Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 161 of 226
Found at i:49817430 original size:17 final size:17
Alignment explanation
Indices: 49817408--49817442 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49817398 TTTATATACA
* *
49817408 TATATATATTTACATTT
1 TATATACATATACATTT
49817425 TATATACATATACATTT
1 TATATACATATACATTT
49817442 T
1 T
49817443 TTATTTCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:49817634 original size:30 final size:31
Alignment explanation
Indices: 49817600--49817657 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
49817590 TATTTGTTTT
* *
49817600 TATATTTATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTAGATAATCTTTTTTATAATC
*
49817630 TATATATATGTAGATAATTTTTTTTATA
1 TATATATATGTAGATAATCTTTTTTATA
49817658 TATGTACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (31 bp):
TATATATATGTAGATAATCTTTTTTATAATC
Found at i:49818629 original size:13 final size:13
Alignment explanation
Indices: 49818611--49818636 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49818601 ACTAAGGATA
49818611 GTATTTATTAACT
1 GTATTTATTAACT
49818624 GTATTTATTAACT
1 GTATTTATTAACT
49818637 CTCGACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
GTATTTATTAACT
Found at i:49819440 original size:8 final size:8
Alignment explanation
Indices: 49819427--49819451 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49819417 GTTTTTTTAA
49819427 ATTAAAAT
1 ATTAAAAT
49819435 ATTAAAAT
1 ATTAAAAT
49819443 ATTAAAAT
1 ATTAAAAT
49819451 A
1 A
49819452 ATTTTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTAAAAT
Found at i:49821554 original size:9 final size:9
Alignment explanation
Indices: 49821540--49821565 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
49821530 GGATTAAATT
49821540 GTAAAAGTA
1 GTAAAAGTA
49821549 GTAAAAGTA
1 GTAAAAGTA
49821558 GTAAAAGT
1 GTAAAAGT
49821566 TAATCACTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (9 bp):
GTAAAAGTA
Found at i:49824153 original size:2 final size:2
Alignment explanation
Indices: 49824148--49824173 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49824138 TATTATATAC
49824148 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
49824174 ACACTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49849652 original size:220 final size:219
Alignment explanation
Indices: 49849356--49849800 Score: 651
Period size: 220 Copynumber: 2.0 Consensus size: 219
49849346 AATGCTACGA
* * *
49849356 TTAAAAGAAGGTAGCTTAGCATGTATAATGAAGGTAAGTAGAGCTGATTATGGGACAAGCTTGAT
1 TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
* * * *
49849421 CCATGCAAGGTATTTAGATTAATTTTTTAAGTTTGAGTTCGATCTGAT-TTGAAAAATGGATTTA
66 CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCT-AAAAATGGATTTA
* * *
49849485 ATTTTTTGTTTACGTTTGGTCCAATTTAAGAAAGGTAAATTC-GGCCCAACCCGGTCCACCCATA
130 ATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATA
49849549 TTTAATTTTTTAGATTAGTTTTTAT
195 TTTAATTTTTTAGATTAGTTTTTAT
* * * *
49849574 TTAAAAGAAAGTAGCTTAGCATGTATATAATAAAGGTAACTAGAGGTGATTATGGGCCGAGTTTG
1 TTAAAAGAAAGTAGCTTAGCATG--TATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTG
* * * *
49849639 ATTCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCTACCCGATCCTAGAAATGGGTTT
64 ATCCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTT
* * *
49849704 AATTTTTTGTTTACGTTCGATCCGATTTAAGAAAGGTAAATCCGGGCCTAACCCGGTCCACTCAT
129 AATTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCAT
*
49849769 ATTTGATTTTTTAGATTAGTTTTTAT
194 ATTTAATTTTTTAGATTAGTTTTTAT
49849795 TTAAAA
1 TTAAAA
49849801 TCATTTAAAA
Statistics
Matches: 201, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
218 22 0.11
220 128 0.64
221 51 0.25
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.38
Consensus pattern (219 bp):
TTAAAAGAAAGTAGCTTAGCATGTATAATAAAGGTAACTAGAGCTGATTATGGGACAAGCTTGAT
CCATGCAAGGTATTTAGATTAACTTTTTAAGTTTGAGTTCGACCCGATCCTAAAAATGGATTTAA
TTTTTTGTTTACGTTCGATCCAATTTAAGAAAGGTAAATCCGGGCCCAACCCGGTCCACCCATAT
TTAATTTTTTAGATTAGTTTTTAT
Found at i:49857706 original size:13 final size:14
Alignment explanation
Indices: 49857677--49857709 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
49857667 TATGATTAGT
*
49857677 GTTAATTAGGCTTA
1 GTTAATTAAGCTTA
49857691 GTTAATTAAG-TTA
1 GTTAATTAAGCTTA
49857704 GTTAAT
1 GTTAAT
49857710 ATTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (14 bp):
GTTAATTAAGCTTA
Found at i:49859713 original size:23 final size:21
Alignment explanation
Indices: 49859687--49859749 Score: 56
Period size: 24 Copynumber: 2.9 Consensus size: 21
49859677 ATATGAAATA
49859687 TAACATACAAAATAATATATAC
1 TAACATA-AAAATAATATATAC
* * *
49859709 TTAACCTAAATAAATATTACATAC
1 -TAACAT-AA-AAATAATATATAC
49859733 TAA-ATAAAAATAATATA
1 TAACATAAAAATAATATA
49859750 AAACCAACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.25
21 2 0.06
22 1 0.03
23 9 0.28
24 12 0.38
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (21 bp):
TAACATAAAAATAATATATAC
Found at i:49859944 original size:3 final size:3
Alignment explanation
Indices: 49859936--49859982 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
49859926 ATAATCAGAT
* *
49859936 ATA ATA ATA ATA ACA ATA ATAA ATA GTA A-A ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
49859981 AT
1 AT
49859983 TAAGTGATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49861162 original size:44 final size:44
Alignment explanation
Indices: 49861101--49861372 Score: 329
Period size: 44 Copynumber: 6.2 Consensus size: 44
49861091 TTCGATCTGC
*
49861101 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTAT
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTAT
* * * *
49861145 TACACTGCTGTTCAGGGAGATAGGACATACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
*
49861189 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * *
49861233 TCCACTACTGTTCAGGGAG-CTAGGACTTGCAATCTTCCACCTAT
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTAT
* * * *
49861277 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTAT
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
* *
49861321 TCCACTGCTGGTT-AGGGAGATAGGACTTGCAATCTTCAACCTAT
1 TCCACTGCT-GTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
49861365 TCCACTGC
1 TCCACTGC
49861373 CGTCTAAGGA
Statistics
Matches: 206, Mismatches: 17, Indels: 10
0.88 0.07 0.04
Matches are distributed among these distances:
43 2 0.01
44 202 0.98
45 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (44 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTAT
Found at i:49861206 original size:88 final size:88
Alignment explanation
Indices: 49861101--49861372 Score: 372
Period size: 88 Copynumber: 3.1 Consensus size: 88
49861091 TTCGATCTGC
* *
49861101 TCCACTACTGCTT-AGGGAGACAGGA-TCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAG
1 TCCACTGCTG-TTCAGGGAGACAGGACT-TACAATCTTCAACCTATTCCACTGCTGTTCAGGGAG
* *
49861164 ATAGGACATACAATCTTCCACCTAT
64 ATAGGACTTGCAATCTTCCACCTAT
* * *
49861189 TCCACTGCTGTTCAGGGAG-CTAGGACTTACAATCTTCCACCTATTCCACTACTGTTCAGGGAGC
1 TCCACTGCTGTTCAGGGAGAC-AGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGA
49861253 TAGGACTTGCAATCTTCCACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
* * * *
49861277 TCCACTGCTGGTCAGGGAGATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGA
1 TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGA
*
49861341 TAGGACTTGCAATCTTCAACCTAT
65 TAGGACTTGCAATCTTCCACCTAT
49861365 TCCACTGC
1 TCCACTGC
49861373 CGTCTAAGGA
Statistics
Matches: 164, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
87 3 0.02
88 157 0.96
89 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (88 bp):
TCCACTGCTGTTCAGGGAGACAGGACTTACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGAT
AGGACTTGCAATCTTCCACCTAT
Found at i:49861326 original size:132 final size:132
Alignment explanation
Indices: 49861101--49861370 Score: 377
Period size: 132 Copynumber: 2.0 Consensus size: 132
49861091 TTCGATCTGC
*
49861101 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGTTCAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
* * *
49861166 AGGACATACAATCTTCCACCTATTCCACTGCT-GTTCAGGGAGCTAGGACTTACAATCTTCCACC
66 AGGACATACAATCTTCAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTACAATCTTCAACC
49861230 TAT
130 TAT
* * *
49861233 TCCACTACTG-TTCAGGGAG-CTAGGA-CTTGCAATCTTCCACCTATTCCACTGCTGGTCAGGGA
1 TCCACTACTGCTT-AGGGAGAC-AGGATC-TACAATCTTCAACCTATTACACTGCTGGTCAGGGA
* * * *
49861295 GATAGGACTTGCAATCTTTAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTGCAATCTTCAA
63 GATAGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAA
49861360 CCTAT
128 CCTAT
49861365 TCCACT
1 TCCACT
49861371 GCCGTCTAAG
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
131 4 0.03
132 116 0.94
133 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTATTACACTGCTGGTCAGGGAGAT
AGGACATACAATCTTCAACCTATTCCACTGCTGGTTAGGGAGATAGGACTTACAATCTTCAACCT
AT
Found at i:49861384 original size:44 final size:44
Alignment explanation
Indices: 49861130--49861389 Score: 362
Period size: 44 Copynumber: 5.9 Consensus size: 44
49861120 ACAGGATCTA
* * *
49861130 CAATCTTCAACCTATTACACTGCTGTTCAGGGAGATAGGACATA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
49861174 CAATCTTCCACCTATTCCACTGCTGTTCAGGGAGCTAGGACTTA
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* * *
49861218 CAATCTTCCACCTATTCCACTACTGTTCAGGGAGCTAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
* *
49861262 CAATCTTCCACCTATTCCACTGCTGGTCAGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
*
49861306 CAATCTTTAACCTATTCCACTGCTGGTT-AGGGAGATAGGACTTG
1 CAATCTTCAACCTATTCCACTGCT-GTTCAGGGAGATAGGACTTG
* *
49861350 CAATCTTCAACCTATTCCACTGCCG-TCTAAGGAGATAGGA
1 CAATCTTCAACCTATTCCACTGCTGTTC-AGGGAGATAGGA
49861390 ATAGTGGCTT
Statistics
Matches: 198, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 194 0.98
45 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (44 bp):
CAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAGGACTTG
Found at i:49861541 original size:44 final size:44
Alignment explanation
Indices: 49861440--49861541 Score: 118
Period size: 44 Copynumber: 2.3 Consensus size: 44
49861430 AAGATTTGCC
* *
49861440 ATCTTTGATCTGCTCCACTACTGCTTAGGAAGATAAGATCTGTA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
