Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 145 of 284
Found at i:48464472 original size:54 final size:54
Alignment explanation
Indices: 48464316--48464488 Score: 206
Period size: 54 Copynumber: 3.2 Consensus size: 54
48464306 GTAAGTTCAG
* *
48464316 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGATAATTTTATA
* *
48464370 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAAT-AGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGA-TAATTTTATA
* * * *** *
48464424 AATCGAGGGTAAAATGGTAATTCTGTAAA-TCAGGGGTACTTTGATAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTAAACTGA-GGGTAAAATGATAATTTTATA
*
48464478 AGTCGAGGGTA
1 AATCGAGGGTA
48464489 TTTCAGTAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 2 0.02
54 99 0.97
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATGATAATTTTATA
Found at i:48464487 original size:27 final size:26
Alignment explanation
Indices: 48464457--48464612 Score: 125
Period size: 27 Copynumber: 5.7 Consensus size: 26
48464447 TGTAAATCAG
48464457 GGGTACTTTGATAATTTTACAAGTCGA
1 GGGTA-TTTGATAATTTTACAAGTCGA
* *
48464484 GGGTATTTCAGTAATATTACAA-TCGA
1 GGGTATTTGA-TAATTTTACAAGTCGA
* * * * *
48464510 CGGTATTTCGGTAATTTTATAAGCCGGGGG
1 GGGTATTT-GATAATTTTACAAGTC---GA
*
48464540 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTA-TTTGATAATTTTACAAGTCGA
* * *
48464567 AGGTATTTCAGTAATTTTACAAATCGA
1 GGGTATTTGA-TAATTTTACAAGTCGA
48464594 GGGTATTTCGATAATTTTA
1 GGGTATTT-GATAATTTTA
48464613 GTAAACTAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
26 27 0.27
27 51 0.50
28 1 0.01
30 19 0.19
31 3 0.03
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (26 bp):
GGGTATTTGATAATTTTACAAGTCGA
Found at i:48464555 original size:83 final size:84
Alignment explanation
Indices: 48464456--48464612 Score: 262
Period size: 83 Copynumber: 1.9 Consensus size: 84
48464446 CTGTAAATCA
*
48464456 GGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTCAGTAATATTAC-AATCGACGGTATTTCG
1 GGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATATTACAAATCGACGGTATTTCG
*
48464520 GTAATTTTATAAGCCGGGG
66 ATAATTTTATAAGCCGGGG
* * *
48464539 GGGGTACTTTGGTAATTTTACAAGTCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCG
1 GGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATATTACAAATCGACGGTATTTCG
48464604 ATAATTTTA
66 ATAATTTTA
48464613 GTAAACTAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
83 45 0.66
84 23 0.34
ACGTcount: A:0.29, C:0.11, G:0.24, T:0.37
Consensus pattern (84 bp):
GGGGTACTTTGATAATTTTACAAGTCGAAGGTATTTCAGTAATATTACAAATCGACGGTATTTCG
ATAATTTTATAAGCCGGGG
Found at i:48467014 original size:27 final size:27
Alignment explanation
Indices: 48466961--48467014 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48466951 ATCATAGCAC
* *
48466961 AAATCAGTCATTTACCCTCGAGTGGTA
1 AAATCAGTCATTTACCCTAGAGGGGTA
*
48466988 AAAT-AGTCATTTTACCCTATAGGGGTA
1 AAATCAGTCA-TTTACCCTAGAGGGGTA
48467015 TCTTGGTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (27 bp):
AAATCAGTCATTTACCCTAGAGGGGTA
Found at i:48470451 original size:47 final size:47
Alignment explanation
Indices: 48470399--48470795 Score: 443
Period size: 47 Copynumber: 8.1 Consensus size: 47
48470389 TTAGGATTTT
* *
48470399 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* ** *
48470446 CTGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
48470499 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* **
48470546 CTGTGATGAATGTGAACCTGTATATATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-------ATGCATATGTGTGATAAGGCCGAATGGCCA
**
48470601 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48470652 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
48470699 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * * *
48470746 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCTGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
48470793 ATG
1 ATG
48470796 CGAAACGTGT
Statistics
Matches: 305, Mismatches: 30, Indels: 30
0.84 0.08 0.08
Matches are distributed among these distances:
47 169 0.55
48 2 0.01
49 1 0.00
51 47 0.15
52 1 0.00
53 41 0.13
55 42 0.14
56 2 0.01
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:48470515 original size:100 final size:100
Alignment explanation
Indices: 48470399--48470772 Score: 508
Period size: 100 Copynumber: 3.7 Consensus size: 100
48470389 TTAGGATTTT
* * *
48470399 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48470464 TGTATATATATATGCGTGATAAGGCCGAATGGCCA
66 TGTATATATATATGTGTGATAAGGCCGAATGGCCA
* *
48470499 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCACTGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
48470564 TGTATATATATATATGTGTGATAAGGCCGAATGGCCA
66 TG--TATATATATATGTGTGATAAGGCCGAATGGCCA
**
48470601 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAA--C--ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*** *
48470666 AA-C-----ATGCGTATGTGTGATAAGGCCGGATGGCCA
62 AACCTGTATATATATATGTGTGATAAGGCCGAATGGCCA
* * *
48470699 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
48470764 TGAATATAT
66 TGTATATAT
48470773 GTGGTAAGGC
Statistics
Matches: 245, Mismatches: 17, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
94 42 0.17
96 1 0.00
98 42 0.17
100 68 0.28
102 48 0.20
104 1 0.00
105 1 0.00
106 42 0.17
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (100 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGTATATATATATGTGTGATAAGGCCGAATGGCCA
Found at i:48470704 original size:153 final size:147
Alignment explanation
Indices: 48470399--48470795 Score: 540
Period size: 153 Copynumber: 2.7 Consensus size: 147
48470389 TTAGGATTTT
* * * *
48470399 ATGTGATGGATGTGAACATGC--GTATGTGTGATAAGGCCGAATGGCCACTGTGATGAATGTGAA
1 ATGTGATGAATGTGAACATACATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
48470462 CCTGTATATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTG
66 CCTG--TATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTG
48470527 TGATAAGGCCGAATGGCCA
129 TGATAAGGCCGAATGGCCA
* *
48470546 CTGTGATGAATGTGAACCTGTATATATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
1 ATGTGATGAATGTGAA-C-----ATACATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
*
48470611 TGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTA
60 TGTGAACCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTA
*
48470676 TGTGTGATAAGGCCGGATGGCCA
125 TGTGTGATAAGGCCGAATGGCCA
* *
48470699 ATGTGATGAATGTGAACATGCATATA--TGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 ATGTGATGAATGTGAACATACATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
* * *
48470762 CATG-A-ATATATGTG-G-TAAGGCTGAATGGCTAATG
66 CCTGTATATATATGTGTGATAAGGCCGAATGGCCAATG
48470796 CGAAACGTGT
Statistics
Matches: 225, Mismatches: 17, Indels: 22
0.85 0.06 0.08
Matches are distributed among these distances:
141 17 0.08
142 1 0.00
143 9 0.04
144 1 0.00
145 38 0.17
147 21 0.09
148 1 0.00
152 1 0.00
153 93 0.41
155 43 0.19
ACGTcount: A:0.31, C:0.12, G:0.29, T:0.27
Consensus pattern (147 bp):
ATGTGATGAATGTGAACATACATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
CCTGTATATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTG
ATAAGGCCGAATGGCCA
Found at i:48470858 original size:46 final size:46
Alignment explanation
Indices: 48470769--48470859 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
48470759 GAACATGAAT
* ** * *
48470769 ATATGTGGTAAGGCTGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
48470815 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
48470860 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:48471151 original size:37 final size:37
Alignment explanation
Indices: 48471006--48471150 Score: 227
Period size: 37 Copynumber: 3.9 Consensus size: 37
48470996 GGAAATATAT
* *
48471006 TCCGGGTAATACCTGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48471043 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48471080 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
48471117 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
48471151 TCGTCTGAGC
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 100 1.00
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48471988 original size:40 final size:40
Alignment explanation
Indices: 48471933--48472115 Score: 258
Period size: 40 Copynumber: 4.6 Consensus size: 40
48471923 CCTTACCTAT
48471933 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
48471973 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * *
48472013 TCTGGGCTAAGTTCCGAGGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
48472053 TCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
48472093 TCCGGGCTAGGTCTCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
48472116 ATCATNNNNN
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:48479160 original size:96 final size:96
Alignment explanation
Indices: 48479034--48480161 Score: 1980
Period size: 96 Copynumber: 11.8 Consensus size: 96
48479024 TATTTGAATA
*
48479034 AATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
48479097 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
48479128 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479193 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479224 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479289 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479320 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479385 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479416 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479481 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479512 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479577 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479608 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479673 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479704 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
48479769 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48479800 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
48479865 TATGTGATAAGACCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48479896 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGAGGTGATGAATGTGAAAGTGGATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
48479961 TATGTGATAAGACCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
48479992 ACTGTGAAA--GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
* *
48480055 TATATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * * * * * *
48480088 AATGTGAAA--GTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
48480151 AATGTGATAAG
66 TATGTGATAAG
48480162 TCCCGAAGGG
Statistics
Matches: 1006, Mismatches: 24, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
94 69 0.07
96 937 0.93
