.00
138 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (133 bp):
ATCATCAGCCTTATCTTCACTGAGCAGGAGTGAAGCAGGCTAAACATACCAGATCTTATCTTCAC
TGAGCAGGAGTGAAGCAGATCAAATTTTGGCGAGTCTTATCTCCCTGTATACGATGGAGCAGATT
CCA
Found at i:53085065 original size:29 final size:29
Alignment explanation
Indices: 53085032--53085095 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
53085022 CCAAATTAAA
*
53085032 CACCCCACTAAACCGA-CCATTAACTCCAT
1 CACCCCACTAAACC-ATCCACTAACTCCAT
* *
53085061 CACCCTACTAAACCATCCACTACCTCCAT
1 CACCCCACTAAACCATCCACTAACTCCAT
53085090 CACCCC
1 CACCCC
53085096 CACACCCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 29 0.97
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.17
Consensus pattern (29 bp):
CACCCCACTAAACCATCCACTAACTCCAT
Found at i:53085108 original size:37 final size:37
Alignment explanation
Indices: 53085061--53085135 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
53085051 TTAACTCCAT
53085061 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
* *
53085098 CACCCTACTAAACCATCCACTACCTCTATCGCCCCCA
1 CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
53085135 C
1 C
53085136 TACCTCCATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.53, G:0.01, T:0.17
Consensus pattern (37 bp):
CACCCTACTAAACCATCCACTACCTCCATCACCCCCA
Found at i:53085928 original size:21 final size:21
Alignment explanation
Indices: 53085885--53085937 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
53085875 AGCACAATGT
*
53085885 TTATTAC-ATTATTGTATTTA
1 TTATTACTATTATTGTATTAA
* *
53085905 TTATTACTATTGTTTTATTAA
1 TTATTACTATTATTGTATTAA
*
53085926 TTATTTCTATTA
1 TTATTACTATTA
53085938 ATTACTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.62
Consensus pattern (21 bp):
TTATTACTATTATTGTATTAA
Found at i:53086304 original size:126 final size:126
Alignment explanation
Indices: 53086079--53086311 Score: 430
Period size: 126 Copynumber: 1.8 Consensus size: 126
53086069 TCTCAAAATT
53086079 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
1 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
53086144 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
66 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
* * *
53086205 TTTCACAATAAAGGCAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTATTGGGT
1 TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
*
53086270 TTCGCTTTCTTTGTTTGTTTTGAATATTCGAATATCCTCTTA
66 TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTA
53086312 AGGCTAAAAC
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 103 1.00
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
TTTCAAAATAAAGACAATGTTCGGTATTTAAAGAATTCGAAGAATCGTGCCCTAACGTACTGGGT
TTCGCTTTCTTTGTTTGTCTTGAATATTCGAATATCCTCTTACCAGTTCACTCTAAAAAAA
Found at i:53086802 original size:21 final size:21
Alignment explanation
Indices: 53086768--53086820 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
53086758 GACACACTTT
*
53086768 ATATCAAAGGGTTATAAAAATC
1 ATATCAAA-AGTTATAAAAATC
* * *
53086790 ATATTAAAAGTTATTAAAATT
1 ATATCAAAAGTTATAAAAATC
53086811 ATATCAAAAG
1 ATATCAAAAG
53086821 CTACCAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (21 bp):
ATATCAAAAGTTATAAAAATC
Found at i:53094293 original size:184 final size:184
Alignment explanation
Indices: 53093984--53094352 Score: 720
Period size: 184 Copynumber: 2.0 Consensus size: 184
53093974 TAAAATTCTT
*
53093984 ACTTTGTAGGAAAGTAAATCTCTCTTTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
53094049 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
*
53094114 AACTTGTTGTATTTTTAGCCCCATCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
53094168 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
1 ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
53094233 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
66 ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
53094298 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
131 AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
53094352 A
1 A
53094353 AACCCTAGTT
Statistics
Matches: 183, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 183 1.00
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.36
Consensus pattern (184 bp):
ACTTTGTAGGAAAGTAAATCTCTCTCTTATAGAAACTGATAGAATTAATATTCCTAGAAAATAAA
ATTTATACTTAGAAATAAATTATCACTATTTTCGGGCAAAATAATAATATCTCAAAGTTGTATAT
AACTTGTTGTATTTTTAGCCCCACCGGTGTCATCTATTTATAGGGGAGGAACTG
Found at i:53095130 original size:16 final size:17
Alignment explanation
Indices: 53095109--53095154 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
53095099 AATTGGGTTG
53095109 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
53095125 AGAAAATTAATTT-ATT
1 AGAAAATTAATTTAATT
53095141 -G-AAATTAATTTAAT
1 AGAAAATTAATTTAAT
53095155 AAATAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 11 0.39
17 4 0.14
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:53105401 original size:33 final size:33
Alignment explanation