* * * *
49861484 ATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAG-GCT-TACA
1 ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGT--A
49861528 ATCTTCGATCTGCT
1 ATCTTCGATCTGCT
49861542 TCACCGTTAG
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.04
44 44 0.94
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (44 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGAGCTGTA
Found at i:49861611 original size:89 final size:88
Alignment explanation
Indices: 49861474--49861667 Score: 192
Period size: 88 Copynumber: 2.2 Consensus size: 88
49861464 TTAGGAAGAT
* * ** * * *
49861474 AAGATCTGTAATTTTCAACCTGCTCCACTACTGCTTAGGGAGATAAGGCTTACAATCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGAC-ATCTTCGATCT
* * *
49861539 GCTTCACCGTTAGTACAGGGAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
* * * *
49861563 AAGATCTGTTATTTTCAACCTGCTCCGCTA-TAACCCAAGGAGGCAAGGCTGGCGTCTTCGATCT
1 AAGATCTGTTATTTTCAACCTGCTCCACTACT-ACCCAAGGAGACAAGGCTGACATCTTCGATCT
* * * *
49861627 GCTTCGCTGTCGGTGCAAGAAGGC
65 GCTTCACCGTCAGTACAAGAAGGC
*
49861651 AAGATCTGTTATCTTCA
1 AAGATCTGTTATTTTCA
49861668 CTGATCTGTT
Statistics
Matches: 85, Mismatches: 19, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
88 44 0.52
89 41 0.48
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (88 bp):
AAGATCTGTTATTTTCAACCTGCTCCACTACTACCCAAGGAGACAAGGCTGACATCTTCGATCTG
CTTCACCGTCAGTACAAGAAGGC
Found at i:49868082 original size:31 final size:31
Alignment explanation
Indices: 49868009--49868085 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
49867999 ACTAGAATGA
* * *
49868009 GTATGATATGAACTACTAATTGACATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
* * *
49868040 ATGTGATATGAATTGCTAAATGATATGTGAT
1 GTATGATATGAATTGCTAAATGACATGTGAT
*
49868071 GTATGAAATGAATTG
1 GTATGATATGAATTG
49868086 ATGATGAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.36
Consensus pattern (31 bp):
GTATGATATGAATTGCTAAATGACATGTGAT
Found at i:49869784 original size:25 final size:25
Alignment explanation
Indices: 49869750--49869803 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
49869740 ATGAAAGGAA
49869750 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
49869775 TGTACCAACGTATTACAGATCAAGT
1 TGTACCAACGTATTACAGATCAAGT
49869800 TGTA
1 TGTA
49869804 GTCAAGCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (25 bp):
TGTACCAACGTATTACAGATCAAGT
Found at i:49871021 original size:46 final size:45
Alignment explanation
Indices: 49870925--49871026 Score: 123
Period size: 46 Copynumber: 2.2 Consensus size: 45
49870915 TTTTCATAAC
* * *
49870925 ATATGATTCAATACTAAAATCATTCCAAACTAACATGATAAGCAAT
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
* ** *
49870971 ATATGACTCAATACTAAAATCATTCCCAACTAGTATAACAAGTAAA
1 ATATGA-TCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
49871017 ATATGATCAA
1 ATATGATCAA
49871027 AATTGTAACA
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 4 0.08
46 44 0.92
ACGTcount: A:0.48, C:0.18, G:0.07, T:0.27
Consensus pattern (45 bp):
ATATGATCAATACTAAAATCATTCCAAACTAACATAACAAGCAAA
Found at i:49874146 original size:84 final size:84
Alignment explanation
Indices: 49874032--49874367 Score: 564
Period size: 84 Copynumber: 4.0 Consensus size: 84
49874022 CGTAAAAAAT
* *
49874032 AAAACACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTTGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874097 AATGGTCTGCGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* * * *
49874116 AAAATACAATGGCGTCGTTTATTGGCCTTCGGTGGCCTTAGTGGCGTTTTTTGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874181 AATGGTCTATGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
49874200 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
49874265 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
*
49874284 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGTGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874349 AATGGTATGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
49874368 GGCGTTTTAA
Statistics
Matches: 235, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 235 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGC
Found at i:49874499 original size:84 final size:84
Alignment explanation
Indices: 49874397--49874564 Score: 309
Period size: 84 Copynumber: 2.0 Consensus size: 84
49874387 CGCAAAAAAT
* *
49874397 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
*
49874462 AATGGTCTGTGTTTTTAGC
66 AATGGTATGTGTTTTTAGC
49874481 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
49874546 AATGGTATGTGTTTTTAGC
66 AATGGTATGTGTTTTTAGC
49874565 GGCGTTTTAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCGTTTTTGGTCTAGCGCCGCT
AATGGTATGTGTTTTTAGC
Found at i:49874535 original size:197 final size:198
Alignment explanation
Indices: 49874200--49875062 Score: 1410
Period size: 198 Copynumber: 4.4 Consensus size: 198
49874190 TGTTTTTAGC
* *
49874200 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874265 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCA
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
*
49874330 TTTTTGGTCTAGTGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTT-AAAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
49874394 AAT
196 AAT
* *
49874397 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874462 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCAGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
*
49874527 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTT-AAAAAAAACGCCG-TAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
49874590 AAT
196 AAT
*
49874593 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874658 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* * * *
49874723 TTTTTGGTCTAGGGCCACTAATGGTTTGTGTTTTTAGCGGCGTTTTCATAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
*
49874788 ATT
196 AAT
*
49874791 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874856 AATGGTCTGTATTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
66 AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
* * * * *
49874921 TTTTTGGTCTAGCGTCGCTAATGGTCTGTATTTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAA
131 TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
49874986 AAT
196 AAT
* * *
49874989 AAAATATAACGTCGTCGTTTA----------GTGGCCTTAGTGGCATTTTTGGTCTAGCACCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
49875044 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
49875063 GGCGTTTTTA
Statistics
Matches: 630, Mismatches: 34, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
188 51 0.08
196 174 0.28
197 196 0.31
198 209 0.33
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (198 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTGTTTTTAGCAAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCG
TTTTTGGTCTAGCGCCGCTAATGGTATGTGTTTTTAGCGGCGTTTTCAAAAAAAACGCCGCAAAA
AAT
Found at i:49874734 original size:84 final size:84
Alignment explanation
Indices: 49874593--49874760 Score: 282
Period size: 84 Copynumber: 2.0 Consensus size: 84
49874583 CCGTAAAAAT
** *
49874593 AAAATACAACGGCGTTGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
49874658 AATGGTCTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
* *
49874677 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGGGCCACT
1 AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
*
49874742 AATGGTTTGTGTTTTTAGC
66 AATGGTCTGTGTTTTTAGC
49874761 GGCGTTTTCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (84 bp):
AAAATACAACGGCGTCATTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCACT
AATGGTCTGTGTTTTTAGC
Found at i:49874887 original size:84 final size:84
Alignment explanation
Indices: 49874791--49874958 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 84
49874781 CGCAAAAATT
*
49874791 AAAATACCACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
*
49874856 AATGGTCTGTATTTTTAGC
66 AATGGTCTGTATTTGTAGC
* *
49874875 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
49874940 AATGGTCTGTATTTGTAGC
66 AATGGTCTGTATTTGTAGC
49874959 GGCGTTTTCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.17, C:0.20, G:0.29, T:0.35
Consensus pattern (84 bp):
AAAATACAACGGCGTCGTTTAGTGGCCTTCGGTGGCCTTAGTGGCATTTTTGGTCTAGCGCCGCT
AATGGTCTGTATTTGTAGC
Found at i:49875208 original size:113 final size:113
Alignment explanation
Indices: 49874875--49875231 Score: 443
Period size: 104 Copynumber: 3.2 Consensus size: 113
49874865 TATTTTTAGC
* * **
49874875 AAAATACAACGGCGTCGTTTAGTGGCCT-TCGGTGGCCTTAGTGGCGTTTTTGGTCTAGCGTCGC
1 AAAATACAACGGCGTCGTTTAGTGG-CTAT-GGTGGCATTAGTGGCATTTTTGGTCTAGCACCGC
* * * * *
49874939 TAATGGTCTGTATTTGTAGCGGCGTTTTCAGAAAAAACGCCGCAAAAAAT
64 TAATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
* *
49874989 AAAATATAACGTCGTCGTTTAGTGGC--------C-TTAGTGGCATTTTTGGTCTAGCACCGCTA
1 AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAGCACCGCTA
*
49875045 ATGGTCTGTGTTTTTAGCGGCGTTTTTAGGAATAATGCCGCAAAAAAT
66 ATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
* *
49875093 AAAATACAACGTCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCT-GCCGCCGCT
1 AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAG-CACCGCT
*
49875157 AATTGTCTGTGTTTTTAGCGGCGTTTTCAGG-ATAAATGCCG-AGAAAAAT
65 AATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAAT-AATGCCGCA-AAAAAT
49875206 AAAATACAACGGCGTCGTTTAGTGGC
1 AAAATACAACGGCGTCGTTTAGTGGC
49875232 CTTCGGTGGC
Statistics
Matches: 215, Mismatches: 16, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
104 93 0.43
105 1 0.00
112 5 0.02
113 93 0.43
114 23 0.11
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (113 bp):
AAAATACAACGGCGTCGTTTAGTGGCTATGGTGGCATTAGTGGCATTTTTGGTCTAGCACCGCTA
ATGGTCTGTGTTTTTAGCGGCGTTTTCAGGAATAATGCCGCAAAAAAT
Found at i:49876545 original size:391 final size:385
Alignment explanation
Indices: 49875824--49876744 Score: 1453
Period size: 391 Copynumber: 2.4 Consensus size: 385
49875814 GTTCATATAA
* * * * * * *
49875824 TTTTAAGGTTTAGGGAGTACTATATATATAT-T-TATATATGGATTATAGATTAGGGGTTTTGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
*
49875887 TAATTAAGGGTTAGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
* * *