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAATTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:48484961 original size:46 final size:46
Alignment explanation
Indices: 48484909--48485084 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
48484899 TATTTGGGCA
48484909 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
48484955 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
*
48485000 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
48485048 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48485085 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 64 0.57
47 28 0.25
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:48485015 original size:93 final size:93
Alignment explanation
Indices: 48484905--48485077 Score: 319
Period size: 93 Copynumber: 1.9 Consensus size: 93
48484895 CGGATATTTG
*
48484905 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48484970 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
48484998 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
48485063 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
48485078 CTTATGGGCG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 77 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:48514555 original size:43 final size:43
Alignment explanation
Indices: 48514389--48514556 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 43
48514379 AATACAGCTC
* * * * *
48514389 ATACAATGCC-ATATCCCAGATATGGTCTTACATGTTATCAC-
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA
* * * * * *
48514430 ATATCGATGCCATTGTTCCAAACAAGGTCTTACACG-AA-ATCA
1 ATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA
* * * *
48514472 ATTAACGATGCCAATGTCCTAGACATGGTCATATACGTAATCTCA
1 A-T-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA
*
48514517 ATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
48514557 ACATCTCGGT
Statistics
Matches: 96, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 76 0.79
44 4 0.04
45 4 0.04
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCA
Found at i:48527041 original size:40 final size:40
Alignment explanation
Indices: 48526967--48527108 Score: 225
Period size: 40 Copynumber: 3.6 Consensus size: 40
48526957 AACCCAAGTA
* * *
48526967 CCTTCGGGATTTAG-CCAGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
48527006 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
48527046 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
48527086 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48527109 CATTCGAATA
Statistics
Matches: 96, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 12 0.12
40 83 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:48534064 original size:40 final size:40
Alignment explanation
Indices: 48533992--48534213 Score: 331
Period size: 40 Copynumber: 5.6 Consensus size: 40
48533982 AACCCAAGTA
*
48533992 CCTTCGGGATTTAG-CCGGATATAG-CAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * * *
48534031 CCTTCGAGTCTTAGCCCGGAAATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
48534071 CCTTCGGGACTTGGCCTGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48534111 CCTTCGGGACTTAGCCCGGATATAGTCTCTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48534151 CCTTCGGGACTTAGCCCGGATATAGTCACTGGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
48534191 CTTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
48534214 CATTCGAATA
Statistics
Matches: 164, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 11 0.07
40 152 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:48539804 original size:40 final size:40
Alignment explanation
Indices: 48539745--48540092 Score: 561
Period size: 40 Copynumber: 8.7 Consensus size: 40
48539735 GAGCATTGGA
48539745 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
48539785 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
*
48539825 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
48539865 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
48539905 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
**
48539945 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGACG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
48539985 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* *
48540025 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
* * *
48540065 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTATGACCCGAAGGCAA
48540093 ATGTGTTTGC
Statistics
Matches: 294, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 294 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
Found at i:48550083 original size:40 final size:40
Alignment explanation
Indices: 48550039--48550262 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
48550029 AAGTGAATAT
* * * * **
48550039 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
48550079 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
48550119 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
48550159 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
48550199 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
48550238 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
48550263 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:48550137 original size:80 final size:80
Alignment explanation
Indices: 48550000--48550262 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
48549990 TTGAATGCTG
* * * * *
48550000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
48550062 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
48550080 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
48550145 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
48550160 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
48550224 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
48550239 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48550263 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:48550214 original size:120 final size:120
Alignment explanation
Indices: 48550000--48550262 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
48549990 TTGAATGCTG
* * *
48550000 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
48550064 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
48550120 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
48550182 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
48550239 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48550263 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:48553514 original size:43 final size:43
Alignment explanation
Indices: 48553421--48553570 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
48553411 GGTTACCGAG
* * *
48553421 ATGTGATTACATGTATGACCATGTCTGGGACATTGGCATTGTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* *
48553464 TTGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTTA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TA
* * * * *
48553508 AT-TGATTACGTGTAATACCCTATCTGGGACAAT-GCATC-AA
1 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
* *
48553548 TATGTGATAACATGTAAGACCAT
1 -ATGTGATTACGTGTAAGACCAT
48553571 ATTTGGGATA
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 20 0.23
43 62 0.70
44 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTA
Found at i:48560500 original size:42 final size:42
Alignment explanation
Indices: 48560392--48560503 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 42
48560382 TACCATACCA
* * *
48560392 ATGCCATATCCAAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
* * * *
48560434 ATACCAATAACCCAGCTATGGTCTTACATGA-AGTCTCGTATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAGA-TCTCATATCG
48560477 ATGCCATATCCCAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
48560504 CGTAATCTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 25 0.43
43 33 0.57
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGAGATCTCATATCG
Found at i:48564422 original size:29 final size:29
Alignment explanation
Indices: 48564357--48564471 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
48564347 TACATACATG
* * *
48564357 CATATAGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
48564385 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * **
48564414 CTTATGGCCCACTAGGCCCAATTCACCTT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
48564443 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
48564472 ATACTCATGC
Statistics
Matches: 68, Mismatches: 18, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
28 16 0.24
29 52 0.76
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:48564462 original size:58 final size:57
Alignment explanation
Indices: 48564363--48564471 Score: 148
Period size: 58 Copynumber: 1.9 Consensus size: 57
48564353 CATGCATATA
* * **
48564363 GCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCTTATG
1 GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
*
48564420 GCCCACTAGGCCCAAT-TCACCTTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAATCTCA--TTCAAATGGCCCATTAGGCCCAAATCATATT
48564472 ATACTCATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 2 0.04
57 16 0.36
58 27 0.60
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTTATG
Found at i:48564706 original size:8 final size:8
Alignment explanation
Indices: 48564695--48564729 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
48564685 ACTTTCGACT
48564695 TTTCGGCA
1 TTTCGGCA
48564703 TTTCGGCA
1 TTTCGGCA
48564711 TTTCGGCA
1 TTTCGGCA
*
48564719 TTTCAGCA
1 TTTCGGCA
48564727 TTT
1 TTT
48564730 GGGCTTTTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (8 bp):
TTTCGGCA
Found at i:48568679 original size:37 final size:37
Alignment explanation
Indices: 48568623--48568708 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
48568613 TTATTACGAA
* * *
48568623 GTCTCACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
48568660 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
48568697 GTCTTACCCGGA
1 GTCTTACCCGGA
48568709 ATATATTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:48568978 original size:48 final size:48
Alignment explanation
Indices: 48568845--48569413 Score: 764
Period size: 48 Copynumber: 11.6 Consensus size: 48
48568835 CATAATATAT
* * *
48568845 ATATACACATCTCATACATATCTCACATTAGCCATTTGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* ** *
48568893 ATAT-C-CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
48568939 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
48568987 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
* *
48569035 ATATACACATCTCATACATATTTCACATTAGCCATTCAGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
48569083 ATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
48569131 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
48569179 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