Indices: 53105362--53105429 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
53105352 GTATGTGTGA
** *
53105362 ATAAGGGTGGTGGATGGCTTGGTAAGTAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
53105395 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
1 ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
53105428 AT
1 AT
53105430 TATTGTCCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.35, T:0.29
Consensus pattern (33 bp):
ATAAGGGTGGCAGATGGCTTGGTAAATAGCCTT
Found at i:53109032 original size:90 final size:90
Alignment explanation
Indices: 53108872--53109036 Score: 215
Period size: 90 Copynumber: 1.8 Consensus size: 90
53108862 ATTTCAAAGC
** * * * * *
53108872 CATGTCCCAAACATGGTCTTACATGGGTTTACATATTGATGCCATATCCTAGATACGGTCTTATA
1 CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
53108937 CGAAATCTCACGTCGGTGCCGATGT
66 CGAAATCTCACGTCGGTGCCGATGT
* * *
53108962 CATGTCCCAGACATGGTCTTACATGGGACCT-CACATCGATGCCATGTCCCAGACATGGTCTTAC
1 CATGTCCCAAACATGGTCTTACATGGG-CCTACACATCGATGCCATATCCCAGACACGGTCTTAC
*
53109026 ATGAAATCTCA
65 ACGAAATCTCA
53109037 TATCAATGTC
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (90 bp):
CATGTCCCAAACATGGTCTTACATGGGCCTACACATCGATGCCATATCCCAGACACGGTCTTACA
CGAAATCTCACGTCGGTGCCGATGT
Found at i:53109054 original size:42 final size:42
Alignment explanation
Indices: 53108966--53109080 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
53108956 CGATGTCATG
** * * * *
53108966 TCCCAGACATGGTCTTACATGGGACCTCACATCGATGCCATG
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* *
53109008 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGTCGTA
1 TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
* * *
53109050 TCCCAGATATGGTCTTGCATGAAATCACATA
1 TCCCAGACATGGTCTTACATGAAATCTCATA
53109081 CCGAGGCCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACATGAAATCTCATATCAATGCCATA
Found at i:53109179 original size:48 final size:48
Alignment explanation
Indices: 53109098--53109218 Score: 156
Period size: 48 Copynumber: 2.5 Consensus size: 48
53109088 CGACGCTATA
* * **
53109098 TCCCAGATATGGTCTTACACTTGC-ACACGTATCAATGCCGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTACAC-TATCAACACCGATGCCATG
*
53109146 TCCCAGACATGGTCTTACACTGGCTATCA-TATCAACACTGATGCCATG
1 TCCCAGACATGGTCTTACACTGGCTA-CACTATCAACACCGATGCCATG
*
53109194 TCCCAGACATGGTCTTACATTGGCT
1 TCCCAGACATGGTCTTACACTGGCT
53109219 CTTATTAATC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
48 62 0.95
49 1 0.02
50 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (48 bp):
TCCCAGACATGGTCTTACACTGGCTACACTATCAACACCGATGCCATG
Found at i:53110002 original size:25 final size:25
Alignment explanation
Indices: 53109974--53110022 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
53109964 GACTAAAGTA
53109974 TACCCATTTCACATGCCAAGTTACT
1 TACCCATTTCACATGCCAAGTTACT
53109999 TACCCATTTCACATGCCAAGTTAC
1 TACCCATTTCACATGCCAAGTTAC
53110023 CATGAATAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.33, G:0.08, T:0.31
Consensus pattern (25 bp):
TACCCATTTCACATGCCAAGTTACT
Found at i:53117597 original size:29 final size:29
Alignment explanation
Indices: 53117562--53117635 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
53117552 GTTGTGAGAT
* *
53117562 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53117591 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53117620 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53117636 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53126824 original size:29 final size:29
Alignment explanation
Indices: 53126758--53126824 Score: 66
Period size: 29 Copynumber: 2.3 Consensus size: 29
53126748 TAAAATGTCC
* *
53126758 AAATAGGGATTAAATTGTGAAATGTGTAA
1 AAATATGGATTAAATTGTGAAATATGTAA
*
53126787 AATTCATGG-TTAAATTGTGAAATAAATG-AA
1 AAAT-ATGGATTAAATTGTGAAAT--ATGTAA
53126817 AAATATGG
1 AAATATGG
53126825 GCTGCTAGGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
29 21 0.68
30 8 0.26
31 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.21, T:0.31
Consensus pattern (29 bp):
AAATATGGATTAAATTGTGAAATATGTAA
Found at i:53132163 original size:25 final size:26
Alignment explanation
Indices: 53132135--53132188 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
53132125 TGTGTTACAT
* *
53132135 ATTTTAATGCTTTAA-TGTTAT-ATGA
1 ATTTAAATGC-TTAATTGCTATCATGA
53132160 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAATTGCTATCATGA
53132186 ATT
1 ATT
53132189 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 4 0.16
25 14 0.56
26 7 0.28
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTAAATGCTTAATTGCTATCATGA
Found at i:53136927 original size:27 final size:27
Alignment explanation
Indices: 53136897--53136952 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
53136887 CTAGTTATAG
*
53136897 CTATATTAAATGTTAAAGTGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
53136924 CTATATTAAATGTTAAAGCGAGGTTTT
1 CTATATTAAATGTTAAAGCGAGGTTTT
53136951 CT
1 CT