49875952 AGGGATTT-TGTGTTTAGGGTTTCAGGGGTCGGGTTACAGTTTTGGTTTAGATTATTTTTTTATT
131 AGGGATTTAAG-GTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATT
* *
49876016 TATATTTTAAATATGTTCTTATGTAATTGTAAAATATGTATAATTTAGGGTTTAATTAATTATGC
195 TATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAA-TAATTATGC
* *
49876081 CTTGAGAGATATATATATAATAGATAGAGTACTTAAATATTTATATCCCTTCAATGGTTAATTTA
259 CTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTA
49876146 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
324 GGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
49876208 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* * *
49876273 TAACTAAGGGTTGGTCGGGATTTAAGGTTTAGGGGAGGGGTTTAGGGGTTAGATGTTAGTTGTTA
66 TAATTAAGGGTTGGTCGAGATTTAAGGTTT-----AGGGG-TTAGGGGTTAGATGTTAGTGGTTA
* *
49876338 AAACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCTGGTTACAATTTTGGATTTAGATTAATTT
125 AGACTTAGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGG-TTTAGATT-ATTT
49876403 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTT-A-AA
188 TTTTATTTATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAA
49876466 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
253 TTATGCCTTGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTT
*
49876531 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTGAGATTTTGAATTTTATACAATTAATTAAT
318 AATTTAGGCGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAAT
49876596 GCT
383 GCT
*
49876599 TTTTAATGTTTAGGGAGTGC--TATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
1 TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
* *
49876662 TAATTAAGGGTTGG-CTGAGATTTAAGATTTAGGGGTTAGGGGTTAGATGCTAGTGGTTAAGACT
66 TAATTAAGGGTTGGTC-GAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACT
* *
49876726 TAGGAATTTAGGGTTTAGG
130 TAGGGATTTAAGGTTTAGG
49876745 AGAGGACCAA
Statistics
Matches: 495, Mismatches: 30, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
383 43 0.09
384 35 0.07
385 1 0.00
386 52 0.11
388 1 0.00
389 68 0.14
391 156 0.32
392 67 0.14
393 10 0.02
394 62 0.13
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.42
Consensus pattern (385 bp):
TTTTAATGTTTAGGGAGTACTATATATATATATGGATTTAGGGATTATAGATTATGGATTATGCT
TAATTAAGGGTTGGTCGAGATTTAAGGTTTAGGGGTTAGGGGTTAGATGTTAGTGGTTAAGACTT
AGGGATTTAAGGTTTAGGGTTTCAGAGGTCGGGTTACAATTTTGGTTTAGATTATTTTTTTATTT
ATATTTTAAATATGTTCTTATGTAATTGTAAAAGATGTATAAATTAGGGTTTAATAATTATGCCT
TGAGAGAGATATATATAATAGATAGAATACTTAAATATTTATATCCCTTCAATGGTTAATTTAGG
CGGGTTTAATAAGATTAAGGTTTAACTAAGATTTTGAATTTTATACAATTAATTAATGCT
Found at i:49880866 original size:21 final size:21
Alignment explanation
Indices: 49880826--49880896 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
49880816 CCACAACTTA
* *
49880826 AAGCAGAGGCGGCAGAGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
*
49880847 AAG-ATGCGGCTGCAGCGAGGG
1 AAGCA-GAGGCTGCAGCGAGGG
*
49880868 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGGG
49880889 AAGCAGAG
1 AAGCAGAG
49880897 CAGAGCAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.46, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:49882355 original size:2 final size:2
Alignment explanation
Indices: 49882348--49882381 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
49882338 GAGAAATCAA
49882348 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
49882382 CTAGTTAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:49885334 original size:17 final size:17
Alignment explanation
Indices: 49885287--49885336 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
49885277 AAAAAAATTA
*
49885287 AATTATAATATTCAAAG
1 AATTATAATATTTAAAG
*
49885304 AATACATAA-ATTTAAAG
1 AAT-TATAATATTTAAAG
*
49885321 AATTATAATCTTTAAA
1 AATTATAATATTTAAA
49885337 TTTTTACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 4 0.15
17 19 0.70
18 4 0.15
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (17 bp):
AATTATAATATTTAAAG
Found at i:49885585 original size:22 final size:22
Alignment explanation
Indices: 49885560--49885606 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
49885550 AATTTTAATA
49885560 TTCAATTTAGTACTTGAA-TTTT
1 TTCAATTTAGTACTT-AAGTTTT
49885582 TTCAATTTAGTACTTAAGTTTT
1 TTCAATTTAGTACTTAAGTTTT
49885604 TTC
1 TTC
49885607 TTTGTCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (22 bp):
TTCAATTTAGTACTTAAGTTTT
Found at i:49889365 original size:27 final size:27
Alignment explanation
Indices: 49889322--49889373 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
49889312 TCCGCAGGGA
49889322 CAATAAACATAGAGTAGTCCGTCAGGT
1 CAATAAACATAGAGTAGTCCGTCAGGT
* *
49889349 CAATAAATA-AGATGTAGTCTGTCAG
1 CAATAAACATAGA-GTAGTCCGTCAG
49889374 AACATCAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (27 bp):
CAATAAACATAGAGTAGTCCGTCAGGT
Found at i:49893858 original size:68 final size:68
Alignment explanation
Indices: 49893728--49893862 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
49893718 TGATTAAACT
*
49893728 TAATCACTTTAATATTAAATTAATGTAATATTTATCAAGATAAACATTAAATTTAATTTAATATT
1 TAATCACTTTAATATTAAATTAA-GTAATATTTATCAAGATAAACATTAAATTAAATTTAATATT
49893793 AAGA
65 AAGA
* **
49893797 TAATCACTTTAATATTAAATTAA-TAA-ATTACTATTAAGATAAGTATTAAATTAAATTTAATAT
1 TAATCACTTTAATATTAAATTAAGTAATATT--TATCAAGATAAACATTAAATTAAATTTAATAT
49893860 TAA
64 TAA
49893863 ATTATTAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
66 3 0.05
67 3 0.05
68 31 0.52
69 23 0.38
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAAGTAATATTTATCAAGATAAACATTAAATTAAATTTAATATTA
AGA
Found at i:49895504 original size:16 final size:16
Alignment explanation
Indices: 49895483--49895513 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49895473 CTATGCATGC
*
49895483 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
49895499 AAAATACAAAAGACA
1 AAAATACAAAAGACA
49895514 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:49906510 original size:48 final size:48
Alignment explanation
Indices: 49906454--49906549 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
49906444 CGCTTCAGGT
49906454 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
1 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
49906502 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
1 GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
49906550 TCTCCTTTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.38
Consensus pattern (48 bp):
GTAACTTGGATTCGAGTCGCACTAATTGCGTTACTGTTAGGGTTTTAC
Found at i:49907534 original size:19 final size:18
Alignment explanation
Indices: 49907512--49907554 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
49907502 AATACAAAAA
49907512 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTTT
*
49907531 AAAATTCAAAATATTTTT
1 AAAAATCAAAATATTTTT
49907549 AAAAAT
1 AAAAAT
49907555 TCTAAAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAAATCAAAATATTTTT
Found at i:49907555 original size:19 final size:19
Alignment explanation
Indices: 49907511--49907576 Score: 71
Period size: 19 Copynumber: 3.3 Consensus size: 19
49907501 AAATACAAAA
*
49907511 AAAAAATCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTTT
49907531 -AAAATTCAAAATATTTTT
1 AAAAATTCAAAATATTTTT
49907549 AAAAATTCTAAAACTTATCTTTT
1 AAAAATTC-AAAA--TAT-TTTT
49907572 AAAAA
1 AAAAA
49907577 AATTATAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
18 6 0.15
19 18 0.45
20 4 0.10
22 3 0.08
23 9 0.22
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATTCAAAATATTTTT
Found at i:49907694 original size:35 final size:35
Alignment explanation
Indices: 49907658--49907734 Score: 136
Period size: 35 Copynumber: 2.2 Consensus size: 35
49907648 TTTGGGAACT
49907658 AAATAATTTAATTAATGATTTAAGTTTATCATACTA
1 AAAT-ATTTAATTAATGATTTAAGTTTATCATACTA
*
49907694 AAATATTTAATTAATGATTTAAGTTTATCATACCA
1 AAATATTTAATTAATGATTTAAGTTTATCATACTA
49907729 AAATAT
1 AAATAT
49907735 CTTCTTCTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (35 bp):
AAATATTTAATTAATGATTTAAGTTTATCATACTA
Found at i:49908179 original size:125 final size:123
Alignment explanation
Indices: 49907957--49908208 Score: 371
Period size: 125 Copynumber: 2.0 Consensus size: 123
49907947 AATGCTCACC
* *
49907957 CCTAATTATACCTATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTGATTTTAACAAGAGTGAC
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
*
49908022 CAAAATGACCGAACTATGTAACGTGGGTGCTTAAATTACAAACTTTTTTTATTTTAAGTG
66 CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAA--TTTTTTATTTTAAGTG
* * * *
49908082 CCTAATTATATCAATTCTTTTAACTGTCACTTTATCTTGTTGTTTGTAATTTTAACGAGAGTGA-
1 CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
* * * *
49908146 CAACAATTATCGAACTATATAACGTTGGTGCTTAAATTGCAAATTTTTTATTTTAAGTG
66 CAA-AATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
49908205 CCTA
1 CCTA
49908209 TAATAAAAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
123 20 0.17
124 3 0.03
125 92 0.80
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (123 bp):
CCTAATTATACCAATTCTTTTAACCGCCACTTTATCTTGTTGTTTGTAATTTTAACAAGAGTGAC
CAAAATGACCGAACTATATAACGTGGGTGCTTAAATTACAAATTTTTTATTTTAAGTG
Found at i:49912201 original size:24 final size:24
Alignment explanation
Indices: 49912151--49912201 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49912141 TATAACATTT
**
49912151 AAAAATTCCTAAAATTTATGGATA
1 AAAAATTCCTAAAATTTATAAATA
49912175 AAAAATTCCTAAAATTTA-AAATA
1 AAAAATTCCTAAAATTTATAAATA
49912198 AAAA
1 AAAA
49912202 TAAAAATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.29
Consensus pattern (24 bp):
AAAAATTCCTAAAATTTATAAATA
Found at i:49913476 original size:23 final size:23
Alignment explanation
Indices: 49913449--49913504 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
49913439 ATCCCTTTAG
49913449 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
49913472 AATCTCAATTATAGATTGGCTTT
1 AATCTCAATTATAGATTGGCTTT
49913495 AATCTCAATT
1 AATCTCAATT
49913505 GTTGATGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (23 bp):
AATCTCAATTATAGATTGGCTTT
Found at i:49917818 original size:3 final size:3
Alignment explanation
Indices: 49917797--49917835 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
49917787 AAGCATAAAC
* * *