48569227 ATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTA-C-C----AC
* * *
48569281 ATATCCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCAC
1 ATAT--ACATAT-C---T--CATACATATTTCACATTAGCCATTCGGCTTTACCAC
* * *
48569337 ATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCAC
1 ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
*
48569385 ATATACATATCTCATACATATTTTACATT
1 ATATACATATCTCATACATATTTCACATT
48569414 CNNNNNNNNN
Statistics
Matches: 469, Mismatches: 36, Indels: 32
0.87 0.07 0.06
Matches are distributed among these distances:
46 40 0.09
47 2 0.00
48 368 0.78
49 1 0.00
50 1 0.00
53 1 0.00
54 12 0.03
56 11 0.02
57 1 0.00
60 2 0.00
61 1 0.00
62 29 0.06
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC
Found at i:48569290 original size:14 final size:14
Alignment explanation
Indices: 48569271--48569299 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
48569261 TTCGGCTTTA
48569271 CCACATATACATAT
1 CCACATATACATAT
48569285 CCACATATACATAT
1 CCACATATACATAT
48569299 C
1 C
48569300 TCATACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (14 bp):
CCACATATACATAT
Found at i:48569293 original size:62 final size:62
Alignment explanation
Indices: 48569223--48569356 Score: 223
Period size: 62 Copynumber: 2.1 Consensus size: 62
48569213 TTCGGCTTTA
*
48569223 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
* * *
48569285 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATAT
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
48569347 CACACATATA
1 C-CACATATA
48569357 TTTCACATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
62 59 0.88
63 8 0.12
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.32
Consensus pattern (62 bp):
CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACATAT
Found at i:48569301 original size:110 final size:110
Alignment explanation
Indices: 48569175--48569395 Score: 370
Period size: 110 Copynumber: 2.0 Consensus size: 110
48569165 TTCGGCTTTA
* *
48569175 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTC
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
*
48569240 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
66 ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
* * * *
48569285 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCAC
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
*
48569350 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
66 ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
48569395 C
1 C
48569396 TCATACATAT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
110 103 1.00
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (110 bp):
CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
Found at i:48569309 original size:158 final size:158
Alignment explanation
Indices: 48569127--48569413 Score: 484
Period size: 158 Copynumber: 1.8 Consensus size: 158
48569117 TTCGGCTTTA
* *
48569127 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTC
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
*
48569192 ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACATTA
66 ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACATTA
48569257 GCCATTCGGCTTTACCACATATACATAT
131 GCCATTCGGCTTTACCACATATACATAT
* * * *
48569285 CCACATATACATATCTCATACATATTTCACATTCGCCATTTGGCTTCACCACATATACATATCAC
1 CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
* * *
48569350 ACATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTTACATT
66 ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACATT
48569414 CNNNNNNNNN
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
158 119 1.00
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.34
Consensus pattern (158 bp):
CCACATATACACATCTCATACATATTTCACATTAGCCATTCGGCTTCACCACATATACACATCAC
ACACATATTTCACATTAGCCATTCGGCTTTACCACATATACACATCTCATACATATTTCACATTA
GCCATTCGGCTTTACCACATATACATAT
Found at i:48575707 original size:15 final size:15
Alignment explanation
Indices: 48575689--48575721 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
48575679 TTTTAACTTA
48575689 ATTAATTTTTCTGTG
1 ATTAATTTTTCTGTG
48575704 ATT-ATTTTTCTGTG
1 ATTAATTTTTCTGTG
48575718 ATTA
1 ATTA
48575722 TTTCCGGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 14 0.82
15 3 0.18
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (15 bp):
ATTAATTTTTCTGTG
Found at i:48575712 original size:14 final size:14
Alignment explanation
Indices: 48575693--48575724 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
48575683 AACTTAATTA
48575693 ATTTTTCTGTGATT
1 ATTTTTCTGTGATT
48575707 ATTTTTCTGTGATT
1 ATTTTTCTGTGATT
48575721 ATTT
1 ATTT
48575725 CCGGTGTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.16, C:0.06, G:0.12, T:0.66
Consensus pattern (14 bp):
ATTTTTCTGTGATT
Found at i:48580067 original size:19 final size:19
Alignment explanation
Indices: 48580043--48580079 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
48580033 ACTGAGAACT
48580043 TTAGAAAATTCTTCAACAC
1 TTAGAAAATTCTTCAACAC
*
48580062 TTAGAAAATTTTTCAACA
1 TTAGAAAATTCTTCAACA
48580080 AAACAGGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.35
Consensus pattern (19 bp):
TTAGAAAATTCTTCAACAC
Found at i:48584995 original size:27 final size:27
Alignment explanation
Indices: 48584965--48585142 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48584955 ATATTGAGTC
* * * *
48584965 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48584992 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48585019 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48585047 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48585074 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48585101 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48585128 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48585143 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48585104 original size:82 final size:81
Alignment explanation
Indices: 48584986--48585141 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48584976 TGCTATATAA
* *
48584986 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48585051 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48585068 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48585132 CACTTAGTGC
65 CACTTAGTGC
48585142 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48600979 original size:18 final size:18
Alignment explanation
Indices: 48600939--48600980 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
48600929 AGGCCAAGTT
48600939 TGGGCTATGTGGGCCATA
1 TGGGCTATGTGGGCCATA
*
48600957 CGGGC-ATGTGGGCCTATA
1 TGGGCTATGTGGGCC-ATA
48600975 TGGGCT
1 TGGGCT
48600981 CGCAATATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.14, C:0.19, G:0.40, T:0.26
Consensus pattern (18 bp):
TGGGCTATGTGGGCCATA
Found at i:48602901 original size:56 final size:55
Alignment explanation
Indices: 48602815--48602934 Score: 195
Period size: 56 Copynumber: 2.2 Consensus size: 55
48602805 AGTAAGACTA
* *
48602815 TGGCATCGATATGTGTTTTCGATATATGTGTTCGAGTAAGACCCTGTCTAGGACAG
1 TGGCATCGAGATGTGTTTCCGATATATGTGTTCGAGTAAGACCCTGTCTAGGA-AG
* *
48602871 TGGCATCGAGATGTGTTTCCGATATATGTGTTTGAGTAAGACCCTGTCTGGGAAG
1 TGGCATCGAGATGTGTTTCCGATATATGTGTTCGAGTAAGACCCTGTCTAGGAAG
48602926 TGGCATCGA
1 TGGCATCGA
48602935 TATATGATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 11 0.18
56 49 0.82
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (55 bp):
TGGCATCGAGATGTGTTTCCGATATATGTGTTCGAGTAAGACCCTGTCTAGGAAG
Found at i:48622139 original size:5 final size:5
Alignment explanation
Indices: 48622129--48622160 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
48622119 GTAGATGAAG
48622129 AGAAA AGAAA AGAAA AGAAA AGAAGA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAA-A AGAAA A
48622161 AATTGAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:48622147 original size:15 final size:16
Alignment explanation
Indices: 48622105--48622160 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 16
48622095 TATGGGGGAA
*
48622105 AAGAAGAAGAG-AAAG
1 AAGAAGAAAAGAAAAG
* * *
48622120 TAGATGAAGAGAAAAG
1 AAGAAGAAAAGAAAAG
48622136 AA-AAGAAAAGAAAAG
1 AAGAAGAAAAGAAAAG
48622151 AAGAAGAAAA
1 AAGAAGAAAA
48622161 AATTGAATCC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 22 0.65
16 12 0.35
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAGAAAAG
Found at i:48623146 original size:27 final size:25
Alignment explanation
Indices: 48623112--48623177 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
48623102 TATATTTTCC
*
48623112 TATCTAATAATAATAATTTTATAAATA
1 TATCTAATAATAA-AAATTTA-AAATA
*
48623139 TATCTAATCATAAAAATTTAAAATA
1 TATCTAATAATAAAAATTTAAAATA
*
48623164 T-CCGTAATAATAAA
1 TATC-TAATAATAAA
48623178 TACAGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.03
25 15 0.44
26 6 0.18
27 12 0.35
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (25 bp):
TATCTAATAATAAAAATTTAAAATA
Found at i:48627192 original size:55 final size:55
Alignment explanation
Indices: 48627096--48627222 Score: 148
Period size: 55 Copynumber: 2.3 Consensus size: 55
48627086 GTGCAAGCCT
* ** ** * *
48627096 CACGCCCATGTTAATTTAACAGGTTCGACCACGGGTGTTCCACACGGGCATGTCGA
1 CACGCCCGTGTTGTTTTAACAGGTTCGACCACAAGTCTTCCACACGAGCATGTC-A
* * *
48627152 -ACGCCCGTGTTGTTTTAACAGGTTCGCCCACAATTCTTCCACACGAGCGTGTCA
1 CACGCCCGTGTTGTTTTAACAGGTTCGACCACAAGTCTTCCACACGAGCATGTCA
48627206 CACGCCCGTGTTGTTTT
1 CACGCCCGTGTTGTTTT
48627223 GGCAAGCTCG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 1 0.02
55 59 0.98
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.28
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTAACAGGTTCGACCACAAGTCTTCCACACGAGCATGTCA
Found at i:48636438 original size:33 final size:33
Alignment explanation
Indices: 48636400--48636465 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
48636390 TGTGGAAGTG
* * * *
48636400 GGAAAGAGTGACTATAGACTTTGTTAGTGGGCT
1 GGAAAGAGTAACCATAGAATTTGTGAGTGGGCT
*
48636433 GGAAAGAGTAACCATGGAATTTGTGAGTGGGCT
1 GGAAAGAGTAACCATAGAATTTGTGAGTGGGCT
48636466 ACCCCTAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.27
Consensus pattern (33 bp):
GGAAAGAGTAACCATAGAATTTGTGAGTGGGCT
Found at i:48649281 original size:46 final size:45
Alignment explanation
Indices: 48649206--48649329 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 45
48649196 GATATTTGGG
48649206 CATCACAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATC-CAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
*
48649252 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCC-AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
** *
48649298 TGTCCAAGCTCGTTGAGTTGAGTTTGAGTTCA
1 CATCCAA-CTCGTTGAGTTGAGTCTGAGTTCA
48649330 TGAGATATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 3 0.04
46 68 0.96