53136953 TTGCGAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
CTATATTAAATGTTAAAGCGAGGTTTT
Found at i:53138807 original size:25 final size:26
Alignment explanation
Indices: 53138779--53138832 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 26
53138769 TGTGTTACAT
* *
53138779 ATTTTAATGCTTAAATGTTAT-ATGA
1 ATTTAAATGCTTAAATGCTATCATGA
*
53138804 ATTTAAATGCTTAATTGCTATCATGA
1 ATTTAAATGCTTAAATGCTATCATGA
53138830 ATT
1 ATT
53138833 ATATGCCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.46
Consensus pattern (26 bp):
ATTTAAATGCTTAAATGCTATCATGA
Found at i:53150133 original size:47 final size:47
Alignment explanation
Indices: 53150078--53150269 Score: 278
Period size: 47 Copynumber: 4.1 Consensus size: 47
53150068 TTAGGATTTT
* * *
53150078 AATGTGATGAATGTGAATATGCGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53150125 AATGTGATGAATGTGAACATGCATATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53150172 AATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAAGGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * *
53150219 GATGTGATGAATGTGAACATGTATATATGTGGA-AAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGCC
53150266 AATG
1 AATG
53150270 CGAAATGTGT
Statistics
Matches: 132, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
47 130 0.98
48 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:53150305 original size:46 final size:46
Alignment explanation
Indices: 53150255--53150378 Score: 176
Period size: 46 Copynumber: 2.7 Consensus size: 46
53150245 ATGTGGAAAG
53150255 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
* * * *
53150301 GCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGTGGTAAA
1 GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
* * * *
53150347 GCCAAATGGCTAATGTGAGATATGTATGAGAT
1 GCCGAATGGCTAATGCGAAATGTGTATGAGAT
53150379 TTGTATATAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (46 bp):
GCCGAATGGCTAATGCGAAATGTGTATGAGATAGATATGAGATAAA
Found at i:53153659 original size:39 final size:40
Alignment explanation
Indices: 53153558--53153659 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
53153548 TATTCGGATG
*
53153558 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
53153598 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CT
* *
53153638 ATATCC-GGCTAAATCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
53153660 TACTTGGTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 17 0.29
40 41 0.71
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACT
Found at i:53161456 original size:40 final size:40
Alignment explanation
Indices: 53161394--53161575 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
53161384 TATTCGGATG
53161394 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * * * *
53161434 ATAACTGGGTTACGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53161474 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
53161514 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
53161554 ATATCC-GGCTAAATCCTGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
53161576 TACTTGGTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 16 0.13
40 111 0.87
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:53161575 original size:39 final size:40
Alignment explanation
Indices: 53161394--53161542 Score: 253
Period size: 40 Copynumber: 3.7 Consensus size: 40
53161384 TATTCGGATG
*
53161394 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
* * * *
53161434 ATAACTGGGTTACGTCCTGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
53161474 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
53161514 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
53161543 AGCGAGTAGC
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 100 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACT
Found at i:53165118 original size:17 final size:18
Alignment explanation
Indices: 53165086--53165119 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53165076 ATATCATACA
*
53165086 AAAATTTTGGAAACTTAG
1 AAAATTTTGCAAACTTAG
53165104 AAAATTTT-CAAACTTA
1 AAAATTTTGCAAACTTA
53165120 TAGAGGTCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAATTTTGCAAACTTAG
Found at i:53184790 original size:40 final size:40
Alignment explanation
Indices: 53184735--53185002 Score: 491
Period size: 40 Copynumber: 6.7 Consensus size: 40
53184725 AACATTGGAT
53184735 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53184775 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53184815 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53184855 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
53184895 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
53184935 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
53184975 TATGTCCGGGTTAAGACCCGAAGGCAAT
1 TATATCCGGGCTAAGACCCGAAGGCAAT
53185003 GTGTTTGCGG
Statistics
Matches: 220, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 220 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Done.