49917797 TAA TAA AAA TAA AAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49917836 CATTGGAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:49917949 original size:22 final size:23
Alignment explanation
Indices: 49917932--49917994 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 23
49917922 TGTATACACG
49917932 TACATAATAA-AATATATACTAA
1 TACATAATAATAATATATACTAA
49917954 TACATAATAATAATAGTAATACTAA
1 TACATAATAATAATA-T-ATACTAA
*
49917979 TA-ATACTAATAATATA
1 TACATAATAATAATATA
49917995 AAATAACAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 11 0.30
23 5 0.14
24 12 0.32
25 9 0.24
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATAATATATACTAA
Found at i:49917965 original size:3 final size:3
Alignment explanation
Indices: 49917935--49918000 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
49917925 ATACACGTAC
* * *
49917935 ATA ATA A-A ATA TATA CTA ATA CATA ATA ATA ATA GTA ATA CTA ATA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
*
49917981 ATA CTA ATA AT- ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA A
49918001 CAAGGATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
2 6 0.12
3 38 0.76
4 6 0.12
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:49918600 original size:15 final size:16
Alignment explanation
Indices: 49918580--49918618 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
49918570 AGGTAAAAAA
*
49918580 TTTTATTT-TTTTATT
1 TTTTATTTCTTGTATT
49918595 TTTTATTTCTTGTATT
1 TTTTATTTCTTGTATT
49918611 TTTATATT
1 TTT-TATT
49918619 ATACTTTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.38
16 9 0.43
17 4 0.19
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (16 bp):
TTTTATTTCTTGTATT
Found at i:49919942 original size:72 final size:73
Alignment explanation
Indices: 49919834--49919985 Score: 211
Period size: 72 Copynumber: 2.1 Consensus size: 73
49919824 CAAACAGATT
* *
49919834 TTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATT-AA
1 TTGAAAATACCTCAGCA-GTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAA
49919898 AACACAAAAA
65 AA-ACAAAAA
* * **
49919908 TTGAAAATACCTCAGC-GTGCCCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAA
1 TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
49919972 AACAAAAA
66 AACAAAAA
49919980 TT-AAAA
1 TTGAAAA
49919986 GGCTTAACTC
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
71 4 0.06
72 48 0.68
73 4 0.06
74 15 0.21
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.23
Consensus pattern (73 bp):
TTGAAAATACCTCAGCAGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAATTGAAA
AACAAAAA
Found at i:49920078 original size:120 final size:123
Alignment explanation
Indices: 49919860--49920087 Score: 363
Period size: 120 Copynumber: 1.9 Consensus size: 123
49919850 ATGTGACCCG
*
49919860 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTG-AATT-AAACACAAAAATCGAAAATACCTCAGCG
*
49919925 TGCCCCGAGGCTCAACTCACCTCTAGCGATATGAGTTGATTTTGAAAAACAAAAATTAAA
64 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
* * *
49919985 AGGCTTAACTCACCTCTCGCAATATGAGTTG-A-T-AACACAAAAGTCGAAAATACCTCAGTGTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
*
49920047 CCCCGAGGCTCAACTCACTTCTAGCAATATGAGTTGATTTT
66 CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
49920088 TTTGAAAAAC
Statistics
Matches: 97, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
120 65 0.67
122 1 0.01
123 1 0.01
125 30 0.31
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAATTAAACACAAAAATCGAAAATACCTCAGCGTG
CCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
Found at i:49920312 original size:144 final size:144
Alignment explanation
Indices: 49920052--49920330 Score: 321
Period size: 144 Copynumber: 1.9 Consensus size: 144
49920042 GTGTGCCCCG
* * ***
49920052 AGGCTCAACTCACTTCTAGCAATATGAGTTGATTTTTTTGAAAAACAGATTTTGAAGAGCAGAAA
1 AGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTTTGAAAAACAGAAACTGAAGAGCAGAAA
* ** * * * * * *
49920117 TTGTAAATACCTCGGCGTGTCCCGAGGTTCAACTCACTTCTTGCAATATGAGTCGATTTTTTGAA
66 TTGAAAATACCTCAACCTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTTCAA
49920182 AAACAGAAATTAAA
131 AAACAGAAATTAAA
* ** * *
49920196 AGGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTTTTAAAACATAAACTGACGA-CAGAA
1 AGGCTCAACTCACCTCTAGCAATATGAGCTGAT-TTTTTTGAAAAACAGAAACTGAAGAGCAGAA
* *
49920260 ATCT-AAAATACCTCAACCTG-CCCTGAGGCTCGACTCACCTCTCGCAATATGAGTTGATTCTTT
65 AT-TGAAAATACCTCAACCTGTCCC-GAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTT
49920323 CAAAAACA
128 CAAAAACA
49920331 TAATAATGAA
Statistics
Matches: 111, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
143 3 0.03
144 89 0.80
145 19 0.17
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (144 bp):
AGGCTCAACTCACCTCTAGCAATATGAGCTGATTTTTTTGAAAAACAGAAACTGAAGAGCAGAAA
TTGAAAATACCTCAACCTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTCGATTCTTTCAA
AAACAGAAATTAAA
Found at i:49920377 original size:88 final size:87
Alignment explanation
Indices: 49920196--49920429 Score: 261
Period size: 88 Copynumber: 2.6 Consensus size: 87
49920186 AGAAATTAAA
* * ** * **
49920196 AGGCTCAACTCACCTCTCGCAATATGAGCTGATCTTTTTTTTAAAACATAAACTGACGACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTCTTTCAAAAACATAAAATGAAAACAGAAA
* *
49920261 TCTAAAATACCTCAACCTGCCCTG
64 TCGAAAATACCTCAACCTGACCTG
*
49920285 AGGCTCGACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAATAATGAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAA-AATGAAAACAGAAAT
* ****
49920350 GGAAAATACCTCGGTGTGACCTG
65 CGAAAATACCTCAACCTGACCTG
* * * *
49920373 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTCTTTCAAAAACATAAAATGAAA
49920430 TTACCTCAGC
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
87 14 0.11
88 65 0.53
89 44 0.36
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.27
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTCAAAAACATAAAATGAAAACAGAAATC
GAAAATACCTCAACCTGACCTG
Found at i:49920462 original size:75 final size:75
Alignment explanation
Indices: 49920339--49920483 Score: 236
Period size: 75 Copynumber: 1.9 Consensus size: 75
49920329 CATAATAATG
* * *
49920339 AAAACAGAAATGGAAAATACCTCGGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
49920404 ATTTTTTTGA
66 ATTTTTTTGA
* * *
49920414 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
1 AAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
49920479 ATTTT
66 ATTTT
49920484 GAAAAACAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 64 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (75 bp):
AAAACAGAAATGGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTAGCAATATGAGTTG
ATTTTTTTGA
Found at i:49920645 original size:68 final size:70
Alignment explanation
Indices: 49920501--49920673 Score: 210
Period size: 68 Copynumber: 2.5 Consensus size: 70
49920491 AAAAATTAAA
* * * * **
49920501 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
49920565 CCCTG
66 CCCTG
* *
49920570 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAA-A-AAATTAAAAATACCTCAACGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
* *
49920633 TCTTG
66 CCCTG
*
49920638 AGGCTCAACTCA-TCTCTTGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
49920674 CCTTGGAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
67 1 0.01
68 55 0.60
69 27 0.30
70 8 0.09
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACATAAACTAAAAATACCTCAACGTG
CCCTG
Found at i:49933344 original size:23 final size:22
Alignment explanation
Indices: 49933318--49933371 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
49933308 TGTATACACG
49933318 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATA-ATACTAA
* *
49933341 TACATAATAATAATAATAGTAA
1 TACATAATAAAAATAATACTAA
49933363 TAC-TAATAA
1 TACATAATAA
49933372 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (22 bp):
TACATAATAAAAATAATACTAA
Found at i:49933352 original size:3 final size:3
Alignment explanation
Indices: 49933321--49933391 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
49933311 ATACACGTAC
* * * *
49933321 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
49933368 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
49933392 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:49933882 original size:18 final size:18
Alignment explanation
Indices: 49933855--49933892 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49933845 AGAAAAAAAA
*
49933855 AGAAGAGAGAGGGAAGAG
1 AGAAGAGAGAGAGAAGAG
*
49933873 AGAAGGGAGAGAGAAGAG
1 AGAAGAGAGAGAGAAGAG
49933891 AG
1 AG
49933893 GGGAATCCGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (18 bp):
AGAAGAGAGAGAGAAGAG
Found at i:49933887 original size:11 final size:12
Alignment explanation
Indices: 49933856--49933888 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
49933846 GAAAAAAAAA
49933856 GAAGAGAG-AGG
1 GAAGAGAGAAGG
49933867 GAAGAGAGAAGG
1 GAAGAGAGAAGG
49933879 G-AGAGAGAAG
1 GAAGAGAGAAG
49933889 AGAGGGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 17 0.81
12 4 0.19
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:49934008 original size:15 final size:16
Alignment explanation
Indices: 49933988--49934024 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49933978 AGGTAAAAAA
*
49933988 TTTTATTT-TTTTATT
1 TTTTATTTCTTGTATT
49934003 TTTTATTTCTTGTATT
1 TTTTATTTCTTGTATT
49934019 TTTTAT
1 TTTTAT
49934025 ATTATACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTATTTCTTGTATT
Found at i:49940815 original size:16 final size:16
Alignment explanation
Indices: 49940794--49940824 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49940784 TTAACTATTA
*
49940794 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
49940810 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
49940825 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:49942963 original size:19 final size:21
Alignment explanation
Indices: 49942939--49942978 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49942929 ATTTTTCTGC
49942939 AACAAACT-GG-TTTCCAGAA
1 AACAAACTCGGTTTTCCAGAA
49942958 AACAAACTCGGTTTTCCAGAA
1 AACAAACTCGGTTTTCCAGAA
49942979 TATAATGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 2 0.11
21 9 0.47
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (21 bp):
AACAAACTCGGTTTTCCAGAA
Found at i:49953173 original size:39 final size:40