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (45 bp):
CATCCAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:48652976 original size:33 final size:32
Alignment explanation
Indices: 48652896--48652959 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
48652886 TTTTGGACAG
* * * *
48652896 TAGCAGTGACGTGATTTTTAAAAATCACCAAA
1 TAGCAGTAAAGTGAATTTGAAAAATCACCAAA
48652928 TAGCAGTAAAGTGAATTTGAAAAATCACCAAA
1 TAGCAGTAAAGTGAATTTGAAAAATCACCAAA
48652960 CATAGTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.25
Consensus pattern (32 bp):
TAGCAGTAAAGTGAATTTGAAAAATCACCAAA
Found at i:48656056 original size:46 final size:46
Alignment explanation
Indices: 48656000--48656176 Score: 221
Period size: 46 Copynumber: 3.8 Consensus size: 46
48655990 GATATTTGGG
* *
48656000 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* *
48656046 CATCCGAACTCCTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
** * *
48656092 TGTCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * *
48656138 C-GCCTGAGCTCGTTGAGTTGAGTCTGACTTCTCTTATGG
1 CATCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48656177 GCGGGTTACA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 2 0.02
46 112 0.98
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:48657476 original size:106 final size:106
Alignment explanation
Indices: 48657282--48657492 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 106
48657272 GTAGATATAT
48657282 GAGTCTAGTTTCAGGAATAATTTATAGAATTGGATTTTGGGTTTTACGGAATTGGATTTCGGGTT
1 GAGTCTAGTTTCAGGAATAATTTATAGAATTGGATTTTGGGTTTTACGGAATTGGATTTCGGGTT
48657347 ATGTAACTCGAGATATGGATTTTTTAGCGACTGTGATGCAG
66 ATGTAACTCGAGATATGGATTTTTTAGCGACTGTGATGCAG
48657388 GAGTCTAGTTTCAGGAATAATTTATAGAATTGGATTTTGGGTTTTACGGAATTGGATTTC-GGTT
1 GAGTCTAGTTTCAGGAATAATTTATAGAATTGGATTTTGGGTTTTACGGAATTGGATTTCGGGTT
48657452 ATGTAACTCGAGATATGGATTTTTTAGCGACTGTGATGCAG
66 ATGTAACTCGAGATATGGATTTTTTAGCGACTGTGATGCAG
48657493 TTAGCCAGCT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 45 0.43
106 60 0.57
ACGTcount: A:0.26, C:0.09, G:0.27, T:0.39
Consensus pattern (106 bp):
GAGTCTAGTTTCAGGAATAATTTATAGAATTGGATTTTGGGTTTTACGGAATTGGATTTCGGGTT
ATGTAACTCGAGATATGGATTTTTTAGCGACTGTGATGCAG
Found at i:48659585 original size:116 final size:116
Alignment explanation
Indices: 48659381--48659615 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
48659371 TCTGATCGAA
48659381 ACTGACGGGCTCTGCATCTCTTCTATTTTTCCCTTTATCCTTCTCACGATTCTGGCGCTCTACAC
1 ACTGACGGGCTCTGCATCTCTTCTATTTTTCCCTTTATCCTTCTCACGATTCTGGCGCTCTACAC
48659446 GCTTTCCCTCCTTCGTAATCTTAGCTTTCTCAACTAACGCAATGAATTCTC
66 GCTTTCCCTCCTTCGTAATCTTAGCTTTCTCAACTAACGCAATGAATTCTC
*
48659497 ACTGACGGGCTCTGCATCTCTTCTATTTTTCCCTTTATCCTTCTCACGATTCTGGCGCTCTACGC
1 ACTGACGGGCTCTGCATCTCTTCTATTTTTCCCTTTATCCTTCTCACGATTCTGGCGCTCTACAC
48659562 GCTTTCCCTCCTTCGTAATCTTAGCTTTCTCAACTAACGCAATGAATTCTC
66 GCTTTCCCTCCTTCGTAATCTTAGCTTTCTCAACTAACGCAATGAATTCTC
48659613 ACT
1 ACT
48659616 CTCTCTGTGG
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.17, C:0.33, G:0.12, T:0.38
Consensus pattern (116 bp):
ACTGACGGGCTCTGCATCTCTTCTATTTTTCCCTTTATCCTTCTCACGATTCTGGCGCTCTACAC
GCTTTCCCTCCTTCGTAATCTTAGCTTTCTCAACTAACGCAATGAATTCTC
Found at i:48661555 original size:46 final size:45
Alignment explanation
Indices: 48661480--48661603 Score: 185
Period size: 46 Copynumber: 2.7 Consensus size: 45
48661470 GATATTTGGG
48661480 CATCACAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATC-CAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
*
48661526 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCC-AACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
** *
48661572 TGTCCAAGCTCGTTGAGTTGAGTTTGAGTTCA
1 CATCCAA-CTCGTTGAGTTGAGTCTGAGTTCA
48661604 TGAGATATAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
45 3 0.04
46 68 0.96
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.31
Consensus pattern (45 bp):
CATCCAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:48679233 original size:46 final size:45
Alignment explanation
Indices: 48679180--48679498 Score: 352
Period size: 46 Copynumber: 7.0 Consensus size: 45
48679170 TGCTTTCTGA
** * *
48679180 AATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACCTG
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** **
48679225 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
48679271 ACATGAAAAGAATAAGACCGTGGTTGAAAGATACCATGGCAACATG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** * **
48679317 ACGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTG
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* *
48679362 ACATGAAAAGAATAAGACCGTGGTTGAAAGATACCATGGCAACATG
1 A-ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
** *
48679408 ACGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
* ** * * *
48679453 -ATAGAAAATGAGTAAGACCACAGTTGAAAGACACTATGGCATCATG
1 AAT-G-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
48679499 TCAAAGATAA
Statistics
Matches: 232, Mismatches: 38, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
45 79 0.34
46 153 0.66
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.20
Consensus pattern (45 bp):
AATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:48679463 original size:137 final size:137
Alignment explanation
Indices: 48679191--48679493 Score: 401
Period size: 137 Copynumber: 2.2 Consensus size: 137
48679181 ATGAAATGTG
* * **
48679191 TAAGACCATGGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGA
** * * * *
48679256 TACCATGGCAATGTGACATGAAAAGAATAAGACCGTGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAAGA
*
48679321 GAATGAA
131 AAATGAA
* ** *
48679328 TAAGACCATGGTTGAAAGATACCATGGCAATGTGACATGAAAAGAATAAGACCGTGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGA
* *
48679393 TACCATGGCAACATGAC-GGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATAG
66 TACCATGGCAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGA-AG
*
48679457 AAAATGAG
130 AAAATGAA
** *
48679465 TAAGACCACAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGACACCATGGCA
48679494 TCATGTCAAA
Statistics
Matches: 143, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
136 40 0.28
137 103 0.72
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACCTGACATGAAAAGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAAGA
AAATGAA
Found at i:48679469 original size:91 final size:91
Alignment explanation
Indices: 48679191--48679498 Score: 429
Period size: 91 Copynumber: 3.4 Consensus size: 91
48679181 ATGAAATGTG
* ** * **
48679191 TAAGACCATGGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGACACCATGGCAACATGA-CGGGAATGAATAAGACCATGGTTGAAAGA
48679256 TACCATGGCAATGTGACATGAAAAGAA
65 TACCATGGCAATGTGACATGAAAAGAA
* *
48679283 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGACACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
48679348 ACCATGGCAATGTGACATGAAAAGAA
66 ACCATGGCAATGTGACATGAAAAGAA
* *
48679374 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
1 TAAGACCATGGTTGAAAGACACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
** * *
48679439 ACCATGGCAACATGATA-GAAAATGAG
66 ACCATGGCAATGTGACATGAAAA-GAA
** * *
48679465 TAAGACCACAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGACACCATGGCAACATG
48679499 TCAAAGATAA
Statistics
Matches: 197, Mismatches: 18, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
90 5 0.03
91 160 0.81
92 32 0.16
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.19
Consensus pattern (91 bp):
TAAGACCATGGTTGAAAGACACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAATGTGACATGAAAAGAA
Found at i:48679513 original size:91 final size:91
Alignment explanation
Indices: 48679191--48679448 Score: 435
Period size: 91 Copynumber: 2.8 Consensus size: 91
48679181 ATGAAATGTG
* * * ** * **
48679191 TAAGACCATGGTTGAAAGACACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCGTGGTTGAAAGATACCATGGCAACATGA-CGGGAATGAATAAGACCATGGTTGAAAGA
48679256 TACCATGGCAATGTGACATGAAAAGAA
65 TACCATGGCAATGTGACATGAAAAGAA
48679283 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
1 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
48679348 ACCATGGCAATGTGACATGAAAAGAA
66 ACCATGGCAATGTGACATGAAAAGAA
48679374 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
1 TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
48679439 ACCATGGCAA
66 ACCATGGCAA
48679449 CATGATAGAA
Statistics
Matches: 158, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
91 126 0.80
92 32 0.20
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (91 bp):
TAAGACCGTGGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGAT
ACCATGGCAATGTGACATGAAAAGAA
Found at i:48685092 original size:12 final size:12
Alignment explanation
Indices: 48685075--48685101 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48685065 TGATGCCGTT
48685075 TGTTTCTGGCCC
1 TGTTTCTGGCCC
48685087 TGTTTCTGGCCC
1 TGTTTCTGGCCC
48685099 TGT
1 TGT
48685102 CTCACGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.30, G:0.26, T:0.44
Consensus pattern (12 bp):
TGTTTCTGGCCC
Found at i:48686107 original size:39 final size:39
Alignment explanation
Indices: 48685990--48686251 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
48685980 GCTCCTCGTT
* *
48685990 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48686030 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
48686070 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
48686109 CAAATGCCTTCGGGCTTAGCCCAGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48686148 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
48686187 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
48686228 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
48686252 CAACATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:48686239 original size:117 final size:119
Alignment explanation
Indices: 48685990--48686248 Score: 327
Period size: 118 Copynumber: 2.2 Consensus size: 119
48685980 GCTCCTCGTT
* **
48685990 CAAATGCCTTCGGGACATAGCCC-GGTTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCAGAAT-TAGT-ATCTCGCACAAATGCCTTCGGGACTTAACCC
* *
48686053 GGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
64 GGAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
*
48686109 CAAATGCCTTCGGG-CTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
48686172 AATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TAGCA
48686228 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
48686249 GGACAACATT
Statistics
Matches: 124, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
117 46 0.37
118 53 0.43
119 25 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCAGAATTAGTATCTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCA
Found at i:48694257 original size:28 final size:28
Alignment explanation
Indices: 48694194--48694316 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
48694184 ATATTAAGTC
*
48694194 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
48694221 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
48694249 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
48694277 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
48694306 CGCACACTTAG
1 CGCACACTTAG
48694317 CGCCAATCTC
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.25
28 49 0.56
29 16 0.18
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:48696502 original size:46 final size:46
Alignment explanation
Indices: 48696449--48696539 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
48696439 TATATATACA
* * *
48696449 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
* * *
48696495 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATAT
48696540 ATACACATCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCGGCTTTACCACATATC
Found at i:48696580 original size:22 final size:22
Alignment explanation
Indices: 48696554--48696631 Score: 63
Period size: 22 Copynumber: 3.4 Consensus size: 22
48696544 ACATCCACGT
48696554 TTATCACATTGGCCATTCTGCC
1 TTATCACATTGGCCATTCTGCC
*
48696576 TTATCACATGTATG-CATGT-T-CAC
1 TTATCACAT-T-GGCCAT-TCTGC-C
*
48696599 ATTTATCACATTGGCCATTCGGCC
1 --TTATCACATTGGCCATTCTGCC
48696623 TTATCACAT
1 TTATCACAT
48696632 ATATGCATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 18
0.68 0.05 0.28
Matches are distributed among these distances:
22 19 0.43
23 8 0.18
24 7 0.16
25 10 0.23
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (22 bp):
TTATCACATTGGCCATTCTGCC
Found at i:48696584 original size:47 final size:47
Alignment explanation
Indices: 48696556--48696985 Score: 626
Period size: 47 Copynumber: 9.1 Consensus size: 47
48696546 ATCCACGTTT
* * *
48696556 ATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCACATTT
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
48696603 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTTATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * *
48696650 TTCACATTGGCCATTTGGCCTTATCACACATATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
48696697 ATCACATTGGCCATTCGGCCTTATCACATATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
*
48696744 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCATATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* *
48696791 ATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * *
48696838 ATCACATTGGCCATTCGGTCTTATCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * *
48696885 ATCACATTTGCCATTCGGCCTTAGCACACAAATGCATGTTCACATTC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
* * * * ** *
48696932 ATCACATTTGCCATTCGGCCTTAGCTCATATATACACATTCACATCC
1 ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
48696979 ATCACAT
1 ATCACAT
48696986 AAAATCCTAA
Statistics
Matches: 351, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 351 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
ATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTC
Found at i:48696724 original size:22 final size:22
Alignment explanation
Indices: 48696697--48696772 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
48696687 GTTCACATTC
48696697 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
48696719 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
48696743 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48696766 ATCACAT
1 ATCACAT
48696773 ATATGCATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48696937 original size:23 final size:23
Alignment explanation
Indices: 48696864--48696937 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
48696854 GGTCTTATCA
48696864 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
** * *
48696887 CACATTTGCCA--TTCGGCCTTAGCA-
1 CACAAATG-CATGTTC-ACATT--CAT
48696911 CACAAATGCATGTTCACATTCAT
1 CACAAATGCATGTTCACATTCAT
48696934 CACA
1 CACA
48696938 TTTGCCATTC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 15 0.42
24 11 0.31
25 5 0.14
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CACAAATGCATGTTCACATTCAT
Found at i:48704937 original size:13 final size:13
Alignment explanation
Indices: 48704919--48704943 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48704909 CTCGATAAGG
48704919 ACACGCCCGTGTA
1 ACACGCCCGTGTA
48704932 ACACGCCCGTGT
1 ACACGCCCGTGT
48704944 GCGATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:48708321 original size:109 final size:109
Alignment explanation
Indices: 48708188--48708407 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
48708178 CTAATATGGT
48708188 TTCCAAACTCATGAAAGATCAAGTTTCCATGGAATGTTTTTCTGAATATTGATAAGCATGTTGAT
1 TTCCAAACTCATGAAAGATCAAGTTTCCATGGAATGTTTTTCTGAATATTGATAAGCATGTTGAT
48708253 AATAATTTGAGTTTAATTAAAGTAATTGTCCTAGCTTATTTATA
66 AATAATTTGAGTTTAATTAAAGTAATTGTCCTAGCTTATTTATA
48708297 TTCCAAACTCATGAAAGATCAAGTTTCCATGGAATGTTTTTCTGAATATTGATAAGCATGTTGAT
1 TTCCAAACTCATGAAAGATCAAGTTTCCATGGAATGTTTTTCTGAATATTGATAAGCATGTTGAT
48708362 AATAATTTGAGTTTAATTAAAGTAATTGTCCTAGCTTATTTATA
66 AATAATTTGAGTTTAATTAAAGTAATTGTCCTAGCTTATTTATA
48708406 TT
1 TT
48708408 ATAATTGTTA
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.41
Consensus pattern (109 bp):
TTCCAAACTCATGAAAGATCAAGTTTCCATGGAATGTTTTTCTGAATATTGATAAGCATGTTGAT
AATAATTTGAGTTTAATTAAAGTAATTGTCCTAGCTTATTTATA
Found at i:48712019 original size:7 final size:7
Alignment explanation
Indices: 48711977--48712006 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
48711967 GCATGAGTGT
48711977 TGAGGGA
1 TGAGGGA
48711984 TGAGGGA
1 TGAGGGA
48711991 TGAGGGA
1 TGAGGGA
48711998 TGAGGGA
1 TGAGGGA
48712005 TG
1 TG
48712007 GTTGAAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.57, T:0.17
Consensus pattern (7 bp):
TGAGGGA
Found at i:48716379 original size:23 final size:23
Alignment explanation
Indices: 48716302--48716439 Score: 81
Period size: 23 Copynumber: 5.9 Consensus size: 23
48716292 TAAGCTGATG
*
48716302 AACAGTAAGCTC-TAATGAGCTGA
1 AACAGTAAGCTCAT-ACGAGCTGA
* *
48716325 AA-TGATAAGCT-TTATCGAGCTG-
1 AACAG-TAAGCTCATA-CGAGCTGA
*
48716347 AGCAGTAAGCTCATACGAGCTGA
1 AACAGTAAGCTCATACGAGCTGA
48716370 AACAGTAAGCTCCAATA--AGCTGAA
1 AACAGTAAGCT-C-ATACGAGCTG-A
* *
48716394 AACAGCAAGCTCTTACGAGCTGA
1 AACAGTAAGCTCATACGAGCTGA
**
48716417 TATATTGGTAAGCTCATACGAGC
1 -A-A-CAGTAAGCTCATACGAGC
48716440 AGTGGTCAAC
Statistics
Matches: 89, Mismatches: 12, Indels: 25
0.71 0.10 0.20
Matches are distributed among these distances:
22 18 0.20
23 35 0.39
24 18 0.20
25 4 0.04
26 14 0.16
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (23 bp):
AACAGTAAGCTCATACGAGCTGA
Found at i:48716414 original size:24 final size:24
Alignment explanation
Indices: 48716353--48716416 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
48716343 GCTGAGCAGT
*
48716353 AAGCTCATACGAGCTG-AAACAGT
1 AAGCTCATACGAGCTGAAAACAGC
48716376 AAGCTCCAATA--AGCTGAAAACAGC
1 AAGCT-C-ATACGAGCTGAAAACAGC
*
48716400 AAGCTCTTACGAGCTGA
1 AAGCTCATACGAGCTGA
48716417 TATATTGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.06
23 11 0.32
24 18 0.53
25 3 0.09
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (24 bp):
AAGCTCATACGAGCTGAAAACAGC
Found at i:48721662 original size:15 final size:15
Alignment explanation
Indices: 48721642--48721671 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
48721632 TAGAAAATAT
48721642 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
48721657 TTCCCAAAAAATTAC
1 TTCCCAAAAAATTAC
48721672 AATAGAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
TTCCCAAAAAATTAC
Found at i:48725536 original size:39 final size:39
Alignment explanation
Indices: 48725492--48725878 Score: 639
Period size: 39 Copynumber: 9.9 Consensus size: 39
48725482 GTGCTGAGAT
* *
48725492 TGTATCCGGGTTAGAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
48725531 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
** *
48725570 TGTATCCAAGCTAAAGTCCCCCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
48725609 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
** *
48725648 TGTATCCAAGCTAAAGTCCCCCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
48725687 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* ** *
48725726 TGGATCCAAGCTAAAGTCCCCCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
48725765 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
*
48725804 TGTACCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
* *
48725843 TGTGTCCGGGCTAAAGACCCGCAGGCTTCGTGCTGG
1 TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
48725879 TGCTGGTAAT
Statistics
Matches: 322, Mismatches: 26, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 322 1.00
ACGTcount: A:0.21, C:0.27, G:0.29, T:0.23
Consensus pattern (39 bp):
TGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAA
Found at i:48730578 original size:27 final size:27
Alignment explanation
Indices: 48730547--48730724 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48730537 TAAATTGTAC
48730547 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
48730574 TGCACTAAGTGTGCGAAATGACTATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48730600 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
48730628 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
48730656 AGCACAAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
48730683 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
48730710 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
48730725 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 107 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:48730666 original size:82 final size:81
Alignment explanation
Indices: 48730548--48730703 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48730538 AAATTGTACA
* * *
48730548 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACTATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGTA-GCACTAAGTG
48730612 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48730629 GCACTAAGTGTGCGAGTTTGACTATGTAGCACAAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGTAGCACTAAGTG
*
48730694 TGCGAGTTGA
65 TGCGAATTGA
48730704 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48730715 original size:82 final size:81
Alignment explanation
Indices: 48730544--48730724 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
48730534 GATTAAATTG
* * *
48730544 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGACTATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGATGCACTAA
48730609 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48730625 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACAAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGAT-GCACT
* **