Alignment explanation
Indices: 49953130--49953218 Score: 99
Period size: 44 Copynumber: 2.1 Consensus size: 40
49953120 TTATTTTCTT
* *
49953130 CTTCTTCTAC-CCTACTTTAGGTTTTATTTTCTGCATTTA
1 CTTCTTCTACTACTACTTTAGGTTTCATTTTCTGCATTTA
* *
49953169 CTTCTTGAATTTACTATTACTTTAGGTTTCATTTTCTGCATTTA
1 CTTC-T---TCTACTACTACTTTAGGTTTCATTTTCTGCATTTA
49953213 CTTCTT
1 CTTCTT
49953219 GCATTTACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
39 4 0.10
40 2 0.05
43 5 0.12
44 30 0.73
ACGTcount: A:0.17, C:0.20, G:0.08, T:0.55
Consensus pattern (40 bp):
CTTCTTCTACTACTACTTTAGGTTTCATTTTCTGCATTTA
Found at i:49953191 original size:44 final size:44
Alignment explanation
Indices: 49953142--49953233 Score: 157
Period size: 44 Copynumber: 2.1 Consensus size: 44
49953132 TCTTCTACCC
*
49953142 TACTTTAGGTTTTATTTTCTGCATTTACTTCTTGAATTTACTAT
1 TACTTTAGGTTTCATTTTCTGCATTTACTTCTTGAATTTACTAT
* *
49953186 TACTTTAGGTTTCATTTTCTGCATTTACTTCTTGCATTTACTGT
1 TACTTTAGGTTTCATTTTCTGCATTTACTTCTTGAATTTACTAT
49953230 TACT
1 TACT
49953234 AAGGTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.18, C:0.16, G:0.10, T:0.55
Consensus pattern (44 bp):
TACTTTAGGTTTCATTTTCTGCATTTACTTCTTGAATTTACTAT
Found at i:49953223 original size:22 final size:22
Alignment explanation
Indices: 49953155--49953224 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
49953145 TTTAGGTTTT
*
49953155 ATTTTCTGCATTTACTTCTTGA
1 ATTTTCTGCATTTACTTCTTGC
* * *
49953177 ATTTACT--A-TTACTTTAGGTTTC
1 ATTTTCTGCATTTAC-TT--CTTGC
49953199 ATTTTCTGCATTTACTTCTTGC
1 ATTTTCTGCATTTACTTCTTGC
49953221 ATTT
1 ATTT
49953225 ACTGTTACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
19 4 0.11
20 3 0.09
22 21 0.60
24 3 0.09
25 4 0.11
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.56
Consensus pattern (22 bp):
ATTTTCTGCATTTACTTCTTGC
Found at i:49953603 original size:40 final size:40
Alignment explanation
Indices: 49953558--49953651 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
49953548 TGACTAAATC
** *
49953558 GTAATAAATTGGACTAAATTGAATAGAACTAAGAACTTAA
1 GTAATAAATTGGACTAAATCAAATACAACTAAGAACTTAA
*
49953598 GTAATAAATTGGACTAAATCAAATACAACTAAGAACTTAG
1 GTAATAAATTGGACTAAATCAAATACAACTAAGAACTTAA
49953638 GTAATAAATTGGAC
1 GTAATAAATTGGAC
49953652 CAAGGACTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.27
Consensus pattern (40 bp):
GTAATAAATTGGACTAAATCAAATACAACTAAGAACTTAA
Found at i:49963005 original size:14 final size:14
Alignment explanation
Indices: 49962986--49963013 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49962976 ATAACAAGAA
49962986 GTCATGCCATAAAT
1 GTCATGCCATAAAT
49963000 GTCATGCCATAAAT
1 GTCATGCCATAAAT
49963014 TATTGTACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GTCATGCCATAAAT
Found at i:49965548 original size:19 final size:18
Alignment explanation
Indices: 49965524--49965564 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
49965514 AAAATATAAA
*
49965524 AAAAATCATTAAAATGATT
1 AAAAATCATAAAAAT-ATT
49965543 AAAAATCATAAAAATATT
1 AAAAATCATAAAAATATT
49965561 AAAA
1 AAAA
49965565 TTTATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATCATAAAAATATT
Found at i:49965581 original size:28 final size:28
Alignment explanation
Indices: 49965550--49965649 Score: 89
Period size: 28 Copynumber: 3.5 Consensus size: 28
49965540 ATTAAAAATC
* * *
49965550 ATAAAAA-TATTAAAATTTATATAATATT
1 ATAAAAATTATAAAAACTTAT-CAATATT
49965578 ATAAAAATTATAAAAACTTATCAATATT
1 ATAAAAATTATAAAAACTTATCAATATT
* *
49965606 ATAAAAGTTATAACAAA-TTAT-AATTTT
1 ATAAAAATTATAA-AAACTTATCAATATT
*
49965633 TTATAAAATTAATAAAA
1 ATA-AAAATT-ATAAAA
49965650 CATATTTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.11
28 36 0.59
29 18 0.30
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (28 bp):
ATAAAAATTATAAAAACTTATCAATATT
Found at i:49965588 original size:19 final size:18
Alignment explanation
Indices: 49965576--49965628 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
49965566 TTATATAATA
49965576 TTATAAAAATTATAAAAAC
1 TTATAAAAATTAT-AAAAC
* * *
49965595 TTATCAATATTATAAAAG
1 TTATAAAAATTATAAAAC
49965613 TTATAACAAATTATAA
1 TTATAA-AAATTATAA
49965629 TTTTTTATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 9 0.32
19 19 0.68
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.36
Consensus pattern (18 bp):
TTATAAAAATTATAAAAC
Found at i:49965607 original size:9 final size:9
Alignment explanation
Indices: 49965542--49965628 Score: 77
Period size: 9 Copynumber: 9.3 Consensus size: 9
49965532 TTAAAATGAT
*
49965542 TAAAAATCA
1 TAAAAATTA
49965551 TAAAAA-TA
1 TAAAAATTA
*
49965559 TTAAAATTTA
1 -TAAAAATTA
*
49965569 TATAATATTA
1 TA-AAAATTA
49965579 TAAAAATTA
1 TAAAAATTA
49965588 TAAAAACTTA
1 TAAAAA-TTA
* *
49965598 TCAATATTA
1 TAAAAATTA
*
49965607 TAAAAGTTA
1 TAAAAATTA
49965616 TAACAAATTA
1 TAA-AAATTA
49965626 TAA
1 TAA
49965629 TTTTTTATAA
Statistics
Matches: 62, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
8 1 0.02
9 37 0.60
10 24 0.39
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.36
Consensus pattern (9 bp):
TAAAAATTA
Found at i:49966561 original size:9 final size:9
Alignment explanation
Indices: 49966495--49966795 Score: 132
Period size: 9 Copynumber: 31.3 Consensus size: 9
49966485 TATATTTTTA
49966495 TTTATAATT
1 TTTATAATT
*
49966504 TATTAGAACTT
1 T-TTATAA-TT
* *
49966515 ATTATGATTT
1 TTTAT-AATT
*
49966525 TTTATAAGT
1 TTTATAATT
*
49966534 TTTACAATT
1 TTTATAATT
* *
49966543 AATGATAATT
1 -TTTATAATT
49966553 TTTATAATT
1 TTTATAATT
49966562 TGTATGATAATT
1 T-T-T-ATAATT
49966574 TATTATAACTT
1 T-TTATAA-TT
49966585 TTT-TGAATT
1 TTTAT-AATT
*
49966594 TTTATAAGCT
1 TTTATAA-TT
*
49966604 TTTATAATA
1 TTTATAATT
49966613 TTTATAAGTT
1 TTTATAA-TT
*
49966623 TTGATGAATT
1 TTTAT-AATT
*
49966633 CTTTATAAGT
1 -TTTATAATT
49966643 TTTA-AATAT
1 TTTATAAT-T
49966652 TTTA-AATAT
1 TTTATAAT-T
49966661 GTTT-TAA-T
1 -TTTATAATT
*
49966669 TTTATTATT
1 TTTATAATT
*
49966678 GTTATAATTATT
1 -TT-T-ATAATT
49966690 TTTATAATT
1 TTTATAATT
*
49966699 TATTAGAA-T
1 T-TTATAATT
*
49966708 TTTATAATG
1 TTTATAATT
*
49966717 TTTATAAGT
1 TTTATAATT
49966726 TTTATGAATTTT
1 TTTAT-AA--TT
49966738 TTTATAATT
1 TTTATAATT
49966747 TTTATAAGTT
1 TTTATAA-TT
* *
49966757 TATATAAAT
1 TTTATAATT
49966766 TTT-TAATAT
1 TTTATAAT-T
*
49966775 TTTAT-GTAT
1 TTTATAAT-T
49966784 TTTATAATT
1 TTTATAATT
49966793 TTT
1 TTT
49966796 TATGAAAAAT
Statistics
Matches: 224, Mismatches: 37, Indels: 62
0.69 0.11 0.19
Matches are distributed among these distances:
7 3 0.01
8 13 0.06
9 96 0.43
10 73 0.33
11 19 0.08
12 20 0.09
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.58
Consensus pattern (9 bp):
TTTATAATT
Found at i:49966639 original size:21 final size:19
Alignment explanation
Indices: 49966549--49966646 Score: 92
Period size: 19 Copynumber: 4.9 Consensus size: 19
49966539 AATTAATGAT
49966549 AATTTTTATAA-TTTGTATG
1 AATTTTTATAAGTTT-TATG
* *
49966568 ATAATTTATTATAACTTTTTTG
1 --AATTT-TTATAAGTTTTATG
49966590 AATTTTTATAAGCTTTTAT-
1 AATTTTTATAAG-TTTTATG
*
49966609 AATATTTATAAGTTTTGATG
1 AATTTTTATAAGTTTT-ATG
49966629 AATTCTTTATAAGTTTTA
1 AATT-TTTATAAGTTTTA
49966647 AATATTTTAA
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.06
19 19 0.29
20 14 0.21
21 17 0.26
22 9 0.14
23 3 0.05
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
AATTTTTATAAGTTTTATG
Found at i:49966770 original size:104 final size:105
Alignment explanation
Indices: 49966603--49966796 Score: 249
Period size: 104 Copynumber: 1.9 Consensus size: 105
49966593 TTTTATAAGC
*
49966603 TTTTATAATATTTATAAGTTTTGATGAATTCTTTATAAGTTTTAAATATTTTAAATATGTTTT-A
1 TTTTATAATATTTATAAGTTTTGATGAATTCTTTATAAGTTTTAAATATTATAAATATGTTTTAA
49966667 -ATTTTAT-TATTGTTATAATTATTTTTATAATTTATTAGAA
66 TATTTTATGTATT-TTATAATT-TTTTTATAATTTATTAGAA
* * *
49966707 TTTTATAATGTTTATAAGTTTT-ATGAATTTTTTTATAATTTTTATAAGT-TTATATAA-AT-TT
1 TTTTATAATATTTATAAGTTTTGATGAA-TTCTTTATAAGTTTTA-AA-TATTATA-AATATGTT
49966768 TTAATATTTTATGTATTTTATAATTTTTT
62 TTAATATTTTATGTATTTTATAATTTTTT
49966797 ATGAAAAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 13
0.82 0.04 0.14
Matches are distributed among these distances:
103 5 0.06
104 39 0.49
105 13 0.16
106 18 0.23
107 4 0.05
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (105 bp):
TTTTATAATATTTATAAGTTTTGATGAATTCTTTATAAGTTTTAAATATTATAAATATGTTTTAA
TATTTTATGTATTTTATAATTTTTTTATAATTTATTAGAA
Found at i:49977171 original size:26 final size:26
Alignment explanation
Indices: 49977141--49977194 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
49977131 TTCTAATATA
49977141 AGATAATTGTAATTATTGTTTAATAC
1 AGATAATTGTAATTATTGTTTAATAC
49977167 AGATAATTGTAATTATTGTTTAATAC
1 AGATAATTGTAATTATTGTTTAATAC
49977193 AG
1 AG
49977195 CATAGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (26 bp):
AGATAATTGTAATTATTGTTTAATAC
Found at i:49977239 original size:17 final size:17
Alignment explanation
Indices: 49977201--49977242 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49977191 ACAGCATAGT
*
49977201 TTTTAATATATATTATA
1 TTTTAATATATAATATA
*
49977218 ATTTAATATA-AATATCA
1 TTTTAATATATAATAT-A
49977235 TTTTAATA
1 TTTTAATA
49977243 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAATATATAATATA
Found at i:49977887 original size:43 final size:43
Alignment explanation
Indices: 49977839--49977924 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
49977829 CAAAGAAAAA
49977839 ATGAGTGTGTAAAACATACTAGTACATAGTGCTATACCACAGT
1 ATGAGTGTGTAAAACATACTAGTACATAGTGCTATACCACAGT
49977882 ATGAGTGTGTAAAACATACTAGTACATAGTGCTATACCACAGT
1 ATGAGTGTGTAAAACATACTAGTACATAGTGCTATACCACAGT
49977925 CGGTCCATGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (43 bp):
ATGAGTGTGTAAAACATACTAGTACATAGTGCTATACCACAGT
Found at i:49978349 original size:12 final size:12
Alignment explanation
Indices: 49978332--49978405 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
49978322 CTCTTCGTCT
49978332 TTCTTCTTCTCC
1 TTCTTCTTCTCC
*
49978344 TTCTTC-TCTTC
1 TTCTTCTTCTCC
*
49978355 TT-TCTCTTCACC
1 TTCT-TCTTCTCC
* *
49978367 TTCTACCTCATCC
1 TTCTTCTTC-TCC
*
49978380 TTCTTCATT-TCT
1 TTCTTC-TTCTCC
49978392 TTCTTCTTCTCC
1 TTCTTCTTCTCC
49978404 TT
1 TT
49978406 TGCCTCTTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
10 1 0.02
11 10 0.22
12 26 0.57
13 8 0.17