48730689 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48730707 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
48730725 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACAAAGTGTGCGAAATGACTACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48730735 original size:27 final size:27
Alignment explanation
Indices: 48730682--48730735 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
48730672 TTTGATTACG
* * *
48730682 TAGCACTAAGTGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
* *
48730709 TAGCACTGAGTGTGCGGGCTCAATATA
1 TAGCACTAAGTGTGCGAGCTCAATATA
48730736 CATTCGTGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGAGCTCAATATA
Found at i:48738013 original size:92 final size:92
Alignment explanation
Indices: 48737856--48738038 Score: 348
Period size: 92 Copynumber: 2.0 Consensus size: 92
48737846 AACTTTTTTT
*
48737856 GTGTTACATTTTACCCACAACTTTATATAAGGGCACCTAGCCAGAACCCCTAACTCCTAAGTCCA
1 GTGTTACATTTTACCCACAAATTTATATAAGGGCACCTAGCCAGAACCCCTAACTCCTAAGTCCA
48737921 AAATTTAAAAATTCTACCGGGTTTTGA
66 AAATTTAAAAATTCTACCGGGTTTTGA
48737948 GTGTTACATTTTACCCACAAATTTATATAAGGGCACCTAGCCAGAACCCCTAACTCCTAAGTCCA
1 GTGTTACATTTTACCCACAAATTTATATAAGGGCACCTAGCCAGAACCCCTAACTCCTAAGTCCA
*
48738013 AAATTTAAAAATTCTATCGGGTTTTG
66 AAATTTAAAAATTCTACCGGGTTTTG
48738039 GCCAAGTCAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (92 bp):
GTGTTACATTTTACCCACAAATTTATATAAGGGCACCTAGCCAGAACCCCTAACTCCTAAGTCCA
AAATTTAAAAATTCTACCGGGTTTTGA
Found at i:48739793 original size:48 final size:48
Alignment explanation
Indices: 48739737--48740596 Score: 1693
Period size: 48 Copynumber: 17.9 Consensus size: 48
48739727 TACACACATC
* *
48739737 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48739785 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48739833 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48739881 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48739929 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48739977 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740025 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740073 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740121 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740169 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740217 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740265 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740313 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740361 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740409 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740457 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
48740505 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48740553 TACATATTTCACACTAGCCATTCGGCTTTACCACATATATATAT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATAT
48740597 TTATCTTGTA
Statistics
Matches: 809, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 809 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48744626 original size:40 final size:40
Alignment explanation
Indices: 48744578--48745663 Score: 1992
Period size: 40 Copynumber: 27.1 Consensus size: 40
48744568 CCAAATACAC
* * * *
48744578 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * *
48744618 AACACCAGCACGAATGCTCTTCGGGACTTAACTCTGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * * * * *
48744658 AACTCTAGAACGAATGCCCTTCGAGACTTAGCCCGGGTAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
48744698 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744738 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
48744778 ATCACTAGCACGAATGCTCTTCAGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744818 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744858 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744898 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744938 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48744978 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745018 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745058 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745098 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745138 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745178 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745218 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745258 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745298 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745338 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745378 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745418 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745458 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
48745498 ATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745538 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
**
48745578 ATCACTAGCACGAATGCTCTTCAAGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745618 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
48745658 ATCACT
1 ATCACT
48745664 CTCAATTCTC
Statistics
Matches: 1016, Mismatches: 30, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 1016 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:48746996 original size:37 final size:37
Alignment explanation
Indices: 48746943--48747045 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
48746933 TGAATAGGCC
*
48746943 CCACACGTAGTTATCGGGTCTTACCCAGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
* *
48746980 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
48747017 CCACACGTAGTCATCGGGTCTTACCCAGA
1 CCACACGTAGTCATCGGGTCTTACCCAGA
48747046 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCAGACAAAATCT
Found at i:48747244 original size:48 final size:48
Alignment explanation
Indices: 48747186--48747278 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
48747176 ATATACACAC
* *
48747186 ATCTCCTACATATTTCACATTAGCCATTCGGCTTTACCAAATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACAT
*
48747234 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATA
48747279 TAAATATTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAAATATACAT
Found at i:48759064 original size:46 final size:47
Alignment explanation
Indices: 48758937--48759065 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 47
48758927 TGGTTGAGTT
* * *
48758937 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGGCA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTTATGGATGCAAC-AGGCA
* *
48758983 TCCGAGCTCGTTGAGTTGAGTTCGAGTTAAC-TTATGGATGCGA-AGGC-
1 -CCGAGCTCGTTGAGTTGAGTCCGAGTT--CGTTATGGATGCAACAGGCA
48759030 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTTTATGG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCG-TTATGG
48759066 GCAGGTTACA
Statistics
Matches: 70, Mismatches: 6, Indels: 13
0.79 0.07 0.15
Matches are distributed among these distances:
44 1 0.01
46 32 0.46
47 25 0.36
48 6 0.09
49 1 0.01
50 5 0.07
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (47 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCGTTATGGATGCAACAGGCA
Found at i:48767351 original size:6 final size:6
Alignment explanation
Indices: 48767296--48767413 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
48767286 AAGAAATATT
* * * *
48767296 ATCAGA A-CTAGA ATCAAA ATTAGA ATCAG- ATTAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
48767344 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAAGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATC-AG-A
*
48767395 A-CAGA ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCAGA AT
48767414 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
5 9 0.11
6 64 0.75
7 9 0.11
8 3 0.04
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:48767369 original size:31 final size:30
Alignment explanation
Indices: 48767317--48767390 Score: 112
Period size: 31 Copynumber: 2.4 Consensus size: 30
48767307 AATCAAAATT
*
48767317 AGAATCAGATTAGAATCAGGTGACAGAATC
1 AGAATCAGATCAGAATCAGGTGACAGAATC
*
48767347 AGAATCAGAATCAGAATTAGGTGACAGAATC
1 AGAATCAG-ATCAGAATCAGGTGACAGAATC
48767378 AGAATCAGTATCA
1 AGAATCAG-ATCA
48767391 AGTAACAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 8 0.20
31 32 0.80
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.20
Consensus pattern (30 bp):
AGAATCAGATCAGAATCAGGTGACAGAATC
Found at i:48767374 original size:25 final size:25
Alignment explanation
Indices: 48767346--48767413 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
48767336 GTGACAGAAT
* * *
48767346 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAAGTAA
*
48767371 CAGAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAAGTAA
*
48767396 CAGAATCAGAATTAGAAT
1 CAGAATCAGAATCAGAAT
48767414 GTGAATGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAAGTAA
Found at i:48767567 original size:27 final size:26
Alignment explanation
Indices: 48767530--48767609 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
48767520 AGCATGGCTG
*
48767530 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
48767556 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
48767583 CCAGAATCAGATAATGTGGCAAAGCCA
1 CCAGAA-CAGATATTGTGACAGAGCCA
48767610 TTTAACAGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 42 0.88
ACGTcount: A:0.38, C:0.21, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:48767722 original size:22 final size:22
Alignment explanation
Indices: 48767697--48767759 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
48767687 CCACAATAAC
*
48767697 GGCACACAGCCATAATCAGGTT
1 GGCACAAAGCCATAATCAGGTT
*
48767719 GGCACAAAGCCAT-ATGTAGGTT
1 GGCACAAAGCCATAAT-CAGGTT
*
48767741 GGCGCAAAGCCATAATCAG
1 GGCACAAAGCCATAATCAG
48767760 AATAATTGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.17
Consensus pattern (22 bp):
GGCACAAAGCCATAATCAGGTT
Found at i:48768350 original size:27 final size:27
Alignment explanation
Indices: 48768290--48768351 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
48768280 TACCCCACAA
* *
48768290 GGGTATCTCGGTAATTCTAACCTATAG
1 GGGTATTTCAGTAATTCTAACCTATAG
*
48768317 GGGTATTTCAGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTAACCTATAG
48768344 GGGTATTT
1 GGGTATTT
48768352 TAATAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTAACCTATAG
Found at i:48768358 original size:27 final size:27
Alignment explanation
Indices: 48768301--48768359 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
48768291 GGTATCTCGG
*
48768301 TAATTCTAACCTATAGGGGTATTTCAG
1 TAATTCTAACCTATAGGGGTATTTCAA
* *
48768328 TAATTCTACCCTATAGGGGTATTTTAA
1 TAATTCTAACCTATAGGGGTATTTCAA
48768355 TAATT
1 TAATT
48768360 TTGTAAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (27 bp):
TAATTCTAACCTATAGGGGTATTTCAA
Found at i:48768428 original size:27 final size:27
Alignment explanation