14 1 0.02
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.57
Consensus pattern (12 bp):
TTCTTCTTCTCC
Found at i:49978459 original size:96 final size:96
Alignment explanation
Indices: 49978365--49979383 Score: 1404
Period size: 96 Copynumber: 10.7 Consensus size: 96
49978355 TTTCTCTTCA
* *
49978365 CCTTCTACCTCAT-C-CTTCTTCATTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTCTCTTCTTT
1 CCTTCTACCTCATCCTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
49978428 TCTTTCTTTCCCTCTTCTAATTCTTCATCTT
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTT
*
49978459 -CTTCTACCTCAT-C-CTTCTTTTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
1 CCTTCTACCTCATCCTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
*
49978521 TCTTTCTTTCCCTCTTCTAATTCTTCAGCTT
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTT
*
49978552 -CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
*
49978616 TTCTTTCTTTCCCTCTTCTAATTCTTCAGCTT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
*
49978648 -CTTCTACCTTATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
49978712 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
*
49978744 -CATCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
49978808 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
* * *
49978840 -CTTCTACCTCATCCTTCTTCTTCTTTTCTTTTTTATTCTCCTTCGCCTCTTTGTCTTTCTTCTT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
*
49978904 TTCTTTCTTTCCCTCTTCTAATTCTTCAGCTT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
* *
49978936 -CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTATTCTCCTTCGCCTCTTTGTCTTTCTTCTT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
49979000 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCAT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATC-T--T
* *
49979035 CTTCTTCTACCTCATCCTTCTTCTTCTTTCCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTC
1 C--CTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTC
*
49979100 TTTTCTTTCTTTCCTTCTTCTAATTCTTCTTCATCTT
63 TTTTCTTTCTTTCCCTCTTCTAA---TTCTTCATCTT
* * *
49979137 -CTTCTACCTCATCCTTCTTCTTCTTCTCTTT-TGC--CT-CTTTG--TC-CT-TC-TTCTT-TT
1 CCTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
*
49979191 CT-TT-CTTTCCCTCTTCTAATTCTTCATCTT
65 TTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
* **
49979221 CATCTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCCCCTTTGTTTCTTTGTCTTTCTTC
1 C--CTTCTACCTCATCC-TCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTC
*
49979286 TTTTCTTTCTTTCCCTCTTCTATTTCTTCATCTT
63 TTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTT
* * * * * *
49979320 -CATCTTCTTC-TACTTTATCCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCCTTGTCTTTCTTCT
1 CCTTCTACCTCATCCTCT-T-CTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCT
49979383 T
64 T
49979384 CTCTGTCTCT
Statistics
Matches: 853, Mismatches: 43, Indels: 56
0.90 0.05 0.06
Matches are distributed among these distances:
84 11 0.01
87 44 0.05
88 4 0.00
89 3 0.00
90 6 0.01
91 7 0.01
92 1 0.00
93 105 0.12
94 4 0.00
95 9 0.01
96 503 0.59
97 4 0.00
98 4 0.00
99 55 0.06
102 83 0.10
104 1 0.00
105 9 0.01
ACGTcount: A:0.06, C:0.33, G:0.02, T:0.58
Consensus pattern (96 bp):
CCTTCTACCTCATCCTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
TCTTTCTTTCCCTCTTCTAATTCTTCATCTT
Found at i:49978586 original size:12 final size:12
Alignment explanation
Indices: 49978569--49978624 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
49978559 CTCATCCTTC
49978569 TTCTTCTTTTCT
1 TTCTTCTTTTCT
*
49978581 TTCTTCTTCTCCT
1 TTCTTCTT-TTCT
* *
49978594 TCGCCTCTTTGTCT
1 T-TCTTCTTT-TCT
49978608 TTCTTCTTTTCT
1 TTCTTCTTTTCT
49978620 TTCTT
1 TTCTT
49978625 TCCCTCTTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
12 16 0.46
13 11 0.31
14 8 0.23
ACGTcount: A:0.00, C:0.30, G:0.04, T:0.66
Consensus pattern (12 bp):
TTCTTCTTTTCT
Found at i:49978682 original size:12 final size:12
Alignment explanation
Indices: 49978665--49978816 Score: 72
Period size: 12 Copynumber: 11.4 Consensus size: 12
49978655 CTTATCCTTC
49978665 TTCTTCTTTTCT
1 TTCTTCTTTTCT
*
49978677 TTCTTCTTCTCCT
1 TTCTTCTT-TTCT
*
49978690 TTGCCTCTTTGTCT
1 TT-CTTCTTT-TCT
49978704 TTCTTCTTTTCT
1 TTCTTCTTTTCT
*
49978716 TTCTTTCCCTCTTCT
1 TTC-TT--CTTTTCT
*
49978731 AATTCTTCATCTTCAT
1 --TTCTTC-TTTTC-T
* * *
49978747 CTACCTCATCCTTC-
1 -TTCTTC-T-TTTCT
49978761 TTCTTCTTTTCT
1 TTCTTCTTTTCT
*
49978773 TTCTTCTTCTCCT
1 TTCTTCTT-TTCT
*
49978786 TTGCCTCTTTGTCT
1 TT-CTTCTTT-TCT
49978800 TTCTTCTTTTCT
1 TTCTTCTTTTCT
49978812 TTCTT
1 TTCTT
49978817 TCCCTCTTCT
Statistics
Matches: 110, Mismatches: 15, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
11 3 0.03
12 31 0.28
13 30 0.27
14 19 0.17
15 17 0.15
16 7 0.06
17 3 0.03
ACGTcount: A:0.04, C:0.32, G:0.03, T:0.62
Consensus pattern (12 bp):
TTCTTCTTTTCT
Found at i:49978845 original size:288 final size:288
Alignment explanation
Indices: 49978366--49979383 Score: 1572
Period size: 288 Copynumber: 3.6 Consensus size: 288
49978356 TTCTCTTCAC
* *
49978366 CTTCTACCTCAT-C--CTTCTTCATTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTCTCTTCTTT
1 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
*
49978428 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCTTCTACCTCATCCTTC-T-TT-TTTTCTTTCTT
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTACCTCATCCTTCTTCTTCTTTTCTTTCTT
*
49978490 CTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCAGCTTCTT
131 CTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCTT
49978555 CTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCT
196 CTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCT
49978620 TTCTTTCCCTCTTCTAATTCTTCAGCTT
261 TTCTTTCCCTCTTCTAATTCTTCAGCTT
*
49978648 CTTCTACCTTATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
1 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
49978713 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTACCTCATCCTTCTTCTTCTTTTCTTTCTT
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTACCTCATCCTTCTTCTTCTTTTCTTTCTT
49978778 CTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCTT
131 CTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCTT
* *
49978843 CTACCTCATCCTTCTTCTTCTTTTCTTTTTTATTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCT
196 CTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCT
49978908 TTCTTTCCCTCTTCTAATTCTTCAGCTT
261 TTCTTTCCCTCTTCTAATTCTTCAGCTT
* *
49978936 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTATTCTCCTTCGCCTCTTTGTCTTTCTTCTTT
1 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
*
49979001 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTTCTTCTACCTCATCCTTCTTCTTCTTTCC
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCA------TCTACCTCATCCTTCTTCTTCTTTTC
* *
49979066 TTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCTTCTTCTAATTCTTCTT
125 TTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAA---TTCTT
*
49979131 CATCTTCTTCTACCTCAT-C--CTTCTTC--TTC-TTC-TC-T-T--TT-GCCTCTTTGTCCTTC
187 CATCTTCTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTC
*
49979184 TTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCAT
252 TTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCAGC-T--T
* **
49979224 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCCCCTTTGTTTCTTTGTCTTTCTTCTTT
1 CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
* * * *
49979289 TCTTTCTTTCCCTCTTCTATTTCTTCATCTTCATCTTCTTC-TACTT-TATCCTTCTTTTCTTTC
66 TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTACCTCATCCTTCT-T-CTTCTTTTCTTTC
*
49979352 TTCTTCTCCTTTGCCTCCTTGTCTTTCTTCTT
129 TTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTT
49979384 CTCTGTCTCT
Statistics
Matches: 687, Mismatches: 29, Indels: 40
0.91 0.04 0.05
Matches are distributed among these distances:
280 1 0.00
281 5 0.01
282 59 0.09
283 1 0.00
285 142 0.21
286 4 0.01
287 2 0.00
288 355 0.52
289 1 0.00
290 1 0.00
291 2 0.00
292 3 0.00
294 87 0.13
296 1 0.00
297 23 0.03
ACGTcount: A:0.06, C:0.33, G:0.02, T:0.59
Consensus pattern (288 bp):
CTTCTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTTGCCTCTTTGTCTTTCTTCTTT
TCTTTCTTTCCCTCTTCTAATTCTTCATCTTCATCTACCTCATCCTTCTTCTTCTTTTCTTTCTT
CTTCTCCTTTGCCTCTTTGTCTTTCTTCTTTTCTTTCTTTCCCTCTTCTAATTCTTCATCTTCTT
CTACCTCATCCTTCTTCTTCTTTTCTTTCTTCTTCTCCTTCGCCTCTTTGTCTTTCTTCTTTTCT
TTCTTTCCCTCTTCTAATTCTTCAGCTT
Found at i:49979384 original size:27 final size:28
Alignment explanation
Indices: 49979322--49979386 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
49979312 TTCATCTTCA
* * * *
49979322 TCTTCTTCTACTTTATCCTTCTTTTCTT
1 TCTTCTTCTCCTTTAGCCTCCTTGTCTT
49979350 TCTTCTTCTCCTTT-GCCTCCTTGTCTT
1 TCTTCTTCTCCTTTAGCCTCCTTGTCTT
49979377 TCTTCTTCTC
1 TCTTCTTCTC
49979387 TGTCTCTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.03, C:0.34, G:0.03, T:0.60
Consensus pattern (28 bp):
TCTTCTTCTCCTTTAGCCTCCTTGTCTT
Found at i:49979582 original size:12 final size:13
Alignment explanation
Indices: 49979553--49979597 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 13
49979543 CTTCTCCTTG
49979553 TCTTTCTTCTTC-
1 TCTTTCTTCTTCA
*
49979565 TGTTTCTTC-TCA
1 TCTTTCTTCTTCA
49979577 TCTTTC-TCTTCA
1 TCTTTCTTCTTCA
49979589 TC-TTCTTCT
1 TCTTTCTTCT
49979598 CCCTCCACCT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 7 0.25
12 21 0.75
ACGTcount: A:0.04, C:0.31, G:0.02, T:0.62
Consensus pattern (13 bp):
TCTTTCTTCTTCA
Found at i:49979792 original size:25 final size:22
Alignment explanation
Indices: 49979755--49979811 Score: 55
Period size: 25 Copynumber: 2.5 Consensus size: 22
49979745 TTCTCATCAT
49979755 CTTCTTCAT-CTTTGTGCATCTTCTC
1 CTTCTTC-TCCTTT-TGC-TCTT-TC
*
49979780 CTTCTTCTCCTTTTTCTCTTTC
1 CTTCTTCTCCTTTTGCTCTTTC
49979802 CTT-TTCTCCT
1 CTTCTTCTCCT
49979812 CTTTATTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 7 0.23
22 5 0.17
23 4 0.13
24 3 0.10
25 11 0.37
ACGTcount: A:0.04, C:0.35, G:0.04, T:0.58
Consensus pattern (22 bp):
CTTCTTCTCCTTTTGCTCTTTC
Found at i:49981954 original size:2 final size:2
Alignment explanation
Indices: 49981947--49981977 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
49981937 TCTACCTTCT