Indices: 48768398--48768549 Score: 146
Period size: 27 Copynumber: 5.6 Consensus size: 27
48768388 TATAAATCAG
*
48768398 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
** *
48768425 GGGTATTTCAGTAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAGTCGA
*** * *
48768452 GGGTATTTCAATAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAGTCGA
* *
48768478 GGGGTATTTTGGTAATTTTACAA-ACTA
1 -GGGTATTTTGGTAATTTTACAAGTCGA
* * *
48768505 GGGGTATTTTGCTAATTTTTCTAGTCGA
1 -GGGTATTTTGGTAATTTTACAAGTCGA
48768533 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
48768550 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 2 0.02
27 99 0.96
28 2 0.02
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAGTCGA
Found at i:48768429 original size:81 final size:81
Alignment explanation
Indices: 48768344--48768500 Score: 181
Period size: 81 Copynumber: 1.9 Consensus size: 81
48768334 TACCCTATAG
* ** ** *
48768344 GGGTATTTTAATAATTTTGTAAATCGAGGGTAAAACGGTAA-TTCTATAAATCAGGGGTACTTTG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAATAATTTC-ACAAATCAGGGGTACTTTG
48768408 GTAATTTTACAAGTCGA
65 GTAATTTTACAAGTCGA
* ** *** *
48768425 GGGTATTTCAGTAATTTTACAGGTCGAGGGTATTTCAATAATTTCACAAATCAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAATAATTTCACAAATCAGGGGTACTTTGG
48768490 TAATTTTACAA
66 TAATTTTACAA
48768501 ACTAGGGGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
81 59 0.95
82 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.37
Consensus pattern (81 bp):
GGGTATTTCAATAATTTTACAAATCGAGGGTAAAACAATAATTTCACAAATCAGGGGTACTTTGG
TAATTTTACAAGTCGA
Found at i:48768549 original size:81 final size:81
Alignment explanation
Indices: 48768391--48768540 Score: 207
Period size: 81 Copynumber: 1.9 Consensus size: 81
48768381 GTAATTCTAT
* *
48768391 AAATCAGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
48768456 ATTTCAATAATTTCAC
66 ATTTCAATAATTTCAC
* * *
48768472 AAATCAGGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TGCTAATTTTTCTA-GTCGAG
1 AAATCAGGGGTACTTTGGTAATTTTAC-AACTAGAGGGTATTTCAG-TAATTTTAC-AGGTCGAG
48768534 GGTATTT
63 GGTATTT
48768541 TGGTAATTTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
80 1 0.02
81 55 0.90
82 5 0.08
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (81 bp):
AAATCAGGGGTACTTTGGTAATTTTACAACTAGAGGGTATTTCAGTAATTTTACAGGTCGAGGGT
ATTTCAATAATTTCAC
Found at i:48769630 original size:33 final size:33
Alignment explanation
Indices: 48769588--48769745 Score: 93
Period size: 33 Copynumber: 4.7 Consensus size: 33
48769578 GAATTGATGG
*
48769588 ATAAGACCATAATTGGGTTATGGCACTATGAAT
1 ATAAGACCATAATTGGGCTATGGCACTATGAAT
** * * * * *
48769621 ATAAGACCATGGTTGGACCATGGCAGTGTTTATAT
1 ATAAGACCATAATTGGGCTATGGCACT-ATGA-AT
* *** * *
48769656 GTAAGACCATAGCAGGGCTATGACACTCTG-AT
1 ATAAGACCATAATTGGGCTATGGCACTATGAAT
* * **
48769688 GATAAGACCATAACTGGGTTATGGCACTGCGAAT
1 -ATAAGACCATAATTGGGCTATGGCACTATGAAT
* * *
48769722 GTAAGACCATGATTGGGCCATGGC
1 ATAAGACCATAATTGGGCTATGGC
48769746 GATGCATGTG
Statistics
Matches: 91, Mismatches: 30, Indels: 8
0.71 0.23 0.06
Matches are distributed among these distances:
32 2 0.02
33 63 0.69
34 5 0.05
35 21 0.23
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (33 bp):
ATAAGACCATAATTGGGCTATGGCACTATGAAT
Found at i:48776239 original size:39 final size:39
Alignment explanation
Indices: 48776185--48776456 Score: 472
Period size: 39 Copynumber: 7.0 Consensus size: 39
48776175 AAGACACTGA
48776185 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
48776224 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
48776263 AAATATATCCGGGCTAAAGTCCCGCAGGTTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
48776302 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
48776341 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
48776380 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
48776419 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
48776457 ATAATATAAT
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 221 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:48776680 original size:12 final size:12
Alignment explanation
Indices: 48776663--48776689 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48776653 ATAAGTGTTA
48776663 TGACTATAAATG
1 TGACTATAAATG
48776675 TGACTATAAATG
1 TGACTATAAATG
48776687 TGA
1 TGA
48776690 TTGTGATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (12 bp):
TGACTATAAATG
Found at i:48786234 original size:18 final size:18
Alignment explanation
Indices: 48786176--48786234 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
48786166 TTTTTAAAAG
*
48786176 TTAACAATATTAAATTTT
1 TTAATAATATTAAATTTT
*
48786194 TTTATAATAGTTAAACTTCTT
1 TTAATAATA-TTAAA-TT-TT
48786215 TTAATAAT-TTAAATTATT
1 TTAATAATATTAAATT-TT
48786233 TT
1 TT
48786235 TAATTTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 13 0.38
19 10 0.29
20 2 0.06
21 9 0.26
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (18 bp):
TTAATAATATTAAATTTT
Found at i:48786252 original size:32 final size:31
Alignment explanation
Indices: 48786216--48786279 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
48786206 AAACTTCTTT
***
48786216 TAATAATTTAAATTATTTTTAATTTTTAAAAA
1 TAATAATTTAAATT-TTAAAAATTTTTAAAAA
* *
48786248 TAATACTTTGAATTTTAAAAATTTTTAAAAA
1 TAATAATTTAAATTTTAAAAATTTTTAAAAA
48786279 T
1 T
48786280 TAAATGTTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (31 bp):
TAATAATTTAAATTTTAAAAATTTTTAAAAA
Found at i:48788283 original size:40 final size:36
Alignment explanation
Indices: 48788239--48788324 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 36
48788229 TCATTTTGGA
*
48788239 CCTTAGCCCATCTCAGTACAGTATCAAATATACAGTAGGG
1 CCTTAGCCCATCT---TACAGTATCAAA-ACACAGTAGGG
* *
48788279 CCTTAGCCCA--TTACAGTATCAGAACACATTAGGG
1 CCTTAGCCCATCTTACAGTATCAAAACACAGTAGGG
48788313 CCTTAGCCCATC
1 CCTTAGCCCATC
48788325 ACAATATCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
34 19 0.46
35 11 0.27
38 1 0.02
40 10 0.24
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (36 bp):
CCTTAGCCCATCTTACAGTATCAAAACACAGTAGGG
Found at i:48788317 original size:34 final size:35
Alignment explanation
Indices: 48788255--48788333 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 35
48788245 CCCATCTCAG
*
48788255 TACAGTATCAAATATACAGTAGGGCCTTAGCCCAT
1 TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
* *
48788290 TACAGTATCAGA-ACACATTAGGGCCTTAGCCCAT
1 TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
* *
48788324 CACAATATCA
1 TACAGTATCA
48788334 TTAACATTCA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 28 0.72
35 11 0.28
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.24
Consensus pattern (35 bp):
TACAGTATCAAATACACAGTAGGGCCTTAGCCCAT
Found at i:48790381 original size:9 final size:8
Alignment explanation
Indices: 48790347--48790378 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
48790337 GTATATTCGT
48790347 TTGTAAAA
1 TTGTAAAA
48790355 TTGTAAAA
1 TTGTAAAA
48790363 TTGTAAAA
1 TTGTAAAA
48790371 TTGTAAAA
1 TTGTAAAA
48790379 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (8 bp):
TTGTAAAA
Found at i:48790386 original size:9 final size:9
Alignment explanation
Indices: 48790347--48790386 Score: 50
Period size: 8 Copynumber: 4.8 Consensus size: 9
48790337 GTATATTCGT
48790347 TTGT-AAAA
1 TTGTAAAAA
48790355 TTGT-AAAA
1 TTGTAAAAA
48790363 TTGT-AAAA
1 TTGTAAAAA
48790371 TTGTAAAAA
1 TTGTAAAAA
*
48790380 TTTTAAA
1 TTGTAAA
48790387 TAGACTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
8 20 0.67
9 10 0.33
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (9 bp):
TTGTAAAAA
Found at i:48793096 original size:33 final size:33
Alignment explanation
Indices: 48793059--48793123 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
48793049 ACAATAATGC
* * * *
48793059 AGATAAATTGCCAATATCTGCAAACAATCTACA
1 AGATAAACTACCAATATATGCAAACAAGCTACA
*
48793092 AGATAAACTACCAATATATGCAGACAAGCTAC
1 AGATAAACTACCAATATATGCAAACAAGCTAC
48793124 TAGTAACTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.46, C:0.22, G:0.11, T:0.22
Consensus pattern (33 bp):
AGATAAACTACCAATATATGCAAACAAGCTACA
Found at i:48794242 original size:20 final size:20
Alignment explanation
Indices: 48794208--48794245 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48794198 GACTAAACCG
**
48794208 AAAACTTAGGGAATTTTTAC
1 AAAACTTAGAAAATTTTTAC
48794228 AAAACTTAGAAAATTTTT
1 AAAACTTAGAAAATTTTT
48794246 GCTATGTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (20 bp):
AAAACTTAGAAAATTTTTAC
Found at i:48822295 original size:22 final size:22
Alignment explanation
Indices: 48822243--48822307 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
48822233 TTAAAGCCTT
* *
48822243 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
48822265 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
48822287 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
48822308 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:48822496 original size:27 final size:27
Alignment explanation
Indices: 48822466--48822567 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
48822456 ATTCTGTTAA
* *
48822466 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
48822493 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* *
48822520 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* * **
48822547 GTGACTCTATCACAATATCTG
1 GTGGCTATGCCACAATATCTG
48822568 ATAACTGAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.77
28 7 0.11
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:48822561 original size:54 final size:53
Alignment explanation
Indices: 48822466--48822567 Score: 132
Period size: 54 Copynumber: 1.9 Consensus size: 53
48822456 ATTCTGTTAA
* * * * *
48822466 GTGGCTTTGCCACATTATCTGTTTCTGGTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* *
48822520 GTGGCTCTGCCACAATATCTGTATCTGGTGACTCTATCACAATATCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTG
48822568 ATAACTGAGC
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 8 0.20
54 33 0.80
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:48822742 original size:6 final size:6
Alignment explanation
Indices: 48822727--48822823 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
48822717 ATTCTGTTAC
* * * *
48822727 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTAATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
48822776 CTGATT CTG-TCAC CTAATT CTGATT CTTATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
48822824 AATGTTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
5 4 0.06
6 58 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:48822750 original size:31 final size:31
Alignment explanation
Indices: 48822715--48822839 Score: 146
Period size: 31 Copynumber: 4.1 Consensus size: 31