49981947 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49981978 ATTTTAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:49982621 original size:19 final size:18
Alignment explanation
Indices: 49982599--49982635 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
49982589 AACATGAAAA
49982599 TTAAAATAAATATCGATAC
1 TTAAAATAAATAT-GATAC
*
49982618 TTAAAATATATATGATAC
1 TTAAAATAAATATGATAC
49982636 CAATTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.08, G:0.05, T:0.35
Consensus pattern (18 bp):
TTAAAATAAATATGATAC
Found at i:49983612 original size:15 final size:16
Alignment explanation
Indices: 49983592--49983622 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49983582 TAATTTGCTT
49983592 TATATAAAAA-TAATA
1 TATATAAAAATTAATA
49983607 TATATAAAAATTAATA
1 TATATAAAAATTAATA
49983623 CGGACAGGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TATATAAAAATTAATA
Found at i:49986548 original size:6 final size:6
Alignment explanation
Indices: 49986537--49986565 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49986527 TAAATTATTT
49986537 TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTA
49986566 TCAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTAA
Found at i:49991781 original size:4 final size:4
Alignment explanation
Indices: 49991774--49991823 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
49991764 TTAATTTGTT
* * *
49991774 TGTA TGTA TGTA TGTA TGTA TG-- TGTG TGTG TGTG TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
49991820 TGTA
1 TGTA
49991824 AATATATGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
2 2 0.05
4 41 0.95
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:49998546 original size:20 final size:20
Alignment explanation
Indices: 49998521--49998568 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
49998511 CTTAAAAGGG
*
49998521 ACTTCTA-CCAATACAAGTCC
1 ACTTCTATCC-ATACAAATCC
49998541 ACTTCTATCCATACAAATCC
1 ACTTCTATCCATACAAATCC
49998561 ACTTCTAT
1 ACTTCTAT
49998569 TTGTAACACC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.33, C:0.33, G:0.02, T:0.31
Consensus pattern (20 bp):
ACTTCTATCCATACAAATCC
Found at i:49999942 original size:20 final size:20
Alignment explanation
Indices: 49999917--49999956 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49999907 ACTTTAAAAT
*
49999917 CAAGTTAAAATTATTTTAAC
1 CAAGTTAAAATGATTTTAAC
49999937 CAAGTTAAAATGATTTTAAC
1 CAAGTTAAAATGATTTTAAC
49999957 AAATCAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
CAAGTTAAAATGATTTTAAC
Found at i:50003181 original size:23 final size:23
Alignment explanation
Indices: 50003150--50003202 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
50003140 AGAGTTAGGA
*
50003150 TGATAAAATAGGATTTGTCAACT
1 TGATTAAATAGGATTTGTCAACT
50003173 TGATTAAATAGGATTTGTCAACT
1 TGATTAAATAGGATTTGTCAACT
50003196 TGATTAA
1 TGATTAA
50003203 CTCAAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
TGATTAAATAGGATTTGTCAACT
Found at i:50006373 original size:24 final size:25
Alignment explanation
Indices: 50006346--50006402 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
50006336 TAGCTCAGAG
* *
50006346 GAGCTTACCG-TTTACAGCTCGTAA
1 GAGCATACCGATTCACAGCTCGTAA
* *
50006370 GAGCATACCGATTCAGAGCTCGTAT
1 GAGCATACCGATTCACAGCTCGTAA
50006395 GAGCATAC
1 GAGCATAC
50006403 ATGTTTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 9 0.32
25 19 0.68
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATTCACAGCTCGTAA
Found at i:50008036 original size:16 final size:16
Alignment explanation
Indices: 50008011--50008044 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50008001 ATGAATATAT
* *
50008011 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
50008027 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
50008043 AT
1 AT
50008045 TGAATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:50011426 original size:40 final size:39
Alignment explanation
Indices: 50011363--50011476 Score: 122
Period size: 40 Copynumber: 2.9 Consensus size: 39
50011353 CGTCAGATAG
* *
50011363 ACCG-AACACACCACACAAAAGCTCATAAGAGTTGATCCA
1 ACCGAAACACACCA-ATAGAAGCTCATAAGAGTTGATCCA
* ** * * *
50011402 ACCGAAATATGCCAAATAGAAGCTCGTAAGAGCTGGTCCA
1 ACCGAAACACACC-AATAGAAGCTCATAAGAGTTGATCCA
*
50011442 CCCGAAACACACCAATAGAAGCTCATAAGAGTTGA
1 ACCGAAACACACCAATAGAAGCTCATAAGAGTTGA
50011477 ACAGAAGCTC
Statistics
Matches: 58, Mismatches: 15, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
39 23 0.40
40 34 0.59
41 1 0.02
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (39 bp):
ACCGAAACACACCAATAGAAGCTCATAAGAGTTGATCCA
Found at i:50013123 original size:17 final size:15
Alignment explanation
Indices: 50013098--50013141 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
50013088 TATTTTTTTT
*
50013098 AAATCTATAAAATATAA
1 AAATATATAAAAT-T-A
*
50013115 AAATATATACAATTA
1 AAATATATAAAATTA
50013130 AAATATATAAAA
1 AAATATATAAAA
50013142 AGCTTATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 1 0.04
17 11 0.46
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATATATAAAATTA
Found at i:50013309 original size:7 final size:9
Alignment explanation
Indices: 50013275--50013304 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50013265 TTCTTGAACT
50013275 TTTTAT-TA
1 TTTTATATA
50013283 TTTTATATA
1 TTTTATATA
50013292 TTTTATATA
1 TTTTATATA
50013301 TTTT
1 TTTT
50013305 TTATTAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTATATA
Found at i:50016199 original size:29 final size:29
Alignment explanation
Indices: 50016136--50016203 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
50016126 TAATCAACCA
50016136 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
50016165 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
50016194 CGCACACTTA
1 CGCACACTTA
50016204 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:50016322 original size:174 final size:175
Alignment explanation
Indices: 50016024--50016352 Score: 545
Period size: 174 Copynumber: 1.9 Consensus size: 175
50016014 AACTCAAGGT
* *
50016024 ACTTACCTTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
* * *
50016089 TAGAAAATATATATTGGGTTGCACGCATAACGTTTAGTAATCAACCACGCACACTTAGTGCCATG
66 TAGAAAATATATATTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
50016154 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
50016199 ACTTACC-TTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAA-TTTA
1 ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
** *
50016262 TAGAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCAT
66 TAGAAAATATATATTGGGTT-GCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCAT
* *
50016327 GTACTTTAAACTCGCACACTTAGTGC
130 GCACTTTAAACTCACACACTTAGTGC
50016353 TGTACAATTT
Statistics
Matches: 143, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
173 24 0.17
174 112 0.78
175 7 0.05
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (175 bp):
ACTTACCTTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTTA
TAGAAAATATATATTGGGTTGCACACATAACGCTTAATAATCAACCACGCACACTTAGTGCCATG
CACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:50016344 original size:29 final size:30
Alignment explanation
Indices: 50016305--50016383 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
50016295 CTTAATAATC
50016305 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
50016335 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
50016364 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50016384 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:50024340 original size:29 final size:29
Alignment explanation
Indices: 50024277--50024344 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
50024267 TAATCAACCA
50024277 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
50024306 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
50024335 CGCACACTTA
1 CGCACACTTA
50024345 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:50024485 original size:29 final size:30
Alignment explanation
Indices: 50024446--50024524 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
50024436 CTTAATAATC
50024446 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
50024476 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
50024505 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
50024525 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:50030397 original size:14 final size:15
Alignment explanation
Indices: 50030372--50030400 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
50030362 ATAATAGAGA
50030372 GAGAGAAAGAAAAAT
1 GAGAGAAAGAAAAAT
50030387 GAGAG-AAGAAAAAT
1 GAGAGAAAGAAAAAT
50030401 AAAGAAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.66, C:0.00, G:0.28, T:0.07
Consensus pattern (15 bp):
GAGAGAAAGAAAAAT
Found at i:50033522 original size:23 final size:24
Alignment explanation
Indices: 50033490--50033537 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
50033480 TTGAACATCA
*
50033490 ATAATTTTAG-TTTAAAATATGTC
1 ATAATCTTAGATTTAAAATATGTC
*
50033513 ATAATCTTAGCATTTTAAATATGTC
1 ATAATCTTAG-ATTTAAAATATGTC
50033538 TTAAGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
25 12 0.57
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (24 bp):
ATAATCTTAGATTTAAAATATGTC
Found at i:50035096 original size:39 final size:39
Alignment explanation
Indices: 50035045--50035254 Score: 210
Period size: 39 Copynumber: 5.4 Consensus size: 39
50035035 TTTTCAATCA
* * *
50035045 CACCAGCACACAGCCTGCTAGGCATATAGTCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGACCGAATAAT
** *
50035084 CACCGGCACACAGTTTGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGACCGAATAAT
* * ** * *
50035123 TACTGGCACACAGTTTGCTAAGTACATA-ACCTGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGACC-GAATAAT
* *
50035162 TACTGGCACACAGCCTGCTAGGCACATA-ACACGAATAAT
1 CACCGGCACACAGCCTGCTAGGCACATAGAC-CGAATAAT
* * *
50035201 CACTGGTACACAG-CTCGCTAGGCACATAGCCCGAATAAT
1 CACCGGCACACAGCCT-GCTAGGCACATAGACCGAATAAT
*
50035240 CACCGGTACACAGCC
1 CACCGGCACACAGCC
50035255 CAAATAATCA
Statistics
Matches: 148, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 4 0.03
39 141 0.95
40 3 0.02
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.19
Consensus pattern (39 bp):
CACCGGCACACAGCCTGCTAGGCACATAGACCGAATAAT
Found at i:50035277 original size:23 final size:23