48822705 TTCTAATTTT
*
48822715 TGATTCTGTTACCTGATACTGATTCTGATTT
1 TGATTCTGTTACCTGATACTGATTCTGATTC
*
48822746 TGATTCTGTTACCTGATACTAATTCTGATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * * *
48822777 TGATTCTGTCACCTAATTCTGATTCTTATTC
1 TGATTCTGTTACCTGATACTGATTCTGATTC
* * *
48822808 TGATTCTAGTT--CTGATAATGTTTCTTATTC
1 TGATTCT-GTTACCTGATACTGATTCTGATTC
48822838 TG
1 TG
48822840 GAATGGGTTA
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
30 17 0.21
31 62 0.77
32 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
TGATTCTGTTACCTGATACTGATTCTGATTC
Found at i:48827867 original size:27 final size:27
Alignment explanation
Indices: 48827825--48828022 Score: 145
Period size: 27 Copynumber: 7.3 Consensus size: 27
48827815 AGGTTATCGC
* * *
48827825 AATACCCCTGTAGGGTAGAATTACCGA
1 AATACCCCTATTGGGTAGAATTACCAA
*
48827852 AATACCCCTATTGGGTAGAATTACTAA
1 AATACCCCTATTGGGTAGAATTACCAA
* **
48827879 AATACCCCTATAGGGT-GAAATTACTGA
1 AATACCCCTATTGGGTAG-AATTACCAA
* *
48827906 AATACCCCTATAGGGTAGAATTATCAA
1 AATACCCCTATTGGGTAGAATTACCAA
* * *
48827933 AATACCCTTAGTT-TGTAAAATTACCAA
1 AATACCCCTA-TTGGGTAGAATTACCAA
* * * *
48827960 AATACCACTGGTT-TGT-GAAATTACCGA
1 AATACCCCT-ATTGGGTAG-AATTACCAA
* * *
48827987 AATACCCTCAATT-TGTAAAATTACCAA
1 AATACCC-CTATTGGGTAGAATTACCAA
48828014 AATACCCCT
1 AATACCCCT
48828023 GATTTACAAA
Statistics
Matches: 139, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.01
27 134 0.96
28 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (27 bp):
AATACCCCTATTGGGTAGAATTACCAA
Found at i:48827954 original size:54 final size:54
Alignment explanation
Indices: 48827825--48827965 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
48827815 AGGTTATCGC
* * *
48827825 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATTGGGTAGAATTACTAA
1 AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACTAA
* *
48827879 AATACCCCTATAGGGTGAAATTACTGAAATACCCCTATAGGGTAGAATTA-TCAA
1 AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACT-AA
* *
48827933 AATA-CCCT-TAGTTTGTAAAATTACCAAAATACC
1 AATACCCCTATAG--GGTAAAATTACCGAAATACC
48827966 ACTGGTTTGT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
52 3 0.04
53 5 0.07
54 67 0.89
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (54 bp):
AATACCCCTATAGGGTAAAATTACCGAAATACCCCTATAGGGTAGAATTACTAA
Found at i:48827978 original size:81 final size:81
Alignment explanation
Indices: 48827825--48828022 Score: 204
Period size: 81 Copynumber: 2.4 Consensus size: 81
48827815 AGGTTATCGC
* * * * *
48827825 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTATTGGGTAGAATTACTAAAATACCCCTAT
1 AATACCCCTATAGGGTAGAATTACCAAAATACCCCTATTGGGTAAAATTACCAAAATACCACTAT
*
48827890 AGGGTGAAATTACTGA
66 AGGGTGAAATTACCGA
* * *
48827906 AATACCCCTATAGGGTAGAATTATCAAAATACCCTTAGTT-TGTAAAATTACCAAAATACCACTG
1 AATACCCCTATAGGGTAGAATTACCAAAATACCCCTA-TTGGGTAAAATTACCAAAATACCACT-
* **
48827970 GT-TTGTGAAATTACCGA
64 ATAGGGTGAAATTACCGA
* ** *
48827987 AATACCCTCAAT-TTGTAAAATTACCAAAATACCCCT
1 AATACCC-CTATAGGGTAGAATTACCAAAATACCCCT
48828023 GATTTACAAA
Statistics
Matches: 96, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
81 90 0.94
82 6 0.06
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (81 bp):
AATACCCCTATAGGGTAGAATTACCAAAATACCCCTATTGGGTAAAATTACCAAAATACCACTAT
AGGGTGAAATTACCGA
Found at i:48827982 original size:54 final size:53
Alignment explanation
Indices: 48827924--48828125 Score: 190
Period size: 54 Copynumber: 3.7 Consensus size: 53
48827914 TATAGGGTAG
***
48827924 AATTATCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * * *
48827978 AATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTA-CAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
* * * *
48828032 AATTACAGAAATACCCTTGACTTTCTAAAAATTA-TAGAAATACCATTGGTTTACAA
1 AATTACA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAATACCACTGGTTTACAA
* * * *
48828088 AATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 AATTAC-AAAATACCCTTAGTTTGTAAAATTACCAAAA
48828126 CACCCTTGTA
Statistics
Matches: 118, Mismatches: 24, Indels: 12
0.77 0.16 0.08
Matches are distributed among these distances:
53 1 0.01
54 67 0.57
55 11 0.09
56 39 0.33
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (53 bp):
AATTACAAAATACCCTTAGTTTGTAAAATTACCAAAATACCACTGGTTTACAA
Found at i:48828027 original size:27 final size:26
Alignment explanation
Indices: 48827843--48828047 Score: 142
Period size: 27 Copynumber: 7.6 Consensus size: 26
48827833 TGTAGGGTAG
* * *
48827843 AATTACCGAAATACCCCTATTGGGTAG
1 AATTACCAAAATACCCCTATT-TGTAA
* ** *
48827870 AATTACTAAAATACCCCTATAGGGTGA
1 AATTACCAAAATACCCCTAT-TTGTAA
** ** *
48827897 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTAT-TTGTAA
* *
48827924 AATTATCAAAATACCCTTAGTTTGTAA
1 AATTACCAAAATACCCCTA-TTTGTAA
* * *
48827951 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCT-ATTTGTAA
* *
48827978 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCC-CTATTTGTAA
**
48828005 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCT-ATTTGTAA
48828032 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
48828048 TTGACTTTCT
Statistics
Matches: 143, Mismatches: 29, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
26 3 0.02
27 138 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCCTATTTGTAA
Found at i:48828098 original size:27 final size:27
Alignment explanation
Indices: 48827932--48828110 Score: 103
Period size: 27 Copynumber: 6.6 Consensus size: 27
48827922 AGAATTATCA
* ** **
48827932 AAATACCCTTAGTTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACTG
*** *
48827959 AAATACCAC-TGGTTTGTGAAATTACCG
1 AAATACC-CTTGGTTTACAAAATTACTG
*** ** **
48827986 AAATACCCTCAATTTGTAAAATTACCA
1 AAATACCCTTGGTTTACAAAATTACTG
* * *
48828013 AAATACCCCTGATTTACAAAATTACAG
1 AAATACCCTTGGTTTACAAAATTACTG
*
48828040 AAATACCCTTGACTTT-CTAAAAATTA-TAG
1 AAATACCCTTG-GTTTAC--AAAATTACT-G
*
48828069 AAATACCATTGGTTTACAAAATTACTG
1 AAATACCCTTGGTTTACAAAATTACTG
48828096 AAATACCCTTGGTTT
1 AAATACCCTTGGTTT
48828111 GTAGATTTAC
Statistics
Matches: 123, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
26 1 0.01
27 95 0.77
28 8 0.07
29 19 0.15
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGGTTTACAAAATTACTG
Found at i:48828228 original size:27 final size:27
Alignment explanation
Indices: 48828151--48828228 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
48828141 AAATGACTAA
* *
48828151 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
48828178 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
48828205 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
48828229 GAATATGCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:48828932 original size:9 final size:10
Alignment explanation
Indices: 48828920--48828976 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
48828910 TACGTGGGAT
48828920 ATGATAT-AC
1 ATGATATGAC
*
48828929 ATGAT-TGAT
1 ATGATATGAC
48828938 ATGATATGCAC
1 ATGATATG-AC
*
48828949 ATGATATG-T
1 ATGATATGAC
48828958 ATGATATGCAC
1 ATGATATG-AC
48828969 ATGATATG
1 ATGATATG
48828977 TATGAAATGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:48828952 original size:20 final size:20
Alignment explanation
Indices: 48828919--48828993 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
48828909 ATACGTGGGA
48828919 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
48828936 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
48828957 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
48828977 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
48828994 GTATTCATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:48828954 original size:11 final size:11
Alignment explanation
Indices: 48828938--48828993 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
48828928 CATGATTGAT
48828938 ATGATATGCAC
1 ATGATATGCAC
*
48828949 ATGATATG--T
1 ATGATATGCAC
48828958 ATGATATGCAC
1 ATGATATGCAC
*
48828969 ATGATATG--T
1 ATGATATGCAC
*
48828978 ATGAAATGCAC
1 ATGATATGCAC
48828989 ATGAT
1 ATGAT
48828994 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:48829072 original size:26 final size:26
Alignment explanation
Indices: 48829043--48829217 Score: 273
Period size: 26 Copynumber: 6.8 Consensus size: 26
48829033 GAGGAAGTGC
**
48829043 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
48829069 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
48829095 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
48829121 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
48829147 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
48829173 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
48829198 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48829218 ATTAAAGAGG
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.23
26 105 0.77
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:48829121 original size:52 final size:52
Alignment explanation
Indices: 48829043--48829217 Score: 327
Period size: 52 Copynumber: 3.4 Consensus size: 52
48829033 GAGGAAGTGC
48829043 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
48829095 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
48829147 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
48829198 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48829218 ATTAAAGAGG
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
50 9 0.07
51 25 0.21
52 87 0.72
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:48829421 original size:42 final size:42
Alignment explanation
Indices: 48829362--48829453 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
48829352 TAGTCTCCCC
* ** *
48829362 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
48829404 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
48829446 AAATGGGC
1 AAATGGGC
48829454 CTATGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:48829515 original size:31 final size:31
Alignment explanation
Indices: 48829477--48829586 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
48829467 CGTTTACAGT
* * *
48829477 AAAGGCTTCGACCCAATGATATGATTTATTA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
48829508 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
48829539 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
48829570 AAAGGCTTCGGTCCAGT
1 AAAGGCTTCGGCCCAGT
48829587 AACCGTTAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:48838254 original size:22 final size:22
Alignment explanation
Indices: 48838229--48838272 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48838219 TTTCTATGGA
48838229 TGATTCACCAAAAATATCTACT
1 TGATTCACCAAAAATATCTACT
48838251 TGATTCACCAAAAATATCTACT
1 TGATTCACCAAAAATATCTACT
48838273 AACTTTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.32
Consensus pattern (22 bp):
TGATTCACCAAAAATATCTACT
Done.