Alignment explanation
Indices: 50035222--50035277 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
50035212 AGCTCGCTAG
* *
50035222 GCACATAGCCCGAATAATCACCG
1 GCACATAGCCCAAATAATCACCA
* *
50035245 GTACACAGCCCAAATAATCACCA
1 GCACATAGCCCAAATAATCACCA
50035268 GCACATAGCC
1 GCACATAGCC
50035278 TGCTAGGCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.36, G:0.14, T:0.12
Consensus pattern (23 bp):
GCACATAGCCCAAATAATCACCA
Found at i:50041157 original size:24 final size:24
Alignment explanation
Indices: 50041130--50041181 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50041120 TTAGTAAGTC
*
50041130 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50041154 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50041178 AAAT
1 AAAT
50041182 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50043124 original size:24 final size:24
Alignment explanation
Indices: 50043097--50043148 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
50043087 TTAGTAAGTC
*
50043097 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
50043121 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
50043145 AAAT
1 AAAT
50043149 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:50044593 original size:12 final size:12
Alignment explanation
Indices: 50044576--50044603 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50044566 CATCAAAAAC
50044576 ATTAAAATAAAT
1 ATTAAAATAAAT
50044588 ATTAAAATAAAT
1 ATTAAAATAAAT
50044600 ATTA
1 ATTA
50044604 CCCAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATTAAAATAAAT
Found at i:50046184 original size:26 final size:26
Alignment explanation
Indices: 50046155--50046206 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
50046145 TTATCGGTCA
* *
50046155 ATTTATTTTTATTTCAATAGATCTTT
1 ATTTATTTTTATTCCAATACATCTTT
50046181 ATTTATTTTTATTCCAATACATCTTT
1 ATTTATTTTTATTCCAATACATCTTT
50046207 TTCTTACTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.27, C:0.12, G:0.02, T:0.60
Consensus pattern (26 bp):
ATTTATTTTTATTCCAATACATCTTT
Found at i:50049716 original size:21 final size:21
Alignment explanation
Indices: 50049673--50049845 Score: 188
Period size: 21 Copynumber: 8.3 Consensus size: 21
50049663 GTACATTGTT
* *
50049673 AACAGAAACTCGT-A-AGCTG
1 AACAGAAGCTCGTAAGAGCTA
*
50049692 AACAGAAGCTTGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
*
50049713 AACAGAAGCTCATAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * *
50049734 AATAGAAGCTTGAAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
* * *
50049755 AACAGAAACTCATAAGAGTTA
1 AACAGAAGCTCGTAAGAGCTA
*
50049776 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTA
* * *
50049797 AACAGAAACTCGTAAAAGTTA
1 AACAGAAGCTCGTAAGAGCTA
*
50049818 AATAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCGTAAGAGCTA
*
50049839 AATAGAA
1 AACAGAA
50049846 AGTAAAACAC
Statistics
Matches: 125, Mismatches: 27, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
19 11 0.09
20 1 0.01
21 113 0.90
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTA
Found at i:50049743 original size:42 final size:42
Alignment explanation
Indices: 50049695--50049846 Score: 214
Period size: 42 Copynumber: 3.6 Consensus size: 42
50049685 TAAGCTGAAC
* * *
50049695 AGAAGCTTGTAAGAGCTAAACAGAAGCTCATAAGAGCTAAAT
1 AGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTAAAT
* * *
50049737 AGAAGCTTGAAAGAGCTAAACAGAAACTCATAAGAGTTAAAC
1 AGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTAAAT
* * *
50049779 AGAAGCTCGTAAGAGCTGAACAGAAACTCGTAAAAGTTAAAT
1 AGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTAAAT
*
50049821 AGAAGCTCGTAAGAGCTAAATAGAAA
1 AGAAGCTCGTAAGAGCTAAACAGAAA
50049847 GTAAAACACG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 98 1.00
ACGTcount: A:0.47, C:0.14, G:0.21, T:0.18
Consensus pattern (42 bp):
AGAAGCTCGTAAGAGCTAAACAGAAACTCATAAGAGTTAAAT
Found at i:50057743 original size:25 final size:25
Alignment explanation
Indices: 50057723--50057830 Score: 101
Period size: 25 Copynumber: 4.3 Consensus size: 25
50057713 AAGCTCCTCT
50057723 AAGCTGAATAACAGTAAGCTCATGC
1 AAGCTGAATAACAGTAAGCTCATGC
* *
50057748 GAGCTGAATAACGGTAAGCTCATGC
1 AAGCTGAATAACAGTAAGCTCATGC
* * * * *
50057773 GAGATGAGTATCAGTAAGCTCATAC
1 AAGCTGAATAACAGTAAGCTCATGC
* * * *
50057798 GAGCTGAGTATC-GATAAGCTCATAC
1 AAGCTGAATAACAG-TAAGCTCATGC
50057823 AAGCTGAA
1 AAGCTGAA
50057831 ATCACTAACC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 1 0.01
25 71 0.99
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
AAGCTGAATAACAGTAAGCTCATGC
Found at i:50057767 original size:50 final size:50
Alignment explanation
Indices: 50057691--50057830 Score: 133
Period size: 50 Copynumber: 2.8 Consensus size: 50
50057681 ATACATGTAT
* * *
50057691 GCTCATAAGAGCT--ATAAACGGTAAGCTCCT-CTAAGCTGAATAACAGTAA
1 GCTCATACGAGCTGAAT-AACGGTAAGCTCATGC-AAGATGAATAACAGTAA
* * * *
50057740 GCTCATGCGAGCTGAATAACGGTAAGCTCATGCGAGATGAGTATCAGTAA
1 GCTCATACGAGCTGAATAACGGTAAGCTCATGCAAGATGAATAACAGTAA
* * * * *
50057790 GCTCATACGAGCTGAGTATCGATAAGCTCATACAAGCTGAA
1 GCTCATACGAGCTGAATAACGGTAAGCTCATGCAAGATGAA
50057831 ATCACTAACC
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
49 11 0.15
50 59 0.81
51 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (50 bp):
GCTCATACGAGCTGAATAACGGTAAGCTCATGCAAGATGAATAACAGTAA
Found at i:50061826 original size:32 final size:32
Alignment explanation
Indices: 50061790--50061854 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
50061780 ACTAATTTCT
*
50061790 TTCCCAATCTGCAGAAAACCTTGCTATTCAAC
1 TTCCCAATCTGCAGAAAACCCTGCTATTCAAC
*
50061822 TTCCCAATCTGCAGAAAACCCTGCTCTTCAAC
1 TTCCCAATCTGCAGAAAACCCTGCTATTCAAC
50061854 T
1 T
50061855 CATGTTCTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.34, G:0.09, T:0.28
Consensus pattern (32 bp):
TTCCCAATCTGCAGAAAACCCTGCTATTCAAC
Found at i:50063919 original size:24 final size:24
Alignment explanation
Indices: 50063891--50063938 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
50063881 CGGTTCTTGG
*
50063891 CATTAAATAAGTAATGGAATAAAA
1 CATTAAATAAATAATGGAATAAAA
50063915 CATTAAATAAATAATGGAATAAAA
1 CATTAAATAAATAATGGAATAAAA
50063939 TATACCTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.10, T:0.25
Consensus pattern (24 bp):
CATTAAATAAATAATGGAATAAAA
Found at i:50068610 original size:21 final size:21
Alignment explanation
Indices: 50068577--50068629 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
50068567 CATTATTTCT
* * *
50068577 AATCTTACTGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
50068598 AATCTCACCGCTATAGTAACT
1 AATCTCACCGCTACAGTAACC
50068619 AATCTCACCGC
1 AATCTCACCGC
50068630 CACCGCTGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.28
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:50072588 original size:21 final size:21
Alignment explanation
Indices: 50072564--50072603 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50072554 ATTGTCAATA
50072564 ACTTTTTAATATTTTTTTTTT
1 ACTTTTTAATATTTTTTTTTT
*
50072585 ACTTTTTTATATTTTTTTT
1 ACTTTTTAATATTTTTTTT
50072604 GTAAATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
ACTTTTTAATATTTTTTTTTT
Found at i:50076897 original size:26 final size:27
Alignment explanation
Indices: 50076868--50076925 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
50076858 ATTATATTCA
*
50076868 TATTTAATAT-ATTTTCTTATCCAATT
1 TATTTAATATGATTTTCTAATCCAATT
* *
50076894 TATTTAATATGTTTTTCTAATTCAATT
1 TATTTAATATGATTTTCTAATCCAATT
50076921 TATTT
1 TATTT
50076926 TTCAAGTAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.36
27 18 0.64
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (27 bp):
TATTTAATATGATTTTCTAATCCAATT
Found at i:50078400 original size:22 final size:22
Alignment explanation
Indices: 50078372--50078419 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50078362 TTTTACTTTT
*
50078372 TCAATTCACTCTAAATTCTCTC
1 TCAATTCACTCTAAATACTCTC
* * *
50078394 TCAATTCATTTTCAATACTCTC
1 TCAATTCACTCTAAATACTCTC
50078416 TCAA
1 TCAA
50078420 CTCTCAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCACTCTAAATACTCTC
Found at i:50084600 original size:26 final size:26
Alignment explanation
Indices: 50084556--50084606 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
50084546 TAAGTGTTCT
50084556 GAAACTGATACATGCTATGATATTCA
1 GAAACTGATACATGCTATGATATTCA
* * *
50084582 GAAATTGATATATGTTATGATATTC
1 GAAACTGATACATGCTATGATATTC
50084607 TGAAGCTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (26 bp):
GAAACTGATACATGCTATGATATTCA
Found at i:50087977 original size:18 final size:18
Alignment explanation
Indices: 50087954--50087989 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
50087944 TAAAAGATGA
50087954 AATCAAATTTTATTGAGT
1 AATCAAATTTTATTGAGT
50087972 AATCAAATTTTATTGAGT
1 AATCAAATTTTATTGAGT
50087990 CTAGTTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (18 bp):
AATCAAATTTTATTGAGT
Found at i:50092939 original size:68 final size:69
Alignment explanation
Indices: 50092798--50092941 Score: 184
Period size: 68 Copynumber: 2.1 Consensus size: 69
50092788 TTGATCACTT
* * * *
50092798 TAATATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAGATAATT
1 TAATATTAAATTAATAAAATACTTATAAAGATAAATATTAAATTAAATTTAATATTAAAATAATT
***
50092863 ACTT
66 AAAA
* *
50092867 TAATATTAAATTAATAAAATAC-TATAAAGATAATTATTAAATTTAATTTAATATTAAAACT-AT
1 TAATATTAAATTAATAAAATACTTATAAAGATAAATATTAAATTAAATTTAATATTAAAA-TAAT
50092930 TAAAA
65 TAAAA
50092935 TAATATT
1 TAATATT
50092942 GTTTTTGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
68 43 0.66
69 22 0.34
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (69 bp):
TAATATTAAATTAATAAAATACTTATAAAGATAAATATTAAATTAAATTTAATATTAAAATAATT
AAAA
Found at i:50097856 original size:37 final size:37
Alignment explanation
Indices: 50097793--50097871 Score: 108
Period size: 37 Copynumber: 2.1 Consensus size: 37
50097783 TTATTACGAA
*
50097793 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
*
50097830 GTCTTACCCGGACGA-AATC-CCTACACGTAGTCATCGG
1 GTCTTACCCGGAC-ATAATCTCC-ACACGAAGTCATCGG
50097867 GTCTT
1 GTCTT
50097872 TAGAGCTCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 2 0.05
37 35 0.92
38 1 0.03
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
Done.